Kingdom phylum class order family genus species evidence PMID Bacteria Pseudomonadota Alphaproteobacteria Caulobacterales Caulobacteraceae Caulobacter Caulobacter sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces vinaceus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Granulibacter Granulibacter bethesdensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Xanthomonadales Xanthomonadaceae Stenotrophomonas Stenotrophomonas maltophilia Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia thailandensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Maricaulales Maricaulaceae Maricaulis Maricaulis maris Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Delftia Delftia acidovorans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Frankiales Frankiaceae Frankia Frankia alni Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia Paraburkholderia xenovorans Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Acidiphilium Acidiphilium cryptum Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Caulobacterales Caulobacteraceae Phenylobacterium Phenylobacterium zucineum Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces coelicolor 16S rRNA sequencing 37198490 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Escherichia Escherichia coli Experiment;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 18413765,37198490,38599211,36189892 Bacteria Pseudomonadota Alphaproteobacteria Caulobacterales Caulobacteraceae Caulobacter Caulobacter vibrioides 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Agrobacterium Agrobacterium fabrum Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Synechococcales Prochlorococcaceae Prochlorococcus Prochlorococcus marinus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Myxococcota Myxococcia Myxococcales Anaeromyxobacteraceae Anaeromyxobacter Anaeromyxobacter dehalogenans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Salinispora Salinispora arenicola Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Bacteroidaceae Bacteroides Bacteroides fragilis 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,28912244,38599211,36189892 Bacteria Pseudomonadota Betaproteobacteria Rhodocyclales Azonexaceae Dechloromonas Dechloromonas aromatica Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Methylobacteriaceae Methylobacterium Methylobacterium radiotolerans Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Sulfurimonadaceae Sulfurimonas Sulfurimonas denitrificans Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfuromonadia Desulfuromonadales Syntrophotaleaceae Syntrophotalea Syntrophotalea carbinolica 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio campbellii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Aeromonadales Aeromonadaceae Aeromonas Aeromonas salmonicida 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Cupriavidus Cupriavidus taiwanensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Phyllobacteriaceae Chelativorans Chelativorans sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Thermoanaerobacter Thermoanaerobacter sp 16S rRNA sequencing 37198490 Bacteria Chloroflexota Chloroflexia Chloroflexales Roseiflexaceae Roseiflexus Roseiflexus castenholzii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Phyllobacteriaceae Mesorhizobium Mesorhizobium japonicum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Cupriavidus Cupriavidus necator Kraken2 36189892 Bacteria Deinococcota Deinococci Deinococcales Deinococcaceae Deinococcus Deinococcus deserti 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus licheniformis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium ulcerans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Beutenbergiaceae Beutenbergia Beutenbergia cavernae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium tetani Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Sphaerotilaceae Rubrivivax Rubrivivax gelatinosus Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium botulinum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas putida 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycolicibacterium Mycolicibacterium gilvum Kraken2 36189892 Bacteria Verrucomicrobiota Opitutae Opitutales Opitutaceae Opitutus Opitutus terrae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Brucellaceae Brucella Brucella anthropi Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria gonorrhoeae Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Desulfitobacteriaceae Desulfitobacterium Desulfitobacterium hafniense 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Paracoccaceae Cereibacter Cereibacter sphaeroides 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Rhodopseudomonas Rhodopseudomonas palustris Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas aeruginosa 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Psychromonadaceae Psychromonas Psychromonas ingrahamii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Legionellales Legionellaceae Legionella Legionella pneumophila Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Rhodococcus Rhodococcus jostii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Cupriavidus Cupriavidus pinatubonensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Paracoccaceae Rhodobacter Rhodobacter capsulatus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Nitrobacter Nitrobacter winogradskyi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Haemophilus Haemophilus influenzae 16S rDNA sequencing;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 28912244,37198490,38599211,36189892 Bacteria Cyanobacteriota Cyanophyceae Synechococcales Synechococcaceae Synechococcus Synechococcus sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Rhodocyclales Zoogloeaceae Azoarcus Azoarcus sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Methylobacteriaceae Methylorubrum Methylorubrum populi Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces niveus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Propionibacteriales Nocardioidaceae Nocardioides Nocardioides sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Chromatiaceae Allochromatium Allochromatium vinosum Kraken2 36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Chlorobium Chlorobium limicola Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Bordetella Bordetella petrii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Xanthomonadales Xanthomonadaceae Xylella Xylella fastidiosa 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Rhizobium Rhizobium etli Kraken2 36189892 Bacteria Chloroflexota Chloroflexia Chloroflexales Chloroflexaceae Chloroflexus Chloroflexus aggregans Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Beijerinckiaceae Methylocella Methylocella silvestris Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Azospirillaceae Azospirillum Azospirillum brasilense Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Sinorhizobium Sinorhizobium fredii Kraken2 36189892 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Carboxydothermus Carboxydothermus hydrogenoformans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Nitrosomonadaceae Nitrosomonas Nitrosomonas europaea 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium efficiens Kraken2 36189892 Bacteria Myxococcota Myxococcia Myxococcales Anaeromyxobacteraceae Anaeromyxobacter Anaeromyxobacter sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Enterobacter Enterobacter sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus velezensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium tuberculosis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Yersinia Yersinia pestis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingopyxis Sphingopyxis alaskensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Actinoplanes Actinoplanes teichomyceticus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Microbacteriaceae Leifsonia Leifsonia xyli 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia mallei Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Ectothiorhodospiraceae Halorhodospira Halorhodospira halophila Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Rhodocyclales Rhodocyclaceae Aromatoleum Aromatoleum aromaticum Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Nitrosomonadaceae Nitrosospira Nitrosospira multiformis Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfovibrionaceae Nitratidesulfovibrio Desulfovibrio vulgaris 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium leprae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Bifidobacteriales Bifidobacteriaceae Bifidobacterium Bifidobacterium longum 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,28912244,38599211,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella amazonensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas fluorescens 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella frigidimarina 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Aquificota Aquificae Aquificales Aquificaceae Hydrogenobaculum Hydrogenobaculum sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Amycolatopsis Amycolatopsis orientalis Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Syntrophomonadaceae Syntrophomonas Syntrophomonas wolfei 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Chlorobium Chlorobium phaeobacteroides 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus pneumoniae 16S rDNA sequencing;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,37198490,38599211,36189892 Bacteria Spirochaetota Spirochaetia Brachyspirales Brachyspiraceae Brachyspira Brachyspira hyodysenteriae Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Paenarthrobacter Paenarthrobacter aurescens Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kineosporiales Kineosporiaceae Kineococcus Kineococcus radiotolerans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Symbiobacteriaceae Symbiobacterium Symbiobacterium thermophilum Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Sinorhizobium Rhizobium meliloti 16S rRNA sequencing 37198490 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Kocuria Kocuria rhizophila 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Planctomycetota Planctomycetia Pirellulales Pirellulaceae Rhodopirellula Rhodopirellula baltica Kraken2 36189892 Bacteria Myxococcota NA Polyangiales Polyangiaceae Sorangium Sorangium cellulosum Kraken2 36189892 Bacteria Thermotogota Thermotogae Thermotogales Thermotogaceae Thermotoga Thermotoga sp 16S rRNA sequencing 37198490 Bacteria Chloroflexota Dehalococcoidia Dehalococcoidales Dehalococcoidaceae Dehalococcoides Dehalococcoides mccartyi 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella baltica Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Legionellales Coxiellaceae Coxiella Coxiella burnetii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium avium 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Pectobacteriaceae Pectobacterium Pectobacterium atrosepticum Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Borreliaceae Borreliella Borreliella burgdorferi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Methylococcales Methylococcaceae Methylococcus Methylococcus capsulatus Kraken2 36189892 Bacteria Rhodothermota Rhodothermia Rhodothermales Salinibacteraceae Salinibacter Salinibacter ruber Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus xylosus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Geobacillus Geobacillus stearothermophilus 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Myxococcota Myxococcia Myxococcales Myxococcaceae Myxococcus Myxococcus xanthus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Actinobacillus Actinobacillus pleuropneumoniae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Borreliaceae Borrelia Borrelia hermsii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycolicibacterium Mycolicibacterium smegmatis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium urealyticum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Moritellaceae Moritella Moritella marina Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Microbacteriaceae Clavibacter Clavibacter michiganensis Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Leuconostoc Leuconostoc mesenteroides 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Lactococcus Lactococcus lactis 16S rDNA sequencing;16S rRNA sequencing;Kraken2 28912244,37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus equi 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Treponemataceae Treponema Treponema pallidum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas mendocina 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Actinomycetota Actinomycetes Frankiales Frankiaceae Frankia Frankia casuarinae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Magnetospirillaceae Paramagnetospirillum Magnetospirillum magneticum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Methylobacteriaceae Methylobacterium Methylobacterium sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Oscillospiraceae Acetivibrio Acetivibrio thermocellus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces glaucescens Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Nostocaceae Nostoc Nostoc punctiforme Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella woodyi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria NA NA Baumannia Baumannia cicadellinicola 16S rRNA sequencing 37198490 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus subtilis 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Chlorobaculum Chlorobaculum parvum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Buchnera Buchnera aphidicola 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus haemolyticus 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Brevibacillus Brevibacillus brevis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Pseudarthrobacter Pseudarthrobacter chlorophenolicus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio vulnificus Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter fetus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Erythrobacteraceae Erythrobacter Erythrobacter litoralis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Klebsiella Klebsiella pneumoniae 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,28912244,37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Brucellaceae Brucella Brucella suis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter baumannii 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium acetobutylicum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycolicibacterium Mycolicibacterium vanbaalenii Kraken2 36189892 Bacteria Bdellovibrionota Bdellovibrionia Bdellovibrionales Pseudobdellovibrionaceae Bdellovibrio Bdellovibrio bacteriovorus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces avermitilis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Elusimicrobiota Elusimicrobia Elusimicrobiales Elusimicrobiaceae Elusimicrobium Elusimicrobium minutum Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia lata Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces lividans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Chromatiaceae Nitrosococcus Nitrosococcus oceani Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Bordetella Bordetella pertussis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Tropherymataceae Tropheryma Tropheryma whipplei 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Rhodococcus Rhodococcus erythropolis 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Cyanobacteriota Cyanophyceae Synechococcales Merismopediaceae Synechocystis Synechocystis sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia cepacia Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella piezotolerans Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Rhodospirillaceae Magnetospirillum Magnetospirillum gryphiswaldense Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia vietnamiensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella sediminis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Ectothiorhodospiraceae Thioalkalivibrio Thioalkalivibrio sulfidiphilus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella tribocorum Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Actinosynnema Actinosynnema mirum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Cellvibrionales Cellvibrionaceae Cellvibrio Cellvibrio japonicus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Rhodospirillaceae Rhodospirillum Rhodospirillum rubrum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Ectothiorhodospiraceae Alkalilimnicola Alkalilimnicola ehrlichii Kraken2 36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Chlorobium Chlorobium chlorochromatii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Methylobacteriaceae Methylobacterium Methylobacterium nodulans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Rhodocyclales Zoogloeaceae Thauera Thauera aromatica Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Marinobacteraceae Marinobacter Marinobacter nauticus 16S rRNA sequencing 37198490 Bacteria Mycoplasmatota Mollicutes Mycoplasmatales Mycoplasmataceae Mycoplasma Mycoplasma capricolum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Oenococcus Oenococcus oeni Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Serratia Serratia odorifera Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Acidothermales Acidothermaceae Acidothermus Acidothermus cellulolyticus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia pseudomallei Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Verminephrobacter Verminephrobacter eiseniae Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Cupriavidus Cupriavidus metallidurans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Lachnoclostridium Lachnoclostridium phytofermentans Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactiplantibacillus Lactiplantibacillus plantarum Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Nostocaceae Trichormus Trichormus variabilis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Bacteroidaceae Phocaeicola Phocaeicola vulgatus Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Serratia Serratia proteamaculans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces fradiae Kraken2 36189892 Bacteria Thermodesulfobacteriota Syntrophia Syntrophales Syntrophaceae Syntrophus Syntrophus aciditrophicus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Paracoccaceae Paracoccus Paracoccus denitrificans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Klebsiella Klebsiella aerogenes Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Ralstonia Ralstonia pickettii Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Chromobacteriaceae Chromobacterium Chromobacterium violaceum Kraken2 36189892 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Caldanaerobacter Caldanaerobacter subterraneus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter concisus 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,33731925,28912244,37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Hafniaceae Edwardsiella Edwardsiella ictaluri Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Psychrobacter Psychrobacter sp Kraken2 36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Pelodictyon Pelodictyon phaeoclathratiforme Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lacticaseibacillus Lacticaseibacillus casei Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lacticaseibacillus Lacticaseibacillus paracasei Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Salmonella Salmonella typhimurium Experiment;Confirmed by the literature 18413765,20299242 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Anaplasma Anaplasma marginale 16S rRNA sequencing 37198490 Bacteria Pseudomonadota Gammaproteobacteria Thiotrichales Piscirickettsiaceae Hydrogenovibrio Hydrogenovibrio crunogenus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Thiobacillaceae Thiobacillus Thiobacillus denitrificans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella pealeana Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Nocardia Nocardia farcinica 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Azotobacter Azotobacter vinelandii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas oleovorans 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Novosphingobium Novosphingobium aromaticivorans 16S rDNA sequencing;16S rRNA sequencing;Kraken2 28912244,37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Polaromonas Polaromonas sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Oceanospirillales Oceanospirillaceae Marinomonas Marinomonas sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Saccharopolyspora Saccharopolyspora erythraea 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Proteus Proteus mirabilis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Rhodococcus Rhodococcus fascians 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Actinomycetota Actinomycetes Bifidobacteriales Bifidobacteriaceae Bifidobacterium Bifidobacterium adolescentis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Sanguibacteraceae Sanguibacter Sanguibacter keddieii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Brucellaceae Brucella Brucella abortus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces kanamyceticus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Xanthobacteraceae Azorhizobium Azorhizobium caulinodans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Oceanospirillales Hahellaceae Hahella Hahella chejuensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Acidobacteriota Terriglobia Terriglobales Acidobacteriaceae Acidobacterium Acidobacterium capsulatum Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus agalactiae 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Bordetella Bordetella avium Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus cereus 16S rDNA sequencing;16S rRNA sequencing;Kraken2 28912244,37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Blochmannia Blochmannia pennsylvanicus 16S rRNA sequencing 37198490 Bacteria Pseudomonadota Alphaproteobacteria Magnetococcales Magnetococcaceae Magnetococcus Magnetococcus marinus Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfuromonadia Desulfuromonadales Desulfuromonadaceae Pelobacter Pelobacter propionicus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Colwelliaceae Colwellia Colwellia psychrerythraea Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Ligilactobacillus Ligilactobacillus salivarius Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Agathobacter Agathobacter rectalis 16S rRNA sequencing 37198490 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Sphaerotilaceae Methylibium Methylibium petroleiphilum Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Bradyrhizobium Bradyrhizobium sp 16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 37198490,38599211,36189892 Bacteria Bacillota Clostridia Eubacteriales Eubacteriaceae Acetobacterium Acetobacterium woodii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Methylobacteriaceae Methylorubrum Methylorubrum extorquens Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia multivorans Kraken2 36189892 Bacteria Chlamydiota Chlamydiia Chlamydiales Chlamydiaceae Chlamydia Chlamydia trachomatis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Salinispora Salinispora tropica Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Bordetella Bordetella parapertussis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium kroppenstedtii 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus thuringiensis 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Citrobacter Citrobacter koseri 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Thermotogota Thermotogae Thermotogales Fervidobacteriaceae Thermosipho Thermosipho africanus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter baylyi 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Streptosporangiales Streptosporangiaceae Streptosporangium Streptosporangium roseum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Escherichia Escherichia fergusonii 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Oceanobacillus Oceanobacillus iheyensis Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Oxalobacteraceae Janthinobacterium Janthinobacterium sp Kraken2 36189892 Bacteria Bacillota Clostridia Caldicellulosiruptorales Caldicellulosiruptoraceae Caldicellulosiruptor Caldicellulosiruptor bescii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Streptosporangiales Nocardiopsaceae Thermobifida Thermobifida fusca Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Frankiales Frankiaceae Frankia Frankia sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia typhi Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Polaromonas Polaromonas naphthalenivorans Kraken2 36189892 Bacteria Acidobacteriota Terriglobia Bryobacterales Solibacteraceae Solibacter Solibacter usitatus 16S rRNA sequencing 37198490 Bacteria Thermotogota Thermotogae Thermotogales Thermotogaceae Thermotoga Thermotoga maritima Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus Limosilactobacillus reuteri Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces griseus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus helveticus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia rickettsii Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Flavobacterium Flavobacterium johnsoniae Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Helicobacteraceae Wolinella Wolinella succinogenes 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Thermodesulfobacteriota Desulfobacteria Desulfobacterales Desulfatibacillaceae Desulfatibacillum Desulfatibacillum aliphaticivorans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Aliivibrio Aliivibrio salmonicida Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Ruegeria Ruegeria pomeroyi Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus hirae 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Sinorhizobium Sinorhizobium medicae Kraken2 36189892 Bacteria Thermotogota Thermotogae Thermotogales Fervidobacteriaceae Fervidobacterium Fervidobacterium nodosum Kraken2 36189892 Bacteria Mycoplasmatota Mollicutes Entomoplasmatales Entomoplasmataceae Mesoplasma Mesoplasma florum Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus aureus 16S rDNA sequencing;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,33731925,37198490,38599211,36189892 Bacteria Mycoplasmatota Mollicutes Mycoplasmatales Mycoplasmataceae Mycoplasma Mycoplasma mycoides Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter jejuni 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus johnsonii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Porphyromonadaceae Porphyromonas Porphyromonas gingivalis 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Helicobacteraceae Helicobacter Helicobacter pylori 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Thermodesulfobacteriota Desulfuromonadia Geobacterales Geobacteraceae Geobacter Geobacter sulfurreducens Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium novyi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Photobacterium Photobacterium profundum Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Peptostreptococcaceae Clostridioides Clostridioides difficile 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Aquificota Aquificae Aquificales Aquificaceae Aquifex Aquifex aeolicus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Methylophilaceae Methylobacillus Methylobacillus flagellatus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Pseudoalteromonadaceae Pseudoalteromonas Pseudoalteromonas translucida 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Photobacterium Photobacterium phosphoreum 16S rDNA sequencing 28912244 Bacteria Thermodesulfobacteriota Desulfuromonadia Geobacterales Geobacteraceae Geobacter Geobacter sp Kraken2 36189892 Bacteria Aquificota Aquificae Aquificales Hydrogenothermaceae Persephonella Persephonella marina Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingobium Sphingobium sp Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Acaryochloridales Thermosynechococcaceae Thermosynechococcus Thermosynechococcus vestitus 16S rRNA sequencing 37198490 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium diphtheriae Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Roseobacter Roseobacter denitrificans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Polynucleobacter Polynucleobacter necessarius Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Rhodospirillaceae Rhodospirillum Rhodospirillum centenum Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Bacteroidaceae Bacteroides Bacteroides ovatus 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,33731925,37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Gordoniaceae Gordonia Gordonia sp Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Planococcaceae Sporosarcina Sporosarcina pasteurii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium glutamicum Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia bellii Kraken2 36189892 Bacteria Deinococcota Deinococci Thermales Thermaceae Thermus Thermus thermophilus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Arthrobacter Arthrobacter sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas protegens 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Renibacterium Renibacterium salmoninarum Kraken2 36189892 Bacteria Bacillota Clostridia Moorellales Moorellaceae Moorella Moorella thermoacetica 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Oceanospirillales Halomonadaceae Chromohalobacter Chromohalobacter salexigens 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Pediococcus Pediococcus pentosaceus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Deinococcota Deinococci Thermales Thermaceae Thermus Thermus aquaticus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Ruegeria Ruegeria sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Jannaschia Jannaschia sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Komagataeibacter Komagataeibacter xylinus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus suis Kraken2 36189892 Bacteria Chloroflexota Chloroflexia Chloroflexales Chloroflexaceae Chloroflexus Chloroflexus aurantiacus 16S rRNA sequencing 37198490 Bacteria Deinococcota Deinococci Deinococcales Deinococcaceae Deinococcus Deinococcus radiodurans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas entomophila Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacteroides Mycobacteroides abscessus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Micrococcus Micrococcus luteus 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Alteromonadaceae Alteromonas Alteromonas mediterranea 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus faecalis 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus anthracis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Weeksellaceae Elizabethkingia Elizabethkingia miricola Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Pasteurella Pasteurella multocida 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus mycoides 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Bacteroidaceae Bacteroides Bacteroides thetaiotaomicron 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,38599211,36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfovibrionaceae Lawsonia Lawsonia intracellularis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Pectobacteriaceae Pectobacterium Pectobacterium carotovorum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus sp Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Fusobacteriaceae Fusobacterium Fusobacterium nucleatum 16S rDNA sequencing;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,33731925,28912244,38599211,36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio anguillarum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella loihica 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella halifaxensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Erwinia Erwinia tasmaniensis Kraken2 36189892 Bacteria Coprothermobacterota Coprothermobacteria Coprothermobacterales Coprothermobacteraceae Coprothermobacter Coprothermobacter proteolyticus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella denitrificans Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Lysinibacillus Lysinibacillus sphaericus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Nitrosomonadaceae Nitrosomonas Nitrosomonas eutropha Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Acidovorax Acidovorax sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Beijerinckiaceae Beijerinckia Beijerinckia indica Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Bradyrhizobium Bradyrhizobium diazoefficiens Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Intrasporangiaceae Intrasporangium Intrasporangium calvum Kraken2 36189892 Bacteria Mycoplasmatota Mollicutes Acholeplasmatales Acholeplasmataceae Phytoplasma Aster yellows witches'-broom phytoplasma Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Nautiliales Nitratiruptoraceae Nitratiruptor Nitratiruptor sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Shigella Shigella sonnei Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Gluconobacter Gluconobacter oxydans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Photorhabdus Photorhabdus laumondii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Cyanobacteriota Cyanophyceae Gomontiellales Cyanothecaceae Cyanothece Cyanothece sp Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus delbrueckii 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter hominis Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Chroococcales Aphanothecaceae Crocosphaera Crocosphaera subtropica 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Cronobacter Cronobacter sakazakii Kraken2 36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Prosthecochloris Prosthecochloris aestuarii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Xanthomonadales Xanthomonadaceae Lysobacter Lysobacter enzymogenes Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Afipia Afipia carboxidovorans Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus acidophilus 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Gammaproteobacteria Cardiobacteriales Cardiobacteriaceae Dichelobacter Dichelobacter nodosus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Variovorax Variovorax paradoxus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Pectobacteriaceae Dickeya Dickeya dadantii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Propionibacteriales Propionibacteriaceae Cutibacterium Cutibacterium acnes Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Treponemataceae Treponema Treponema denticola Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium marinum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Zymomonadaceae Zymomonas Zymomonas mobilis Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus atrophaeus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Geobacillus Geobacillus kaustophilus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Deinococcota Deinococci Deinococcales Deinococcaceae Deinococcus Deinococcus geothermalis Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Geobacillus Geobacillus thermodenitrificans Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales NA Exiguobacterium Exiguobacterium sibiricum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Micromonospora Micromonospora viridifaciens Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Sphaerotilaceae Leptothrix Leptothrix cholodnii Kraken2 36189892 Bacteria Verrucomicrobiota Verrucomicrobiae Verrucomicrobiales Akkermansiaceae Akkermansia Akkermansia muciniphila 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacteroidota Cytophagia Cytophagales Spirosomataceae Leadbetterella Leadbetterella byssophila Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Helicobacteraceae Helicobacter Helicobacter hepaticus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Thiotrichales Francisellaceae Francisella Francisella tularensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia Paraburkholderia phymatum Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Alkaliphilus Alkaliphilus oremlandii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Psychrobacter Psychrobacter arcticus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Alteromonadaceae Paraglaciecola Pseudoalteromonas atlantica Kraken2 36189892 Bacteria Actinomycetota Thermoleophilia Solirubrobacterales Conexibacteraceae Conexibacter Conexibacter woesei Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Bradyrhizobium Bradyrhizobium elkanii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Segniliparaceae Segniliparus Segniliparus rotundus Kraken2 36189892 Bacteria Chlamydiota Chlamydiia Chlamydiales Chlamydiaceae Chlamydia Chlamydia pneumoniae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfomicrobiaceae Desulfomicrobium Desulfomicrobium baculatum Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus thermophilus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Nitrobacter Nitrobacter hamburgensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Shinella Shinella sp Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Fusobacteriaceae Fusobacterium Fusobacterium mortiferum Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Polynucleobacter Polynucleobacter asymbioticus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Enterobacter Enterobacter cloacae 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Flavobacterium Flavobacterium psychrophilum Kraken2 36189892 Bacteria Actinomycetota Rubrobacteria Rubrobacterales Rubrobacteraceae Rubrobacter Rubrobacter xylanophilus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus epidermidis 16S rDNA sequencing;16S rRNA sequencing;Kraken2 28912244,37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium sp Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus saprophyticus 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Actinomycetota Actinomycetes Bifidobacteriales Bifidobacteriaceae Bifidobacterium Bifidobacterium animalis 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,28912244,37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus gordonii 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,33731925,28912244,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella henselae Kraken2 36189892 Bacteria Dictyoglomota Dictyoglomia Dictyoglomales Dictyoglomaceae Dictyoglomus Dictyoglomus thermophilum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Cyanobacteriota Cyanophyceae Synechococcales Prochlorococcaceae Parasynechococcus Parasynechococcus marenigrum 16S rRNA sequencing 37198490 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus cytotoxicus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Aliivibrio Aliivibrio fischeri Kraken2 36189892 Bacteria Mycoplasmatota NA Mycoplasmoidales Mycoplasmoidaceae Mycoplasmoides Mycoplasma pneumoniae Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfovibrionaceae Desulfovibrio Desulfovibrio desulfuricans Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Chroococcales Aphanothecaceae Rippkaea Rippkaea orientalis Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Oscillospiraceae Ruminiclostridium Ruminiclostridium cellulolyticum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Klebsiella Klebsiella oxytoca 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,33731925,28912244,36189892 Bacteria Bacillota Bacilli Bacillales NA Exiguobacterium Exiguobacterium sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Zunongwangia Zunongwangia profunda Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Gluconacetobacter Gluconacetobacter diazotrophicus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus sanguinis 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 28912244,38599211,36189892 Bacteria Cyanobacteriota Cyanophyceae Gloeobacterales Gloeobacteraceae Gloeobacter Gloeobacter violaceus Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Peptostreptococcaceae Peptoclostridium Peptoclostridium acidaminophilum Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Oscillatoriales Microcoleaceae Trichodesmium Trichodesmium erythraeum Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Sinorhizobium Sinorhizobium sp Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Aquaspirillaceae Laribacter Laribacter hongkongensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Mycoplasmatota NA Mycoplasmoidales Mycoplasmoidaceae Mycoplasmoides Mycoplasma genitalium 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio alginolyticus Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Chroococcales Aphanothecaceae Gloeothece Gloeothece citriformis Kraken2 36189892 Bacteria Bacillota Clostridia Halanaerobiales Halothermotrichaceae Halothermothrix Halothermothrix orenii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Brevibacillus Brevibacillus parabrevis 16S rRNA sequencing 37198490 Bacteria Thermotogota Thermotogae Kosmotogales Kosmotogaceae Kosmotoga Kosmotoga olearia Kraken2 36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chlorobiaceae Chlorobaculum Chlorobaculum tepidum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria NA NA Candidatus Vesicomyosocius Vesicomyosocius okutanii 16S rRNA sequencing 37198490 Bacteria Thermodesulfobacteriota Desulfobulbia Desulfobulbales Desulfocapsaceae Desulfotalea Desulfotalea psychrophila 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Ralstonia Ralstonia solanacearum Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Alkaliphilus Alkaliphilus metalliredigens 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella bacilliformis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio atlanticus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Aeromonadales Aeromonadaceae Aeromonas Aeromonas hydrophila 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,28912244,37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Ehrlichia Ehrlichia chaffeensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Thermodesulfobacteriota Desulfuromonadia Geobacterales Geobacteraceae Geobacter Geobacter metallireducens Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus Limosilactobacillus fermentum Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria lactamica Kraken2 36189892 Bacteria Thermotogota Thermotogae Thermotogales Fervidobacteriaceae Thermosipho Thermosipho melanesiensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces cacaoi Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium jeikeium 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter sp 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Macrococcus Macrococcus caseolyticus Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Acaryochloridales Acaryochloridaceae Acaryochloris Acaryochloris marina Kraken2 36189892 Bacteria Thermodesulfobacteriota Syntrophobacteria Syntrophobacterales Syntrophobacteraceae Syntrophobacter Syntrophobacter fumaroxidans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia felis 16S rDNA sequencing 32467386 Bacteria Bacillota Bacilli Lactobacillales Carnobacteriaceae Carnobacterium Carnobacterium maltaromaticum Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Actinoplanes Actinoplanes sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Parvibaculaceae Parvibaculum Parvibaculum lavamentivorans Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Roseovarius Roseovarius sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Orientia Orientia tsutsugamushi 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Cyanobacteriota Cyanophyceae Synechococcales Synechococcaceae Synechococcus Synechococcus elongatus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Levilactobacillus Levilactobacillus brevis Kraken2 36189892 Bacteria Bacillota Clostridia Natranaerobiales Natranaerobiaceae Natranaerobius Natranaerobius thermophilus Kraken2 36189892 Bacteria Myxococcota NA Polyangiales Polyangiaceae Chondromyces Chondromyces crocatus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces olivaceus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces scabiei 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Chloroflexota Chloroflexia Chloroflexales Roseiflexaceae Roseiflexus Roseiflexus sp Kraken2 36189892 Bacteria Thermomicrobiota Thermomicrobia Thermomicrobiales Thermomicrobiaceae Thermomicrobium Thermomicrobium roseum Kraken2 36189892 Bacteria Actinomycetota Acidimicrobiia Acidimicrobiales Acidimicrobiaceae Acidimicrobium Acidimicrobium ferrooxidans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycolicibacterium Mycolicibacterium fortuitum Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Bordetella Bordetella bronchiseptica Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia prowazekii Kraken2 36189892 Bacteria Bacteroidota Cytophagia Cytophagales Cytophagaceae Cytophaga Cytophaga hutchinsonii 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Cellvibrionales Cellvibrionaceae Saccharophagus Saccharophagus degradans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium kluyveri 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Peptostreptococcaceae Acetoanaerobium Acetoanaerobium sticklandii Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus uberis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Yersinia Yersinia enterocolitica Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella quintana Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Serratia Serratia marcescens 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus pumilus 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Nostocaceae Nostoc Nostoc sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Ehrlichia Ehrlichia ruminantium 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Arcobacteraceae Aliarcobacter Aliarcobacter butzleri 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Xenorhabdus Xenorhabdus nematophila Kraken2 36189892 Bacteria Chlorobiota Chlorobiia Chlorobiales Chloroherpetonaceae Chloroherpeton Chloroherpeton thalassium 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas sp Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Tannerellaceae Parabacteroides Parabacteroides distasonis 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,38599211,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Pantoea Pantoea stewartii Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfovibrionaceae Bilophila Bilophila wadsworthia 16S rDNA sequencing 32467386,28912244 Bacteria Pseudomonadota Acidithiobacillia Acidithiobacillales Acidithiobacillaceae Acidithiobacillus Acidithiobacillus ferrooxidans 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Leuconostoc Leuconostoc citreum 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,28912244,37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium perfringens 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Thiotrichales Francisellaceae Francisella Francisella philomiragia Kraken2 36189892 Bacteria Dictyoglomota Dictyoglomia Dictyoglomales Dictyoglomaceae Dictyoglomus Dictyoglomus turgidum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella oneidensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Hyphomicrobiaceae Hyphomicrobium Hyphomicrobium sp Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Borreliaceae Borrelia Borrelia recurrentis Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus gasseri 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,28912244,38599211,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Wolbachia Wolbachia pipientis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Ehrlichia Ehrlichia canis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Aeromonadales Aeromonadaceae Tolumonas Tolumonas auensis Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Latilactobacillus Latilactobacillus sakei Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Pseudoalteromonadaceae Pseudoalteromonas Pseudoalteromonas piscicida Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Catenulisporales Catenulisporaceae Catenulispora Catenulispora acidiphila Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Aggregatibacter Aggregatibacter actinomycetemcomitans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio harveyi Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Anoxybacillus Anoxybacillus flavithermus 16S rDNA sequencing;16S rRNA sequencing;Kraken2 28912244,37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium xenopi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Oceanospirillales Oceanospirillaceae Marinomonas Marinomonas mediterranea Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Bifidobacteriales Bifidobacteriaceae Bifidobacterium Bifidobacterium breve 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfovibrionaceae Maridesulfovibrio Maridesulfovibrio salexigens 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bdellovibrionota Bacteriovoracia Bacteriovoracales Halobacteriovoraceae Halobacteriovorax Halobacteriovorax marinus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Comamonas Comamonas testosteroni Kraken2 36189892 Bacteria Chlamydiota Chlamydiia Chlamydiales Chlamydiaceae Chlamydia Chlamydia felis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Neorickettsia Neorickettsia sennetsu Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter curvus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Gordoniaceae Gordonia Gordonia bronchialis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Brucellaceae Brucella Brucella canis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Rhodococcus Rhodococcus rhodochrous Kraken2 36189892 Bacteria Rhodothermota Rhodothermia Rhodothermales Rhodothermaceae Rhodothermus Rhodothermus marinus Kraken2 36189892 Bacteria Actinomycetota Coriobacteriia Eggerthellales Eggerthellaceae Eggerthella Eggerthella lenta 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria meningitidis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Tissierellia Tissierellales Peptoniphilaceae Finegoldia Finegoldia magna 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Heliobacteriaceae Heliomicrobium Heliobacterium modesticaldum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Aggregatibacter Aggregatibacter aphrophilus Kraken2 36189892 Bacteria Aquificota Aquificae Aquificales Hydrogenothermaceae Sulfurihydrogenibium Sulfurihydrogenibium sp Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Chroococcales Microcystaceae Microcystis Microcystis aeruginosa Kraken2 36189892 Bacteria Mycoplasmatota Mollicutes Acholeplasmatales Acholeplasmataceae Acholeplasma Acholeplasma laidlawii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Serratia Serratia sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces roseochromogenus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Promicromonosporaceae Xylanimonas Xylanimonas cellulosilytica Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Flavobacterium Flavobacterium sp Kraken2 36189892 Bacteria Thermotogota Thermotogae Thermotogales Thermotogaceae Pseudothermotoga Pseudothermotoga lettingae Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces anulatus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia canadensis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter genomosp 16S rDNA sequencing 28912244 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Agrobacterium Agrobacterium vitis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter calcoaceticus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Agrobacterium Rhizobium radiobacter 16S rRNA sequencing 37198490 Bacteria Bacteroidota Bacteroidia Bacteroidales Porphyromonadaceae Porphyromonas Porphyromonas endodontalis Kraken2;PathSeq;metagenomic assembly-based approach 38599211 Bacteria Pseudomonadota Gammaproteobacteria Cellvibrionales Cellvibrionaceae Teredinibacter Teredinibacter turnerae Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Chroococcales Geminocystaceae Geminocystis Geminocystis herdmanii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Kitasatospora Kitasatospora setae Kraken2 36189892 Bacteria Thermotogota Thermotogae Petrotogales Petrotogaceae Petrotoga Petrotoga mobilis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces mobaraensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Pseudescherichia Pseudescherichia vulneris Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia Paraburkholderia phytofirmans Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Geobacillus Geobacillus sp 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium pasteurianum Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus carnosus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Actinobacillus Actinobacillus succinogenes Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces platensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Promicromonosporaceae Cellulosimicrobium Cellulosimicrobium cellulans Kraken2 36189892 Bacteria Myxococcota Myxococcia Myxococcales Archangiaceae Stigmatella Stigmatella aurantiaca 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia cenocepacia 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Rhodococcus Rhodococcus opacus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Blastochloridaceae Blastochloris Blastochloris viridis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Dinoroseobacter Dinoroseobacter shibae 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Chlamydiota Chlamydiia Chlamydiales Chlamydiaceae Chlamydia Chlamydia abortus Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Enterocloster Enterocloster bolteae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Moraxella Moraxella catarrhalis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Cellulomonadaceae Cellulomonas Cellulomonas fimi Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces exfoliatus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces clavuligerus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Psychrobacter Psychrobacter cryohalolentis 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Rivulariaceae Microchaete Microchaete diplosiphon Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Histophilus Histophilus somni Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Erwinia Erwinia amylovora Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter lari 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas plecoglossicida 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces sp Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces peucetius Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus sp Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Priestia Priestia megaterium Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium aurimucosum 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Pectobacteriaceae Dickeya Dickeya chrysanthemi Kraken2 36189892 Bacteria Fibrobacterota Fibrobacteria Fibrobacterales Fibrobacteraceae Fibrobacter Fibrobacter succinogenes Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces lavendulae Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Acetobacter Acetobacter pasteurianus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Ectothiorhodospiraceae Thioalkalivibrio Thioalkalivibrio sp Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia Paraburkholderia graminis Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Lachnospira Lachnospira eligens Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Citrobacter Citrobacter freundii 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Gluconacetobacter Gluconacetobacter liquefaciens 16S rDNA sequencing 32467386 Bacteria Mycoplasmatota Mollicutes Entomoplasmatales Spiroplasmataceae Spiroplasma Spiroplasma citri Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces alboniger Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Proteus Proteus sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycolicibacterium Mycolicibacterium thermoresistibile Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium beijerinckii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas syringae 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces venezuelae Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces lincolnensis Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Amycolatopsis Amycolatopsis mediterranei Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio cholerae Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Caulobacterales Caulobacteraceae Caulobacter Caulobacter segnis 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Raoultella Raoultella terrigena Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Nautiliales Nautiliaceae Nautilia Nautilia profundicola Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Enterobacter Enterobacter asburiae 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Clostridia Halanaerobiales Halobacteroidaceae Acetohalobium Acetohalobium arabaticum Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Alicyclobacillaceae Alicyclobacillus Alicyclobacillus acidocaldarius Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces viridosporus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus polymyxa Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces viridifaciens Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Thiotrichales Piscirickettsiaceae Hydrogenovibrio Hydrogenovibrio marinus Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Sulfurovaceae Sulfurovum Sulfurovum sp Kraken2 36189892 Bacteria Synergistota Synergistia Synergistales Synergistaceae Thermanaerovibrio Thermanaerovibrio acidaminovorans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio parahaemolyticus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Proteus Proteus hauseri Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Cellulomonadaceae Cellulomonas Cellulomonas flavigena Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Shigella Shigella flexneri Experiment;16S rRNA sequencing;Kraken2 18413765,37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia ambifaria Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Serratia Serratia liquefaciens Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia akari 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Diaphorobacter Acidovorax ebreus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus gallinarum 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Kingella Kingella kingae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas knackmussii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces ambofaciens Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia plantarii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Hafniaceae Edwardsiella Edwardsiella tarda Kraken2 36189892 Bacteria Mycoplasmatota Mollicutes Entomoplasmatales Spiroplasmataceae Spiroplasma Spiroplasma kunkelii Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Oxalobacteraceae Herbaspirillum Herbaspirillum seropedicae Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus faecium 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,33731925,28912244,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Rhizobium Rhizobium sp Kraken2 36189892 Bacteria Gemmatimonadota Gemmatimonadetes Gemmatimonadales Gemmatimonadaceae Gemmatimonas Gemmatimonas aurantiaca Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Pseudanabaenales Pseudanabaenaceae Pseudanabaena Pseudanabaena sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Methylococcales Methylococcaceae Methylomonas Methylomonas sp Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Weeksellaceae Elizabethkingia Elizabethkingia meningoseptica Kraken2 36189892 Bacteria Bacillota Clostridia Caldicellulosiruptorales Caldicellulosiruptoraceae Caldicellulosiruptor Caldicellulosiruptor saccharolyticus Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium saccharobutylicum Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia Leptotrichia buccalis 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus gallolyticus Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Helicobacteraceae Helicobacter Helicobacter acinonychis 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lentilactobacillus Lentilactobacillus hilgardii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces globisporus Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Zobellia Zobellia galactanivorans Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Borreliaceae Borrelia Borrelia turicatae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas furukawaii Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria polysaccharea Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Weeksellaceae Riemerella Riemerella anatipestifer Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Borreliaceae Borreliella Borreliella afzelii Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Peptostreptococcaceae Paeniclostridium Paeniclostridium sordellii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Paracoccaceae Paracoccus Paracoccus pantotrophus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus amyloliquefaciens 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas resinovorans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Rhodococcus Rhodococcus sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Halothiobacillaceae Halothiobacillus Halothiobacillus neapolitanus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Leuconostoc Leuconostoc lactis Kraken2 36189892 Bacteria Myxococcota NA Haliangiales Kofleriaceae Haliangium Haliangium ochraceum Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus spizizenii 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio furnissii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Oceanospirillales Halomonadaceae Halomonas Halomonas elongata Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus warneri 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,28912244,37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus salivarius 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 28912244,38599211,36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Nostocaceae Anabaena Anabaena cylindrica Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella putrefaciens 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Microbacteriaceae Rathayibacter Rathayibacter rathayi Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Jonesiaceae Jonesia Jonesia denitrificans Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Acetobacter Acetobacter aceti Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Agrobacterium Agrobacterium tumefaciens Kraken2 36189892 Bacteria Chloroflexota Dehalococcoidia NA NA Dehalogenimonas Dehalogenimonas lykanthroporepellens Kraken2 36189892 Bacteria Thermotogota Thermotogae Thermotogales Fervidobacteriaceae Fervidobacterium Fervidobacterium pennivorans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces pristinaespiralis Kraken2 36189892 Bacteria Bacteroidota Chitinophagia Chitinophagales Chitinophagaceae Chitinophaga Chitinophaga pinensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Propionibacteriales Propionibacteriaceae Propionibacterium Propionibacterium freudenreichii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia rhipicephali Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia australis Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Castellaniella Castellaniella defragrans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae NA Lachnospiraceae bacterium 16S rDNA sequencing 28912244 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia Leptotrichia wadei 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,38599211,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Arthrobacter Arthrobacter globiformis 16S rDNA sequencing 32467386 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Sulfurospirillaceae Sulfurospirillum Sulfurospirillum deleyianum Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Mediterraneibacter Ruminococcus gnavus 16S rDNA sequencing 32467386 Bacteria Bacteroidota Sphingobacteriia Sphingobacteriales Sphingobacteriaceae Sphingobacterium Sphingobacterium spiritivorum Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Rothia Rothia mucilaginosa 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Bacilli Bacillales Planococcaceae Planomicrobium Planomicrobium okeanokoites 16S rDNA sequencing 32467386 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Thermoanaerobacterium Thermoanaerobacterium thermosaccharolyticum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Citrobacter Citrobacter rodentium Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio sp Kraken2 36189892 Bacteria Synergistota Synergistia Synergistales Aminobacteriaceae Aminobacterium Aminobacterium colombiense Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio mimicus Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Phyllobacteriaceae Aminobacter Aminobacter aminovorans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium ljungdahlii Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Parageobacillus Parageobacillus thermoglucosidasius Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Aneurinibacillus Aneurinibacillus thermoaerophilus 16S rRNA sequencing 37198490 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Pseudoalteromonadaceae Pseudoalteromonas Pseudoalteromonas sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Shigella Shigella dysenteriae Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Ralstonia Ralstonia sp Kraken2;PathSeq;metagenomic assembly-based approach 38599211 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Proteus Proteus vulgaris Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Agrobacterium Agrobacterium sp Kraken2 36189892 Bacteria Ignavibacteriota Ignavibacteria Ignavibacteriales Melioribacteraceae Melioribacter Melioribacter roseus Kraken2 36189892 Bacteria Aquificota Aquificae Aquificales Hydrogenothermaceae Sulfurihydrogenibium Sulfurihydrogenibium azorense Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia africae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Photorhabdus Photorhabdus asymbiotica 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Paraclostridium Paraclostridium bifermentans Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Brevibacillus Brevibacillus choshinensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Roseobacter Roseobacter litoralis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Yersinia Yersinia pseudotuberculosis Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus lautus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas savastanoi Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfovibrionia Desulfovibrionales Desulfovibrionaceae Desulfocurvibacter Desulfocurvibacter africanus Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Formosa Formosa agariphila Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Listeriaceae Listeria Listeria monocytogenes Confirmed by the literature;Kraken2 20299242,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces hygroscopicus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Comamonas Comamonas sp Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Lachnoclostridium Clostridium symbiosum 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,38599211 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Thermacetogenium Thermacetogenium phaeum Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Saccharomonospora Saccharomonospora viridis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas nitroreducens 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Clostridia Caldicellulosiruptorales Caldicellulosiruptoraceae Caldicellulosiruptor Caldicellulosiruptor sp Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Burkholderia Burkholderia sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Bifidobacteriales Bifidobacteriaceae Bifidobacterium Bifidobacterium bifidum 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Yersinia Yersinia aleksiciae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Marinobacteraceae Marinobacter Marinobacter adhaerens Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Alcaligenes Alcaligenes faecalis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella elizabethae Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus parasanguinis 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,38599211,36189892 Bacteria Pseudomonadota Alphaproteobacteria Caulobacterales Caulobacteraceae Brevundimonas Brevundimonas diminuta Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus methanolicus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Shewanellaceae Shewanella Shewanella violacea Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Cupriavidus Cupriavidus sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces actuosus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Aeromonadales Aeromonadaceae Aeromonas Aeromonas caviae 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Haemophilus Haemophilus parahaemolyticus 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 28912244,38599211,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Alcaligenes Alcaligenes sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas sp Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Kitasatospora Kitasatospora aureofaciens Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Xanthobacteraceae Ancylobacter Starkeya novella Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Paenarthrobacter Paenarthrobacter nicotinovorans 16S rRNA sequencing 37198490 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Eikenella Eikenella corrodens 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,33731925,28912244,36189892 Bacteria Bacillota Clostridia Eubacteriales Oscillospiraceae Ruminococcus Ruminococcus albus Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Spirochaetaceae Spirochaeta Spirochaeta thermophila Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Propionibacteriales Kribbellaceae Kribbella Kribbella flavida Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingopyxis Sphingopyxis sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Paenarthrobacter Paenarthrobacter ureafaciens Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Pseudoalteromonadaceae Pseudoalteromonas Pseudoalteromonas carrageenovora Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Klebsiella Klebsiella michiganensis Kraken2 36189892 Bacteria Bacillota Negativicutes Veillonellales Veillonellaceae Megasphaera Megasphaera elsdenii Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus schleiferi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Raoultella Raoultella planticola 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lacticaseibacillus Lacticaseibacillus rhamnosus Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Alphaproteobacteria Caulobacterales Caulobacteraceae Asticcacaulis Asticcacaulis excentricus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter johnsonii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces violaceoruber Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas fragi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Rahnella Rahnella aquatilis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Thermoanaerobacter Thermoanaerobacter brockii Kraken2 36189892 Bacteria Bacillota Negativicutes Veillonellales Veillonellaceae Veillonella Veillonella parvula 16S rDNA sequencing;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,33731925,28912244,38599211,36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Oxalobacteraceae Oxalobacter Oxalobacter formigenes Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus thailandicus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Cytobacillus Bacillus dafuensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces albus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Kangiellales Kangiellaceae Kangiella Kangiella koreensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Mannheimia Mannheimia haemolytica Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Nakamurellales Nakamurellaceae Nakamurella Nakamurella multipartita Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Pseudonocardia Pseudonocardia dioxanivorans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium butyricum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Chromatiaceae Nitrosococcus Nitrosococcus halophilus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Alicyclobacillaceae Kyrpidia Kyrpidia tusciae Kraken2 36189892 Bacteria Deinococcota Deinococci Thermales Thermaceae Thermus Thermus sp 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Ensifer Ensifer adhaerens 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Methylocystaceae Methylosinus Methylosinus trichosporium Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus acidominimus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Pectobacteriaceae Dickeya Dickeya zeae Kraken2 36189892 Bacteria Actinomycetota Coriobacteriia Coriobacteriales Atopobiaceae Olsenella Olsenella uli Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Butyrivibrio Butyrivibrio fibrisolvens Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus pyogenes 16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 37198490,38599211,36189892 Bacteria Bacillota Clostridia Eubacteriales Eubacteriaceae Eubacterium Eubacterium limosum 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Acidithiobacillia Acidithiobacillales Acidithiobacillaceae Acidithiobacillus Acidithiobacillus thiooxidans Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Nostocaceae Anabaena Anabaena sp Kraken2 36189892 Bacteria Thermomicrobiota Thermomicrobia Sphaerobacterales Sphaerobacteraceae Sphaerobacter Sphaerobacter thermophilus Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Leptolyngbyales Leptolyngbyaceae Leptolyngbya Leptolyngbya boryana Kraken2 36189892 Bacteria Deferribacterota Deferribacteres Deferribacterales Geovibrionaceae Denitrovibrio Denitrovibrio acetiphilus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Xanthomonadales Xanthomonadaceae Pseudoxanthomonas Pseudoxanthomonas mexicana 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Pseudarthrobacter Pseudarthrobacter phenanthrenivorans Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Listeriaceae Listeria Listeria grayi Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Providencia Providencia stuartii Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Borreliaceae Borrelia Borrelia duttonii Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Oscillospiraceae Thermoclostridium Thermoclostridium stercorarium Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Moraxella Moraxella bovis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium ulcerans Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Leuconostoc Leuconostoc gelidum 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Xenorhabdus Xenorhabdus bovienii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia massiliae Kraken2 36189892 Bacteria Deferribacterota Deferribacteres Deferribacterales Calditerrivibrionaceae Calditerrivibrio Calditerrivibrio nitroreducens Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella schoenbuchensis Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Treponemataceae Treponema Treponema phagedenis Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Leptotrichiaceae Streptobacillus Streptobacillus moniliformis Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Planococcaceae Sporosarcina Sporosarcina psychrophila Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Myroides Myroides profundi Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Bacteroidaceae Bacteroides Bacteroides stercoris Kraken2;PathSeq;metagenomic assembly-based approach 38599211 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus larvae Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium striatum 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodospirillales Acetobacteraceae Komagataeibacter Komagataeibacter europaeus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Pectobacteriaceae Pectobacterium Pectobacterium parmentieri Kraken2 36189892 Bacteria Mycoplasmatota NA Mycoplasmoidales Mycoplasmoidaceae Ureaplasma Ureaplasma urealyticum Kraken2 36189892 Bacteria Bacillota Negativicutes Selenomonadales Selenomonadaceae Selenomonas Selenomonas ruminantium Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Aeromonadales Aeromonadaceae Aeromonas Aeromonas veronii 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter coli Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Bacteroidaceae Bacteroides Bacteroides uniformis 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Yersinia Yersinia entomophaga Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Thermoactinomycetaceae Thermoactinomyces Thermoactinomyces vulgaris Kraken2 36189892 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Thermoanaerobacter Thermoanaerobacter kivui Kraken2 36189892 Bacteria Deinococcota Deinococci Thermales Thermaceae Thermus Thermus scotoductus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus pseudintermedius Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Amycolatopsis Amycolatopsis sp Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus equinus Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Helicobacteraceae Helicobacter Helicobacter heilmannii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces seoulensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Haemophilus Haemophilus parainfluenzae 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces bingchenggensis Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Planococcaceae Planococcus Planococcus sp Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Listeriaceae Listeria Listeria welshimeri 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus mutans 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Bacilli Bacillales Planococcaceae Planococcus Planococcus maritimus Kraken2 36189892 Bacteria Planctomycetota Planctomycetia Planctomycetales Planctomycetaceae Planctopirus Planctopirus limnophila Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Xanthomonadales Xanthomonadaceae Xanthomonas Xanthomonas euvesicatoria Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus dysgalactiae Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus barcinonensis Kraken2 36189892 Bacteria Bacillota Negativicutes Acidaminococcales Acidaminococcaceae Acidaminococcus Acidaminococcus fermentans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Actinomycetales Actinomycetaceae Actinomyces Actinomyces viscosus 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Pantoea Pantoea ananatis Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Treponemataceae Treponema Treponema succinifaciens Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Methylophilaceae Methylovorus Methylovorus sp Kraken2 36189892 Bacteria Bacteroidota Sphingobacteriia Sphingobacteriales Sphingobacteriaceae Pedobacter Pedobacter heparinus Kraken2 36189892 Bacteria Bacteroidota Cytophagia Cytophagales Marivirgaceae Marivirga Marivirga tractuosa Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Rhizobium Rhizobium leguminosarum 16S rRNA sequencing;Kraken2 37198490,36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus alvei Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Paludibacteraceae Paludibacter Paludibacter propionicigenes Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces collinus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Bibersteinia Bibersteinia trehalosi Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Micromonospora Micromonospora echinospora Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Hydrogenophaga Hydrogenophaga pseudoflava Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus iniae Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Nocardiaceae Prescottella Rhodococcus hoagii Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Fusobacteriaceae Propionigenium Propionigenium modestum 16S rRNA sequencing 37198490 Bacteria Bacillota Bacilli Bacillales Bacillaceae Geobacillus Geobacillus genomosp Kraken2 36189892 Bacteria Bacillota Clostridia Thermosediminibacterales Thermosediminibacteraceae Thermosediminibacter Thermosediminibacter oceani Kraken2 36189892 Bacteria Aquificota Aquificae Desulfurobacteriales Desulfurobacteriaceae Thermovibrio Thermovibrio ammonificans Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus mundtii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Actinomycetales Actinomycetaceae Actinomyces Actinomyces naeslundii 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter guillouiae 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces antibioticus Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Fusobacteriaceae Ilyobacter Ilyobacter polytropus Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Pediococcus Pediococcus acidilactici Kraken2 36189892 Bacteria Chloroflexota NA NA NA Thermobaculum Thermobaculum terrenum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Aeromonadales Aeromonadaceae Aeromonas Aeromonas jandaei 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Actinomycetes Geodermatophilales Geodermatophilaceae Geodermatophilus Geodermatophilus obscurus Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Prevotellaceae Xylanibacter Prevotella ruminicola Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Methylococcales Methylococcaceae Methylomicrobium Methylomicrobium album Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces rimosus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Streptosporangiales Streptosporangiaceae Thermobispora Thermobispora bispora Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Pantoea Pantoea vagans Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales NA Thiomonas Thiomonas intermedia Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium sporogenes Kraken2 36189892 Bacteria Bacteroidota Cytophagia Cytophagales Cyclobacteriaceae Cyclobacterium Cyclobacterium marinum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Yersiniaceae Rahnella Rahnella sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces davaonensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Streptosporangiales Nocardiopsaceae Nocardiopsis Nocardiopsis dassonvillei Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus ratti Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Streptosporangiales Thermomonosporaceae Thermomonospora Thermomonospora curvata Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Capnocytophaga Capnocytophaga canimorsus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Listeriaceae Listeria Listeria ivanovii Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingobium Sphingobium herbicidovorans Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus capitis 16S rRNA sequencing;16S rDNA sequencing;Kraken2 33731925,28912244,36189892 Bacteria Pseudomonadota Gammaproteobacteria Legionellales Legionellaceae Legionella Legionella longbeachae Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Rhizobium Rhizobium tropici Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Hathewaya Hathewaya histolytica Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Melissococcus Melissococcus plutonius Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Roseobacteraceae Sulfitobacter Sulfitobacter sp Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingobium Sphingobium chlorophenolicum 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Microbacteriaceae Agromyces Agromyces sp Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Gloeobacterales Gloeobacteraceae Gloeobacter Gloeobacter kilaueensis Kraken2 36189892 Bacteria Myxococcota Myxococcia Myxococcales Myxococcaceae Myxococcus Myxococcus sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Dermabacteraceae Brachybacterium Brachybacterium faecium Kraken2 36189892 Bacteria Verrucomicrobiota Opitutae Puniceicoccales Coraliomargaritaceae Coraliomargarita Coraliomargarita akajimensis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Rickettsiaceae Rickettsia Rickettsia sibirica Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingopyxis Sphingopyxis macrogoltabida Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Rhizobiaceae Neorhizobium Neorhizobium galegae Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Paracoccaceae Paracoccus Paracoccus sp Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus hyicus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Citrobacter Citrobacter amalonaticus Kraken2 36189892 Bacteria Fusobacteriota Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia Leptotrichia shahii 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium cellulovorans Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Pseudobutyrivibrio Pseudobutyrivibrio xylanivorans Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Rhodocyclales Rhodocyclaceae Azospira Azospira oryzae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter nosocomialis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Rickettsiales Anaplasmataceae Neorickettsia Neorickettsia risticii Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium tyrobutyricum Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Nostocales Nostocaceae Trichormus Trichormus azollae Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Anaerostipes Anaerostipes caccae Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus intermedius 16S rDNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,38599211,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactiplantibacillus Lactiplantibacillus pentosus Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Planococcaceae Sporosarcina Sporosarcina ureae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas alcaligenes 16S rDNA sequencing;16S rRNA sequencing;Kraken2 32467386,37198490,36189892 Bacteria Bacillota Clostridia Caldicellulosiruptorales Caldicellulosiruptoraceae Caldicellulosiruptor Caldicellulosiruptor owensensis Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Staphylococcaceae Staphylococcus Staphylococcus lugdunensis 16S rDNA sequencing;16S rRNA sequencing;Kraken2;PathSeq;metagenomic assembly-based approach 32467386,33731925,38599211,36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Bacillus Bacillus paralicheniformis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pasteurellales Pasteurellaceae Actinobacillus Actinobacillus suis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces coeruleorubidus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Amycolatopsis Amycolatopsis methanolica Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Cellulophaga Cellulophaga lytica Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Enterococcaceae Enterococcus Enterococcus casseliflavus 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lentilactobacillus Lentilactobacillus buchneri Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Oscillatoriales Microcoleaceae Planktothrix Planktothrix agardhii Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria flavescens Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas paucimobilis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter lwoffii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Dietziaceae Dietzia Dietzia sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Actinomycetales Actinomycetaceae Actinomyces Actinomyces sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Pantoea Pantoea cypripedii Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Lachnospiraceae Anaerotignum Anaerotignum propionicum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio metoecus Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Cardiobacteriales Cardiobacteriaceae Cardiobacterium Cardiobacterium hominis Kraken2 36189892 Bacteria Cyanobacteriota Cyanophyceae Synechococcales Synechococcaceae Dactylococcopsis Dactylococcopsis salina Kraken2 36189892 Bacteria Actinomycetota Coriobacteriia Coriobacteriales Atopobiaceae Lancefieldella Lancefieldella parvula Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Erwinia Erwinia billingiae 16S rDNA sequencing;Kraken2 28912244,36189892 Bacteria Spirochaetota Spirochaetia Leptospirales Leptospiraceae Leptospira Leptospira interrogans Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Actinomycetales Actinomycetaceae Arcanobacterium Arcanobacterium haemolyticum Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium scatologenes Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Paenibacillaceae Paenibacillus Paenibacillus durus Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Helicobacteraceae Helicobacter Helicobacter mustelae Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Peribacillus Peribacillus psychrosaccharolyticus Kraken2 36189892 Bacteria Bacteroidota Bacteroidia Bacteroidales Porphyromonadaceae Porphyromonas Porphyromonas cangingivalis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium kansasii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces chromofuscus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces pratensis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycobacterium Mycobacterium intracellulare Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Shigella Shigella boydii Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Leptospirales Leptospiraceae Leptospira Leptospira borgpetersenii Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Fructilactobacillus Fructilactobacillus sanfranciscensis Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Alteromonadaceae Alteromonas Alteromonas sp Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces chartreusis Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Kytococcaceae Kytococcus Kytococcus sedentarius Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Nitrobacteraceae Bradyrhizobium Bradyrhizobium japonicum Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Alicycliphilus Alicycliphilus denitrificans Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia Paraburkholderia atlantica Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas chlororaphis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Actinomycetota Coriobacteriia Eggerthellales Eggerthellaceae Slackia Slackia heliotrinireducens Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Micrococcales Micrococcaceae Glutamicibacter Glutamicibacter nicotianae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Providencia Providencia rettgeri Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Mycobacteriaceae Mycolicibacterium Mycolicibacterium austroafricanum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Chromatiales Ectothiorhodospiraceae Halorhodospira Halorhodospira halochloris Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Phyllobacteriaceae Mesorhizobium Mesorhizobium plurifarium 16S rDNA sequencing 28912244 Bacteria Actinomycetota Actinomycetes Kitasatosporales Streptomycetaceae Streptomyces Streptomyces tendae Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Burkholderiales Comamonadaceae Delftia Delftia sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter venetianus Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Saccharopolyspora Saccharopolyspora spinosa Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Tsukamurellaceae Tsukamurella Tsukamurella paurometabola Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Enterobacter Enterobacter hormaechei 16S rRNA sequencing;16S rDNA sequencing;Kraken2 33731925,28912244,36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium ammoniagenes Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Saccharothrix Saccharothrix syringae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Morganellaceae Morganella Morganella morganii 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Negativicutes Selenomonadales Selenomonadaceae Pectinatus Pectinatus frisingensis Kraken2 36189892 Bacteria Bacillota Clostridia Thermoanaerobacterales Thermoanaerobacteraceae Thermoanaerobacterium Thermoanaerobacterium sp Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Tatumella Tatumella citrea Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Weissella Weissella confusa 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Gammaproteobacteria Xanthomonadales Xanthomonadaceae Lysobacter Lysobacter sp Kraken2 36189892 Bacteria Thermodesulfobacteriota Desulfobacteria Desulfobacterales Desulfococcaceae Desulfococcus Desulfococcus multivorans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Vibrio Vibrio splendidus Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria elongata 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Bacillota Bacilli Lactobacillales Lactobacillaceae Lactobacillus Lactobacillus kefiranofaciens Kraken2 36189892 Bacteria Bacillota Bacilli Lactobacillales Streptococcaceae Streptococcus Streptococcus oralis 16S rDNA sequencing;Kraken2 32467386,28912244,36189892 Bacteria Pseudomonadota Betaproteobacteria Neisseriales Neisseriaceae Neisseria Neisseria cinerea Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas viridiflava 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium cochlearium Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas Pseudomonas taetrolens Kraken2 36189892 Bacteria Bacteroidota Flavobacteriia Flavobacteriales Flavobacteriaceae Capnocytophaga Capnocytophaga gingivalis 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Chrysiogenota Chrysiogenetes Chrysiogenales Chrysiogenaceae Desulfurispirillum Desulfurispirillum indicum Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Oscillospiraceae Flavonifractor Flavonifractor plautii 16S rDNA sequencing;Kraken2 32467386,36189892 Bacteria Pseudomonadota Alphaproteobacteria Rhodobacterales Paracoccaceae Rhodovulum Rhodovulum sulfidophilum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Erwinia Erwinia sp Kraken2 36189892 Bacteria Spirochaetota Spirochaetia Spirochaetales Treponemataceae Treponema Treponema lecithinolyticum Kraken2;PathSeq;metagenomic assembly-based approach 38599211 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrobiales Bartonellaceae Bartonella Bartonella vinsonii Kraken2 36189892 Bacteria Actinomycetota Actinomycetes Mycobacteriales Corynebacteriaceae Corynebacterium Corynebacterium pseudotuberculosis Kraken2 36189892 Bacteria Bacillota Erysipelotrichia Erysipelotrichales Erysipelotrichaceae Erysipelothrix Erysipelothrix rhusiopathiae Kraken2 36189892 Bacteria Campylobacterota Epsilonproteobacteria Campylobacterales Campylobacteraceae Campylobacter Campylobacter rectus Kraken2;PathSeq;metagenomic assembly-based approach 38599211,36189892 Bacteria Pseudomonadota Gammaproteobacteria Vibrionales Vibrionaceae Photobacterium Photobacterium damselae Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Erwiniaceae Erwinia Erwinia pyrifoliae Kraken2 36189892 Bacteria Pseudomonadota Betaproteobacteria Nitrosomonadales Methylophilaceae Methylotenera Methylotenera mobilis Kraken2 36189892 Bacteria Pseudomonadota Alphaproteobacteria Hyphomonadales Hyphomonadaceae Hirschia Hirschia baltica Kraken2 36189892 Bacteria Bacillota Clostridia Eubacteriales Clostridiaceae Clostridium Clostridium septicum Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonadales Pseudomonadaceae Azotobacter Azotobacter salinestris Kraken2 36189892 Bacteria Bacillota Bacilli Bacillales Bacillaceae Geobacillus Geobacillus thermoleovorans Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Alteromonadales Alteromonadaceae Alteromonas Alteromonas macleodii Kraken2 36189892 Bacteria Pseudomonadota Gammaproteobacteria Enterobacterales Enterobacteriaceae Citrobacter Citrobacter braakii Kraken2 36189892