Bacteria Associated with Symptoms (Citizen Science)

The tables below were determined from results detected by Symptom Explorer and then recorded to the database. Second are Conditions, which are the bacteria counts reported as abnormal by published studies. If a strain was detected as significant, then we included its parents(genus,family,order,class, phylum) in the count.

These bacteria are shifted in some manner (may be high, low, or just shifted). The purpose is to attempt to identify what bacteria that seems most associated with poor health. The number is the number of times it was reported in studies or in Explorer. It is not a count of the bacteria.

Association of Taxa with Symptoms or Conditions

Tax_rank	tax_name	Symptom References	Condition References
class	Acidobacteria	1	0
class	Acidobacteriia	8	4
class	Alphaproteobacteria	1	0
class	Anaerolineae	1	0
class	Bacilli	4	3
class	Bacteroidetes	6	9
class	Betaproteobacteria	1	1
class	Chloroflexia	2	0
class	Clostridia	15	12
class	Coriobacteriia	3	21
class	Deinococci	0	1
class	Deltaproteobacteria	2	22
class	Dothideomycetes	1	0
class	Epsilonproteobacteria	0	1
class	Erysipelotrichia	1	5
class	Fibrobacteria	0	1
class	Flavobacteriia	0	3
class	Fusobacteriia	2	0
class	Gammaproteobacteria	3	2
class	Kiritimatiellae	2	0
class	Lentisphaeria	0	1
class	Mollicutes	1	0
class	Negativicutes	1	6
class	Sphingobacteriia	0	47
class	Spirochaetia	1	0
class	Tissierellia	0	3
class	Verrucomicrobiae	1	5
family	Acidaminococcaceae	7	11
family	Actinomycetaceae	1	4
family	Aerococcaceae	1	0
family	Akkermansiaceae	1	1
family	Alcaligenaceae	0	1
family	Anaerolineaceae	1	0
family	Atopobiaceae	2	0
family	Bacillaceae	0	2
family	Bacteroidaceae	11	3
family	Barnesiellaceae	3	0
family	Bifidobacteriaceae	4	1
family	Burkholderiaceae	1	43
family	Campylobacteraceae	1	1
family	Candidatus Homeothermaceae	5	0
family	Carnobacteriaceae	2	1
family	Catabacteriaceae	2	0
family	Chitinophagaceae	1	1
family	Christensenellaceae	8	0
family	Clostridiaceae	10	2
family	Clostridiales Family IV. Incertae Sedis	1	0
family	Clostridiales Family XI. Incertae Sedis	1	0
family	Clostridiales Family XIII. Incertae Sedis	0	7
family	Clostridiales incertae sedis	0	5
family	Comamonadaceae	2	0
family	Coriobacteriaceae	4	7
family	Corynebacteriaceae	1	5
family	Dermabacteraceae	1	0
family	Desulfobulbaceae	2	0
family	Desulfovibrionaceae	5	15
family	Eggerthellaceae	5	5
family	Elusimicrobiaceae	2	0
family	Enterobacteriaceae	19	12
family	Enterococcaceae	1	0
family	Erysipelotrichaceae	13	0
family	Eubacteriaceae	3	22
family	Fibrobacteraceae	0	1
family	Flavobacteriaceae	0	2
family	Fusobacteriaceae	1	2
family	Hyphomonadaceae	0	2
family	Lachnospiraceae	30	5
family	Lactobacillaceae	3	2
family	Methylobacteriaceae	1	0
family	Micrococcaceae	0	2
family	Mycoplasmataceae	0	10
family	Neisseriaceae	1	0
family	Nocardiaceae	2	0
family	Odoribacteraceae	1	6
family	Oscillospiraceae	10	21
family	Oxalobacteraceae	0	1
family	Paludibacteraceae	4	0
family	Pasteurellaceae	3	0
family	Peptococcaceae	5	1
family	Peptoniphilaceae	0	7
family	Peptostreptococcaceae	3	15
family	Planococcaceae	0	2
family	Porphyromonadaceae	7	10
family	Prevotellaceae	10	1
family	Propionibacteriaceae	0	2
family	Pseudomonadaceae	2	0
family	Rhodospirillaceae	0	2
family	Rikenellaceae	11	0
family	Ruminococcaceae	29	40
family	Sphingobacteriaceae	0	31
family	Sphingomonadaceae	1	0
family	Staphylococcaceae	1	0
family	Streptococcaceae	3	1
family	Streptomycetaceae	1	0
family	Sutterellaceae	4	7
family	Tannerellaceae Ormerod et al. 2016	1	1
family	Tissierellaceae	2	0
family	Veillonellaceae	7	1
family	Verrucomicrobiaceae	1	23
family	Victivallaceae	0	1
genus	Abiotrophia	5	0
genus	Acetitomaculum	0	1
genus	Acetivibrio	1	1
genus	Acetobacter	1	0
genus	Acetobacteroides	1	0
genus	Acidaminococcus	7	10
genus	Acidipropionibacterium	1	0
genus	Acinetobacter	2	0
genus	Actinobacillus	3	0
genus	Actinomyces	8	0
genus	Actinopolyspora	1	0
genus	Adlercreutzia	9	0
genus	Aeriscardovia	1	0
genus	Aerococcus	1	0
genus	Aeromonas	1	0
genus	Aestuariispira	1	0
genus	Agathobacter	5	0
genus	Aggregatibacter	3	0
genus	Akkermansia	18	3
genus	Alistipes	23	1
genus	Allobaculum	2	0
genus	Alloprevotella	2	0
genus	Alloscardovia	2	0
genus	Anaerococcus	4	1
genus	Anaerofilum	1	0
genus	Anaerofustis	1	1
genus	Anaeroglobus	2	0
genus	Anaeromassilibacillus	2	0
genus	Anaeroplasma	2	0
genus	Anaerostipes	10	1
genus	Anaerotruncus	9	21
genus	Angelakisella	3	0
genus	Asaccharobacter	1	0
genus	Atopobium	6	0
genus	Atopostipes	1	0
genus	Bacillus	4	0
genus	Bacillus	3	0
genus	Bacteroides	35	4
genus	Barnesiella	6	10
genus	Bifidobacterium	32	1
genus	Bilophila	13	0
genus	Bittarella	1	0
genus	Blautia	21	29
genus	Bradyrhizobium	2	0
genus	Brevibacterium	1	0
genus	Bulleidia	1	0
genus	Burkholderia	4	0
genus	Butyricicoccus	11	0
genus	Butyricimonas	7	12
genus	Butyrivibrio	8	1
genus	Caloramator	1	0
genus	Campylobacter	8	1
genus	Candida	1	0
genus	Candidatus Homeothermus	4	0
genus	Candidatus Soleaferrea	1	0
genus	Candidatus Stoquefichus	3	0
genus	Capnocytophaga	3	0
genus	Cardiobacterium	3	0
genus	Carnobacterium	1	0
genus	Catenibacterium	7	0
genus	Catonella	0	1
genus	Cellulosibacter	1	0
genus	Cellulosilyticum	1	0
genus	Centipeda	3	0
genus	Centipeda	3	0
genus	Cetobacterium	3	0
genus	Christensenella	3	0
genus	Chryseobacterium	2	0
genus	Cloacibacterium	1	0
genus	Clostridioides	0	1
genus	Clostridium	26	3
genus	Collinsella	15	9
genus	Coprobacillus	11	0
genus	Coprobacter	2	0
genus	Coprococcus	19	0
genus	Coriobacterium	1	0
genus	Corynebacterium	8	4
genus	Criibacterium	2	0
genus	Cronobacter	1	0
genus	Cryptobacterium	2	0
genus	Cutibacterium	2	0
genus	Dehalobacterium	3	0
genus	Deinococcus	1	0
genus	Desulfovibrio	19	0
genus	Dialister	14	1
genus	Dielma	1	0
genus	Dorea	18	3
genus	Dysgonomonas	1	0
genus	Edwardsiella	1	0
genus	Eggerthella	11	9
genus	Eggerthia	1	0
genus	Eikenella	1	0
genus	Eisenbergiella	1	3
genus	Emergencia	4	0
genus	Enhydrobacter	1	0
genus	Enterobacter	11	0
genus	Enterococcus	20	1
genus	Erwinia	1	0
genus	Erysipelatoclostridium	9	35
genus	Escherichia	14	0
genus	Eubacterium	18	23
genus	Facklamia	1	1
genus	Faecalibacterium	31	44
genus	Faecalibaculum	1	0
genus	Faecalicoccus	1	0
genus	Faecalitalea	2	0
genus	Fibrobacter	0	1
genus	Finegoldia	1	1
genus	Flavobacterium	3	0
genus	Flavonifractor	9	8
genus	Fournierella	4	0
genus	Fretibacterium	2	0
genus	Fusicatenibacter	1	2
genus	Fusobacterium	13	0
genus	Gardnerella	1	0
genus	Gelria	1	0
genus	Gemella	8	1
genus	Geosporobacter	1	0
genus	Gonococcus	6	0
genus	Gordonibacter	6	1
genus	Granulicatella	5	0
genus	Haemophilus	16	1
genus	Hafnia	1	0
genus	Helicobacter	1	0
genus	Hespellia	0	7
genus	Holdemanella	3	0
genus	Holdemania	5	1
genus	Howardella	0	1
genus	Hyphomicrobium	1	0
genus	Intestinibacter	3	7
genus	Intestinimonas	4	0
genus	Johnsonella	3	0
genus	Jonquetella	1	0
genus	Klebsiella Trevisan 1885 (Approved Lists 1980) emend. Carter et al. 1999	16	0
genus	Kluyvera	0	1
genus	Lachnoanaerobaculum	3	0
genus	Lachnobacterium	1	0
genus	Lachnoclostridium	3	0
genus	Lachnospira	11	4
genus	Lactobacillus	26	0
genus	Lactococcus	4	0
genus	Lautropia	1	0
genus	Lawsonella	1	0
genus	Leclercia	1	0
genus	Leptotrichia	6	0
genus	Leucobacter	1	0
genus	Leuconostoc	3	0
genus	Levinea Young et al. 1971	5	0
genus	Levyella	1	0
genus	Libanicoccus	2	0
genus	Marvinbryantia	2	9
genus	Massilioclostridium	2	0
genus	Megamonas	10	0
genus	Megasphaera	9	14
genus	Merdibacter	4	0
genus	Methanobrevibacter	12	0
genus	Methanosphaera	3	0
genus	Methylobacterium	1	0
genus	Microbacterium	2	0
genus	Mitsuokella	4	0
genus	Mogibacterium	5	3
genus	Moraxella	1	0
genus	Morganella	2	0
genus	Morganella	1	0
genus	Morganella	1	0
genus	Moryella	0	16
genus	Murdochiella	1	0
genus	Murimonas	1	0
genus	Mycobacterium	2	0
genus	Mycoplasma	1	2
genus	Negativicoccus	0	1
genus	Neglecta	3	0
genus	Nissabacter	1	0
genus	Novispirillum	1	0
genus	Odoribacter	13	3
genus	Olsenella	7	0
genus	Oribacterium	6	0
genus	Oscillibacter	14	1
genus	Oscillospira	5	1
genus	Ottowia	2	0
genus	Oxalobacter	5	0
genus	Pachytichospora	1	0
genus	Paenibacillus	4	1
genus	Pantoea	4	0
genus	Papillibacter	0	1
genus	Parabacteroides	23	0
genus	Paraburkholderia	1	0
genus	Paraprevotella	8	3
genus	Parascardovia	1	0
genus	Parasutterella	7	0
genus	Parvimonas	10	0
genus	Pediococcus	1	0
genus	Pedobacter	1	1
genus	Peptoclostridium	0	3
genus	Peptococcus	0	6
genus	Peptoniphilus	5	4
genus	Peptostreptococcus	9	0
genus	Phascolarctobacterium	12	11
genus	Phocea	2	0
genus	Porphyromonas	13	2
genus	Prevotella	35	5
genus	Prevotellamassilia	4	0
genus	Propionibacterium	6	0
genus	Proteiniborus	1	0
genus	Proteus	5	0
genus	Providencia	1	0
genus	Pseudobutyrivibrio	4	39
genus	Pseudoflavonifractor	5	6
genus	Pseudomonas	10	0
genus	Pseudopropionibacterium	2	0
genus	Pseudoramibacter	1	0
genus	Psychrobacillus	1	0
genus	Pyramidobacter	3	0
genus	Ralstonia	1	0
genus	Raoultella	4	0
genus	Rhodococcus	3	0
genus	Rhodococcus	1	0
genus	Robinsoniella	1	1
genus	Romboutsia	8	0
genus	Roseburia	17	21
genus	Rothia	6	6
genus	Rothia	6	0
genus	Ruminiclostridium	7	0
genus	Ruminococcus	15	0
genus	Ruthenibacterium	4	0
genus	Salmonella	2	0
genus	Sarcina	1	2
genus	Scardovia	3	0
genus	Selenomonas	1	0
genus	Sellimonas	4	0
genus	Senegalimassilia	2	2
genus	Shigella	10	0
genus	Shuttleworthia	3	0
genus	Siccibacter	1	0
genus	Slackia	6	3
genus	Solobacterium	5	0
genus	Sphingobacterium	1	4
genus	Sphingomonas	1	0
genus	Sporobacter	1	0
genus	Staphylococcus	13	0
genus	Stomatobaculum	3	0
genus	Streptococcus	24	1
genus	Subdoligranulum	12	49
genus	Succinatimonas	4	0
genus	Succiniclasticum	1	0
genus	Succinivibrio	3	0
genus	Sutterella	13	1
genus	Syntrophomonas	1	0
genus	Tannerella	2	0
genus	Terrisporobacter	1	24
genus	Thermoanaerobacter	1	0
genus	Thermus	1	0
genus	Treponema	1	0
genus	Trichococcus	1	0
genus	Turicibacter	12	0
genus	Tyzzerella	3	0
genus	Vagococcus	1	0
genus	Vampirovibrio	1	0
genus	Varibaculum	2	1
genus	Variovorax	2	0
genus	Veillonella	16	1
genus	Vibrio	1	0
genus	Victivallis	0	1
genus	Weissella	6	1
no rank	Campylobacter concisus 13826	1	0
no rank	Clostridium beijerinckii NRRL B-598	1	0
no rank	FCB group	0	5
no rank	Haemophilus influenzae 10810	1	0
no rank	unclassified Clostridiales	0	2
order	Acholeplasmatales	1	0
order	Acidaminococcales	0	13
order	Actinomycetales	3	5
order	Agaricales	1	0
order	Anaerolineales	1	0
order	Anaeroplasmatales	1	0
order	Bacillales	0	6
order	Bacteroidales	9	10
order	Bifidobacteriales	1	1
order	Burkholderiales	0	2
order	Campylobacterales	0	1
order	Caulobacterales	1	0
order	Clostridiales	10	12
order	Coriobacteriales	0	7
order	Corynebacteriales	0	5
order	Cytophagales	1	0
order	Desulfobacterales	0	1
order	Desulfovibrionales	1	17
order	Eggerthellales	0	8
order	Enterobacterales	2	5
order	Erysipelotrichales	1	5
order	Fibrobacterales	0	1
order	Flavobacteriales	5	3
order	Lactobacillales	2	2
order	Mycoplasmatales	0	6
order	Opitutales	4	0
order	Pseudomonadales	4	0
order	Rhodocyclales	0	1
order	Rhodospirillales	0	1
order	Selenomonadales	3	17
order	Sphingobacteriales	0	42
order	Tissierellales	0	8
order	Verrucomicrobiales	2	4
order	Victivallales	0	1
phylum	Actinobacteria	17	1
phylum	ascomycetes	1	0
phylum	Bacteroidaeota	14	7
phylum	basidiomycetes	1	0
phylum	Chloroflexi	1	0
phylum	Cyanobacteria	4	0
phylum	Euryarchaeota	1	0
phylum	Firmicutes	4	40
phylum	Firmicutes	24	11
phylum	Fusobacteraeota	6	0
phylum	Lentisphaerae	4	0
phylum	Proteobacteria	22	1
phylum	Proteobacteria	4	0
phylum	Spirochaetae	2	0
phylum	Synergistetes	3	0
phylum	Tenericutes	2	0
phylum	Verrucomicrobia	9	4
species	[Bacteroides] pectinophilus	3	0
species	[Clostridium] alkalicellulosi	1	0
species	[Clostridium] asparagiforme	1	0
species	[Clostridium] citroniae	2	0
species	[Clostridium] colinum	1	0
species	[Clostridium] hiranonis	2	0
species	[Clostridium] scindens	5	0
species	[Clostridium] spiroforme	2	0
species	[Eubacterium] dolichum	1	0
species	[Eubacterium] infirmum	1	0
species	[Eubacterium] saphenum	1	0
species	[Hallella] seregens	3	0
species	Abiotrophia adiacens	4	0
species	Abiotrophia defectiva	2	0
species	Abiotrophia sp.	3	0
species	Acetanaerobacterium elongatum	1	0
species	Acetivibrio ethanolgignens	1	0
species	Achromobacter georgiopolitanum	1	0
species	Acidaminococcus fermentans	2	0
species	Acidaminococcus intestini	4	0
species	Acidaminococcus sp.	3	0
species	Acidivorax temperans	2	0
species	Acidovorax sp. 121606	1	0
species	Acinetobacter baumannii	2	0
species	Acinetobacter calcoaceticus/baumannii complex	1	0
species	Acinetobacter genomosp. 5	1	0
species	Acinetobacter soli	1	0
species	Acinetobacter sp.	2	0
species	ACM 3611	4	0
species	Actinobacterium israeli	3	0
species	Actinobaculum massiliense	1	0
species	Actinomyces cardiffensis	3	0
species	Actinomyces dentalis	3	0
species	Actinomyces graevenitzii	4	0
species	Actinomyces hongkongensis	3	0
species	Actinomyces johnsonii	3	0
species	Actinomyces massiliensis	2	0
species	Actinomyces meyeri	2	0
species	Actinomyces naeslundii	4	0
species	Actinomyces naeslundii genospecies 2	3	0
species	Actinomyces radicidentis	2	0
species	Actinomyces sp.	4	0
species	Actinomyces timonensis	3	0
species	Actinomyces turicensis	1	0
species	Actinomyces viscosus	2	0
species	Acuformis perennis	1	0
species	Adlercreutzia equolifaciens	3	0
species	Adlercreutzia sp.	1	0
species	Aerobacter aerogenes	3	0
species	Aerococcus christensenii	1	0
species	Aeromonas shigelloides	3	0
species	Agathobaculum butyriciproducens	3	0
species	Aggregatibacter actinomycetemcomitans	1	0
species	Aggregatibacter aphrophilus	1	0
species	Aggregatibacter segnis	2	0
species	Agrobacterium pusense	1	0
species	AHU 1763	1	0
species	Akkermansia muciniphila	14	2
species	Akkermansia sp.	4	0
species	Alcaligenes sp. (strain BR60)	1	0
species	Alistipes finegoldii	4	0
species	Alistipes indistinctus	3	0
species	Alistipes obesi	1	0
species	Alistipes onderdonkii	4	0
species	Alistipes putredinis	4	0
species	Alistipes senegalensis Mishra et al. 2012	1	0
species	Alistipes shahii	2	0
species	Alistipes sp.	4	0
species	Alistipes sp. NML05A004	0	4
species	Alistipes timonensis	3	0
species	Allisonella histaminiformans	2	0
species	Allobaculum sp. Alo17	1	0
species	Alloprevotella rava	4	0
species	Alloprevotella tannerae	1	0
species	Alloscardovia omnicolens	2	0
species	Anaerobacillus macyae (Santini et al. 2004) Zavarzina et al. 2009	1	0
species	Anaerococcus obesiensis	1	0
species	Anaerococcus octavius	1	0
species	Anaerococcus prevotii	1	0
species	Anaerococcus sp.	2	0
species	Anaerococcus vaginalis	2	0
species	Anaerocolumna aminovalerica	1	0
species	Anaerofustis stercorihominis	1	0
species	Anaeroglobus geminatus	2	0
species	Anaeroglobus sp.	1	0
species	Anaeromassilibacillus senegalensis	1	0
species	Anaeromassilibacillus sp.	2	0
species	Anaerosporobacter mobilis	2	1
species	Anaerostipes caccae	4	0
species	Anaerostipes hadrus	5	0
species	Anaerostipes sp.	5	0
species	Anaerotruncus colihominis	2	0
species	Anaerotruncus sp.	2	0
species	Anaerovibrio sp.	1	0
species	Angelakisella massiliensis	2	0
species	Aquaspirillum dispar	1	0
species	ATCC 13146 [[Leuconostoc amelibiosum Schillinger et al. 1989]]	4	0
species	ATCC 15483	1	0
species	ATCC 25258	2	0
species	ATCC 27780	1	0
species	ATCC 29062	1	0
species	ATCC 29935	1	0
species	ATCC 33028	2	0
species	ATCC 33072	2	0
species	ATCC 33110	2	0
species	ATCC 33199	1	0
species	ATCC 33241	1	0
species	ATCC 33257	1	0
species	ATCC 35046	1	0
species	ATCC 35313 [[Koserella trabulsii Hickman-Brenner et al. 1985]]	1	0
species	ATCC 35469	3	0
species	ATCC 35539	1	0
species	ATCC 43838	1	0
species	ATCC 43921	1	0
species	ATCC 43994	2	0
species	ATCC 49062	2	0
species	ATCC 49124	4	0
species	ATCC 49372	1	0
species	ATCC 49427	2	0
species	ATCC 49559	1	0
species	ATCC 49918	3	0
species	ATCC 51112	1	0
species	ATCC 51114	2	0
species	ATCC 51146	1	0
species	ATCC 51230	1	0
species	ATCC 51266	1	0
species	ATCC 51502	2	0
species	ATCC 51523	1	0
species	ATCC 51767	3	0
species	ATCC 51939	1	0
species	ATCC 700018	1	0
species	ATCC 700285	2	0
species	ATCC 700332	2	0
species	ATCC 700337	1	0
species	ATCC 700542	1	0
species	ATCC 700632	2	0
species	ATCC 700666	1	0
species	ATCC 700779	3	0
species	ATCC 8043	2	0
species	ATCC BAA-102	2	0
species	ATCC BAA-1200	2	0
species	ATCC BAA-1383	1	0
species	ATCC BAA-303	3	0
species	ATCC BAA-960	3	0
species	Atlantibacter subterranea (Shelobolina et al. 2005) Hata et al. 2016	1	0
species	Atopobium parvulum	5	0
species	Atopobium rimae	3	0
species	Atopobium sp.	2	0
species	Aureobacterium sp.	2	0
species	Bacillus aeruginosus	4	0
species	Bacillus aminoglucosidicus	1	0
species	Bacillus amylolyticus Choukevitch 1911	1	0
species	Bacillus coagulans	1	0
species	Bacillus fordii	1	0
species	Bacillus megaterium	2	0
species	Bacillus okuhidaensis	1	0
species	Bacillus pseudalcalophilus Nielsen et al. 1995	1	0
species	Bacillus simplex	1	0
species	Bacillus sp.	2	0
species	Bacteridium luteum	1	0
species	Bacterium sonnei Levine 1920	1	0
species	Bacteroides barnesiae	3	0
species	Bacteroides caccae	1	1
species	Bacteroides caecimuris	2	0
species	Bacteroides cellulosilyticus	3	0
species	Bacteroides clarus	3	2
species	Bacteroides coagulans	1	0
species	Bacteroides coprocola	2	2
species	Bacteroides coprophilus	3	0
species	Bacteroides dorei	2	2
species	Bacteroides eggerthii	3	0
species	Bacteroides faecichinchillae	2	0
species	Bacteroides faecis	3	2
species	Bacteroides finegoldii	3	0
species	Bacteroides fluxus	2	0
species	Bacteroides fragilis	18	0
species	Bacteroides gallinarum	2	0
species	Bacteroides graminisolvens	2	0
species	Bacteroides helcogenes	3	0
species	Bacteroides intestinalis	5	0
species	Bacteroides massiliensis	3	8
species	Bacteroides mediterraneensis Mailhe et al. 2016	1	0
species	Bacteroides nordii	3	0
species	Bacteroides oleiciplenus	1	0
species	Bacteroides ovatus	7	0
species	Bacteroides paurosaccharolyticus	1	0
species	Bacteroides plebeius	2	2
species	Bacteroides pyogenes	4	0
species	Bacteroides reticulotermitis	2	0
species	Bacteroides rodentium	3	0
species	Bacteroides salanitronis	1	0
species	Bacteroides salyersiae	3	8
species	Bacteroides sartorii	1	0
species	Bacteroides sp.	7	0
species	Bacteroides sp. JCM 17101	2	1
species	Bacteroides stercoris	6	1
species	Bacteroides thetaiotaomicron	5	13
species	Bacteroides uniformis	8	2
species	Bacteroides vulgatus	11	14
species	Bacteroides xylanisolvens	4	0
species	Barnesiella intestinihominis	2	11
species	Barnesiella viscericola	1	0
species	beta proteobacterium KSP3	1	0
species	Bifidobacterium adolescentis	5	0
species	Bifidobacterium animalis	4	0
species	Bifidobacterium bifidum	5	0
species	Bifidobacterium breve	3	0
species	Bifidobacterium catenulatum	2	0
species	Bifidobacterium dentium	3	0
species	Bifidobacterium longum	9	0
species	Bifidobacterium pseudocatenulatum	4	0
species	Bifidobacterium pseudolongum	2	0
species	Bifidobacterium pseudolongum	4	0
species	Bifidobacterium sp.	5	0
species	Bilophila sp.	1	0
species	Bilophila wadsworthia	3	1
species	Blautia coccoides	2	0
species	Blautia faecis	2	2
species	Blautia glucerasea	0	2
species	Blautia hansenii	0	2
species	Blautia hydrogenotrophica	3	5
species	Blautia luti	0	2
species	Blautia obeum	4	8
species	Blautia producta	3	0
species	Blautia sp.	6	0
species	Blautia sp. YHC-4	0	2
species	Blautia wexlerae	0	1
species	Bradyrhizobium sp.	2	0
species	Brucella tularensis	6	0
species	Bulleidia extructa	1	0
species	Butyricicoccus pullicaecorum	5	0
species	Butyricicoccus sp.	4	0
species	Butyricimonas faecihominis	0	2
species	Butyricimonas sp.	4	0
species	Butyricimonas sp. 214-4	0	5
species	Butyricimonas synergistica	2	0
species	Butyricimonas virosa	4	0
species	Butyrivibrio crossotus	1	0
species	Butyrivibrio fibrisolvens	1	0
species	Butyrivibrio sp.	1	0
species	Campylobacter concisus	2	0
species	Campylobacter curvus	2	0
species	Campylobacter gracilis	1	0
species	Campylobacter sp.	2	0
species	Campylobacter ureolyticus	1	0
species	Candidatus Bacteroides periocalifornicus McLean et al. 2015	1	0
species	Candidatus Methanomethylophilus alvus Borrel et al. 2012	1	0
species	Candidatus Prevotella conceptionensis Fenollar et al. 2006	2	0
species	Capnocytophaga gingivalis	3	0
species	Capnocytophaga leadbetteri	2	0
species	Capnocytophaga sp.	3	0
species	Capnocytophaga sputigena	2	0
species	Cardiobacterium hominis	1	0
species	Cardiobacterium sp.	3	0
species	Catabacter hongkongensis	3	0
species	Catenibacterium sp.	1	0
species	Catonella morbi	2	1
species	CAV	1	0
species	CCM 3540	1	0
species	CCM 7299	2	0
species	CCUG 353	1	0
species	CCUG 41967	3	0
species	CCUG 45813	1	0
species	CCUG 45998 A	1	0
species	CCUG 46149	3	0
species	CCUG 46150	1	0
species	CCUG 47503	1	0
species	CCUG 48363	2	0
species	CCUG 48456	2	0
species	CCUG 48460	1	0
species	CCUG 54362	1	0
species	CCUG 556	1	0
species	CCUG 55896	1	0
species	CCUG 57945	2	0
species	CCUG 60371	2	0
species	CCUG 64422	1	0
species	CECT 5975	3	0
species	Cetobacterium sp.	1	0
species	Christensenella minuta	1	1
species	Christensenella sp.	1	0
species	Chryseobacterium sp.	2	0
species	CIP 106922	2	0
species	CIP 109788	2	0
species	CIP 109839	1	0
species	CIP 110771	2	0
species	CIPP II	3	0
species	Citrobacter freundii	3	0
species	Citrobacter sp.	2	0
species	Cloacibacillus evryensis	1	0
species	Cloacibacillus porcorum	3	0
species	Cloacibacterium sp.	1	0
species	Clostridiaceae bacterium JC118	1	0
species	Clostridiales bacterium 1_7_47FAA	2	0
species	Clostridiales bacterium L2-14	2	0
species	Clostridium bolteae	6	0
species	Clostridium butyricum	8	0
species	Clostridium celatum	1	0
species	Clostridium chartatabidum	0	2
species	Clostridium citroniae	1	0
species	Clostridium clostridioforme	4	0
species	Clostridium cocleatum	1	0
species	Clostridium difficile	4	0
species	Clostridium glycyrrhizinilyticum	2	0
species	Clostridium hylemonae	1	0
species	Clostridium innocuum	4	0
species	Clostridium lactatifermentans	0	1
species	Clostridium leptum	6	0
species	Clostridium methylpentosum	3	0
species	Clostridium neonatale Bouvet et al. 2014	1	0
species	Clostridium paraputrificum	1	0
species	Clostridium perfringens	5	0
species	Clostridium sp.	6	0
species	Clostridium spiroforme	1	0
species	Clostridium symbiosum	7	0
species	Clostridium tertium	2	0
species	Clostridium ventriculi	1	0
species	Coccobacillus pfeifferi	5	0
species	Collinsella aerofaciens	2	8
species	Collinsella intestinalis	2	0
species	Collinsella sp.	5	0
species	Collinsella tanakaei	1	1
species	Coprobacter fastidiosus	2	0
species	Coprobacter sp.	3	0
species	Coprococcus catus	4	0
species	Coprococcus comes	3	0
species	Coprococcus eutactus	5	0
species	Coprococcus sp.	4	0
species	Corynebacterium ammoniagenes	1	0
species	Corynebacterium durum	1	0
species	Corynebacterium sp.	4	0
species	CRBIP 24.179	3	0
species	Cronobacter sakazakii	2	0
species	Cryptobacterium curtum	1	0
species	CSUR P3241	1	0
species	Cutibacterium sp.	2	0
species	Desulfomicrobium orale	1	0
species	Desulfovibrio desulfuricans	2	0
species	Desulfovibrio piger	2	11
species	Desulfovibrio sp.	3	0
species	Desulfovibrio vulgaris	1	0
species	Dialister invisus	4	0
species	Dialister pneumosintes	2	0
species	Dialister sp.	4	0
species	Dolosigranulum pigrum	2	0
species	Dorea formicigenerans	5	33
species	Dorea longicatena	4	6
species	Dorea sp.	5	0
species	DSM 102344	1	0
species	DSM 103034	3	0
species	DSM 1135	1	0
species	DSM 14437	2	0
species	DSM 17055	3	0
species	DSM 19284	2	0
species	DSM 20284	3	0
species	DSM 21459	1	0
species	DSM 22759	2	0
species	DSM 22761	1	0
species	DSM 24301	2	0
species	DSM 26109	2	0
species	DSM 28989	2	0
species	DSM 39	2	0
species	DSM 4782	1	0
species	DSM 7271	3	0
species	Dysgonomonas capnocytophagoides	2	0
species	Dysgonomonas sp.	1	0
species	Effusibacillus pohliae	1	0
species	Eggerthella lenta	8	12
species	Eggerthella sp.	1	0
species	Eggerthia catenaformis	2	0
species	Eikenella corrodens	2	0
species	Eisenbergiella sp.	4	0
species	Eisenbergiella tayi	2	1
species	Emergencia sp.	5	0
species	Enorma massiliensis	3	0
species	Enorma sp.	1	0
species	Enterobacter hormaechei	1	0
species	Enterobacter oryzaendophyticus	2	0
species	Enterobacter sp.	2	0
species	Enterococcus asini	1	0
species	Enterococcus cecorum	1	0
species	Enterococcus faecalis	7	0
species	Enterococcus faecium	4	0
species	Enterococcus gallinarum	5	0
species	Enterococcus mundtii	1	0
species	Enterococcus sp.	1	0
species	Erysipelatoclostridium ramosum	4	0
species	Escherichia albertii	2	0
species	Escherichia citrophila (Asai et al. 1957) Asai et al. 1962	1	0
species	Escherichia coli	18	1
species	Escherichia sp.	3	0
species	Eubacterium brachy	1	0
species	Eubacterium desmolans	1	0
species	Eubacterium eligens	5	0
species	Eubacterium hallii	6	0
species	Eubacterium limosum	3	0
species	Eubacterium oxidoreducens	2	2
species	Eubacterium oxidoreducens	1	0
species	Eubacterium ramulus	1	0
species	Eubacterium rectale	7	0
species	Eubacterium siraeum	3	0
species	Eubacterium sp.	6	0
species	Eubacterium uniforme	2	0
species	Eubacterium ventriosum	1	0
species	Faecalibacterium prausnitzii	18	25
species	Faecalibacterium sp.	6	0
species	Faecalibacterium sp. canine oral taxon 147	0	1
species	Faecalicoccus pleomorphus	2	0
species	Faecalitalea cylindroides	3	0
species	Filifactor alocis	1	0
species	Finegoldia magna	1	0
species	Flavibacterium sp.	1	0
species	Flavonifractor plautii	3	0
species	Flavonifractor sp.	5	0
species	Fournierella sp.	4	0
species	Fusicatenibacter saccharivorans	1	1
species	Fusobacterium mortiferum	1	0
species	Fusobacterium nucleatum	5	0
species	Fusobacterium periodonticum	1	0
species	Fusobacterium sp.	5	0
species	Fusobacterium ulcerans	1	0
species	Fusobacterium varium	2	0
species	Gardnerella vaginalis	3	0
species	Gemella asaccharolytica	1	0
species	Gemella bergeri	1	0
species	Gemella morbillorum	4	0
species	Gemella sp.	2	0
species	Gemmiger formicilis	2	0
species	Gordonibacter pamelaeae	4	1
species	Gordonibacter sp.	1	0
species	Gordonibacter urolithinfaciens	3	0
species	Granulicatella elegans	4	0
species	Granulicatella sp.	3	0
species	Haemophilus haemolyticus	1	0
species	Haemophilus parahaemolyticus	1	0
species	Haemophilus parainfluenzae	6	1
species	Haemophilus paraphrohaemolyticus	3	0
species	Haemophilus pittmaniae	2	0
species	Haemophilus quentini Olsen et al. 2005	1	0
species	Haemophilus sp.	2	0
species	Haemophilus sputorum	1	0
species	Helicobacter pylori	1	0
species	Holdemanella biformis	2	0
species	Holdemanella sp.	4	0
species	Holdemania filiformis	2	0
species	Holdemania sp.	3	0
species	Howardella ureilytica	0	1
species	Hungatella hathewayi	5	0
species	HUT 6613	1	0
species	IMSNU 11154	1	0
species	Intestinibacter bartlettii	3	0
species	Intestinimonas butyriciproducens	6	0
species	Intestinimonas sp.	2	0
species	JCM 1039	1	0
species	JCM 1093	3	0
species	JCM 5829	1	0
species	JCM 5830	1	0
species	JCM 8722	4	0
species	JCM 8725	1	0
species	Kingella denitrificans	2	0
species	Kingella oralis	2	0
species	Klebsiella ornithinolytica	2	0
species	Klebsiella pneumoniae aerogenes	7	0
species	Klebsiella sp.	1	0
species	Kluyvera ascorbata	2	0
species	Kluyvera georgiana	2	0
species	Kocuria kristinae	1	0
species	Kytococcus sedentarius	4	0
species	Lachnoanaerobaculum saburreum	3	0
species	Lachnoanaerobaculum sp.	3	0
species	Lachnoanaerobaculum umeaense	4	0
species	Lachnoclostridium sp.	1	0
species	Lachnospira pectinoschiza	2	1
species	Lachnospira sp.	5	0
species	Lachnospiraceae bacterium oral taxon 082	1	0
species	Lactobacillus acidophilus	3	0
species	Lactobacillus agilis	2	0
species	Lactobacillus amylolyticus	1	0
species	Lactobacillus curvatus	3	0
species	Lactobacillus delbrueckii	2	0
species	Lactobacillus equi	2	0
species	Lactobacillus fermentum	6	0
species	Lactobacillus gasseri	5	0
species	Lactobacillus ingluviei	1	0
species	Lactobacillus intestinalis	1	0
species	Lactobacillus johnsonii	2	0
species	Lactobacillus kalixensis	1	0
species	Lactobacillus mucosae	4	0
species	Lactobacillus murinus	1	0
species	Lactobacillus paracasei	3	0
species	Lactobacillus plantarum	4	0
species	Lactobacillus reuteri	4	0
species	Lactobacillus rhamnosus	2	0
species	Lactobacillus rogosae	1	0
species	Lactobacillus saerimneri	1	0
species	Lactobacillus sakei	3	0
species	Lactobacillus salivarius	6	0
species	Lactobacillus sp.	3	0
species	Lactobacillus vaginalis	3	0
species	Lactococcus lactis	3	0
species	Lactococcus sp.	2	0
species	Lactonifactor longoviformis	3	0
species	Lautropia mirabilis	2	0
species	Leadbetterella byssophila	3	0
species	Leclercia adecarboxylata	1	0
species	Leclercia sp.	1	0
species	Leminorella grimontii	1	0
species	Leptotrichia hofstadii	1	0
species	Leptotrichia sp.	5	0
species	Leptotrichia trevisanii	3	0
species	Leptotrichia wadei	1	0
species	Leucobacter sp.	1	0
species	Leuconostoc lactis	2	0
species	Leuconostoc mesenteroides	1	0
species	LMG:18984	2	0
species	LMG:2665	1	0
species	LMG:5290	2	0
species	LMG:5313	2	0
species	LMG:7884	1	0
species	LMG:7944	1	0
species	LMG:9496	3	0
species	Marvinbryantia sp.	2	0
species	Massilimicrobiota timonensis Tall et al.	1	0
species	Massilioclostridium sp.	2	0
species	Megamonas hypermegale	2	0
species	Megamonas sp.	1	0
species	Megasphaera elsdenii	1	0
species	Megasphaera micronuciformis	4	0
species	Megasphaera sp.	4	0
species	Merdibacter massiliensis	1	0
species	Methanobrevibacter smithii	7	0
species	Methanobrevibacter sp.	2	0
species	Methanomassiliicoccus luminyensis	1	0
species	Methanosphaera cuniculi	2	0
species	Methanosphaera stadtmanae	1	0
species	Micromonas sp. (in: Bacteria)	3	0
species	Mitsuokella jalaludinii	1	0
species	Mitsuokella sp.	2	0
species	Mogibacterium sp.	4	0
species	Moraxella osloensis	2	0
species	Morganella morganii	2	0
species	Murimonas intestini	1	0
species	MUTK 20	2	0
species	Mycoplasma hominis	2	0
species	Negativicoccus massiliensis Togo et al. 2016	2	0
species	Negativicoccus succinicivorans	2	0
species	Neglecta sp.	3	0
species	Neisseria cinerea	2	0
species	Neisseria flavescens	3	0
species	Neisseria meningitidis	3	0
species	Neisseria sp.	2	0
species	Nocardioides dubius	3	0
species	Odoribacter laneus	2	0
species	Odoribacter sp.	4	0
species	Odoribacter splanchnicus	4	4
species	Olsenella profusa	3	0
species	Olsenella sp.	4	0
species	Olsenella uli	3	0
species	Oribacterium sinus	2	0
species	Oribacterium sp.	4	0
species	Oscillibacter ruminantium	1	0
species	Oscillibacter sp.	5	0
species	Oscillibacter valericigenes	1	3
species	Ottowia sp.	2	0
species	Oxalobacter formigenes	3	0
species	Oxalobacter sp.	2	0
species	Paenibacillus sp.	1	0
species	Paeniclostridium sordellii	1	0
species	Papillibacter cinnamivorans	0	3
species	Parabacteroides chinchillae	1	0
species	Parabacteroides distasonis	8	1
species	Parabacteroides faecis	0	1
species	Parabacteroides goldsteinii	2	0
species	Parabacteroides gordonii	2	0
species	Parabacteroides johnsonii	3	14
species	Parabacteroides merdae	5	15
species	Parabacteroides sp.	4	0
species	Paraburkholderia sp.	1	0
species	Paraclostridium bifermentans	2	0
species	Paraprevotella clara	2	5
species	Paraprevotella sp.	4	0
species	Paraprevotella xylaniphila	1	0
species	Parascardovia denticolens	2	0
species	Parasutterella excrementihominis	1	0
species	Parasutterella sp.	3	0
species	Parvimonas micra	2	0
species	PCU:282	1	0
species	Pediococcus pentosaceus	1	0
species	Peptococcus niger	1	0
species	Peptoniphilus lacrimalis	0	1
species	Peptoniphilus rhinitidis Kim et al. 2012	1	0
species	Peptoniphilus sp.	5	0
species	Peptostreptococcus anaerobius	3	0
species	Peptostreptococcus sp.	4	0
species	Peptostreptococcus stomatis	3	0
species	Phascolarctobacterium faecium	5	0
species	Phascolarctobacterium sp.	4	0
species	Phascolarctobacterium succinatutens	0	9
species	Phocaeicola abscessus	1	0
species	Photobacterium damselae	1	0
species	Porphyromonas asaccharolytica	1	0
species	Porphyromonas bennonis	2	0
species	Porphyromonas cangingivalis	1	0
species	Porphyromonas catoniae	4	0
species	Porphyromonas endodontalis	3	0
species	Porphyromonas gingivalis	2	0
species	Porphyromonas somerae	4	0
species	Porphyromonas sp.	4	0
species	Porphyromonas uenonis	2	0
species	Prevotella albensis	1	0
species	Prevotella amnii	2	0
species	Prevotella aurantiaca	2	0
species	Prevotella baroniae	2	0
species	Prevotella bergensis	1	0
species	Prevotella bivia	3	0
species	Prevotella buccae	2	0
species	Prevotella buccalis	2	2
species	Prevotella colorans	1	0
species	Prevotella copri	10	0
species	Prevotella corporis	2	0
species	Prevotella denticola	3	0
species	Prevotella disiens	0	1
species	Prevotella histicola	5	0
species	Prevotella intermedia	2	0
species	Prevotella loescheii	2	0
species	Prevotella maculosa	3	0
species	Prevotella marshii	2	0
species	Prevotella melaninogenica	2	0
species	Prevotella micans	4	0
species	Prevotella multiformis	1	0
species	Prevotella multisaccharivorax	2	0
species	Prevotella nanceiensis	2	0
species	Prevotella nigrescens	3	0
species	Prevotella oralis	5	0
species	Prevotella oris	2	0
species	Prevotella oulorum	2	0
species	Prevotella pallens	2	0
species	Prevotella paludivivens	1	0
species	Prevotella pleuritidis	2	0
species	Prevotella saccharolytica	3	0
species	Prevotella salivae	3	0
species	Prevotella shahii	2	0
species	Prevotella sp.	5	0
species	Prevotella stercorea	2	0
species	Prevotella timonensis	1	0
species	Prevotella veroralis	2	0
species	Propionibacterium sp.	2	0
species	Proteus mirabilis	2	0
species	Proteus vulgaris	3	0
species	Pseudoflavonifractor capillosus	6	1
species	Pseudoflavonifractor sp.	2	0
species	Pseudomonas aeruginosa group	2	0
species	Pseudomonas putida	1	0
species	Pseudopedobacter saltans	1	0
species	Pseudopropionibacterium sp.	2	0
species	Pseudoramibacter alactolyticus	3	0
species	Pseudoramibacter sp.	1	0
species	Psychrobacillus sp.	1	0
species	Pyramidobacter piscolens	2	0
species	Pyramidobacter sp.	1	0
species	Raoultella sp.	3	0
species	Rikenella microfusus	3	0
species	Robinsoniella peoriensis	1	0
species	Robinsoniella sp.	1	0
species	Romboutsia ilealis	1	0
species	Romboutsia sp.	4	0
species	Roseburia faecis	3	32
species	Roseburia hominis	2	0
species	Roseburia intestinalis	3	1
species	Roseburia inulinivorans	7	4
species	Roseburia sp.	5	0
species	Rothia aeria	4	0
species	Rothia dentocariosa	5	0
species	Rothia mucilaginosa	3	0
species	Rothia sp.	3	0
species	Ruminiclostridium sp.	5	0
species	Ruminococcaceae bacterium D16	3	0
species	Ruminococcus albus	1	0
species	Ruminococcus bicirculans	1	0
species	Ruminococcus bromii	2	0
species	Ruminococcus callidus	2	0
species	Ruminococcus champanellensis	1	0
species	Ruminococcus faecis	0	1
species	Ruminococcus gauvreauii	2	0
species	Ruminococcus gnavus	10	0
species	Ruminococcus lactaris	1	0
species	Ruminococcus sp.	7	0
species	Ruminococcus torques	8	0
species	Salmonella enterica	1	0
species	Sanguibacteroides justesenii Sydenham et al. 2015	3	0
species	Scardovia inopinata	3	0
species	Scardovia wiggsiae	3	0
species	Selenomonas artemidis	3	0
species	Selenomonas flueggei	1	0
species	Selenomonas noxia	2	0
species	Selenomonas sputigena	3	0
species	Shuttleworthia satelles	2	0
species	Siccibacter sp.	1	0
species	Slackia exigua	3	0
species	Slackia piriformis	1	3
species	Slackia sp.	1	0
species	Sneathia sanguinegens	1	0
species	Solobacterium moorei	2	0
species	Sphingobacterium sp.	1	0
species	Staphylococcus aureus	5	0
species	Staphylococcus capitis	2	0
species	Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916	2	0
species	Staphylococcus pasteuri	2	0
species	Staphylococcus xylosus	2	0
species	Stenotrophomonas maltophilia	1	0
species	Stenotrophomonas maltophilia complex	1	0
species	Stomatobaculum longum	3	0
species	Streptococcus agalactiae	1	0
species	Streptococcus anginosus	3	0
species	Streptococcus australis	2	0
species	Streptococcus constellatus	2	0
species	Streptococcus cristatus	3	0
species	Streptococcus dysgalactiae	1	0
species	Streptococcus G418	6	0
species	Streptococcus gordonii	3	0
species	Streptococcus intermedius	2	0
species	Streptococcus massiliensis	2	0
species	Streptococcus mitis	6	0
species	Streptococcus mutans	2	0
species	Streptococcus oralis	3	0
species	Streptococcus oralis	3	0
species	Streptococcus orisratti	1	0
species	Streptococcus parauberis	1	0
species	Streptococcus peroris	2	0
species	Streptococcus pneumoniae	3	0
species	Streptococcus pyogenes	1	0
species	Streptococcus salivarius	3	0
species	Streptococcus sanguinis	4	0
species	Streptococcus sobrinus	2	0
species	Streptococcus thermophilus	5	0
species	Streptomyces cattleya	2	0
species	Subdoligranulum sp.	4	0
species	Subdoligranulum variabile	2	15
species	Succinatimonas hippei	1	0
species	Succinivibrio sp.	4	0
species	Sutterella sp.	6	0
species	Sutterella stercoricanis	0	2
species	Sutterella wadsworthensis	5	1
species	Synergistes jonesii	1	0
species	Syntrophomonas sp.	1	0
species	Tannerella forsythia	2	0
species	Tannerella sp.	2	0
species	Terrisporobacter sp.	2	0
species	Torulopsis	1	0
species	Treponema socranskii	1	0
species	Trichococcus sp.	1	0
species	Trueperella pyogenes	2	0
species	Turicibacter sanguinis	1	0
species	Tyzzerella nexilis	3	1
species	Tyzzerella sp.	4	0
species	Varibaculum sp.	2	0
species	Variovorax sp.	2	0
species	Veillonella atypica	3	0
species	Veillonella dispar	3	0
species	Veillonella montpellierensis	1	0
species	Veillonella parvula	3	0
species	Veillonella rogosae	5	0
species	Veillonella sp.	5	0
species	Veillonella tobetsuensis	3	0
species	Vibrio jejuni	1	0
species	Victivallis vadensis	2	0
species	VPI 1550	1	0
species	Weissella paramesenteroides	1	0
species	Wolinella recta	4	0
species	Yersinia ruckeri	1	0
strain	'Streptococcus oralis subsp. tigurinus'	2	0
strain	Anaerobutyricum hallii ATCC 27751	1	0
strain	Clostridium beijerinckii NCIMB 8052	1	0
strain	Saccharomyces cerevisiae	1	0
suborder	Coriobacterineae	1	0
subspecies	Bifidobacterium animalis subsp. lactis	1	0
subspecies	Bifidobacterium longum subsp. infantis	1	0
superphylum	Bacteroidetes/Chlorobi group	0	8

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