Peptoniphilus coxii (CCUG 59622, JCM 16892, ATCC BAA-2106)

Name: Peptoniphilus coxii (CCUG 59622, JCM 16892, ATCC BAA-2106)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 155907

Type strain

Culture col. no. CCUG 59622 JCM 16892 ATCC BAA-2106 KCTC 15410

NCBI tax ID(s) 755172

Special Collections CCUG JCM KCTC

History JCM <-- K. L. Tyrrell RMA 16757.

Links

Peptoniphilus coxii CCUG 59622 is an anaerobe bacterium that was isolated from Human wound,leg.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 411307

ATCC BAA-2106,JCM 16892,CCUG 59622

@ref 20215

Last LPSN update 2026-05-29 08:43:23

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Tissierellales

Family Peptoniphilaceae

Genus Peptoniphilus

Species Peptoniphilus coxii

Full scientific name Peptoniphilus coxii Citron et al. 2013

Synonyms (1)

Aedoeadaptatus coxii

Morphology

Colony morphology

62039

Incubation period1 day

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
62039	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
62039	anaerobe
125438	anaerobe	92.303
125439	obligate anaerobe	99.366

Spore formation

@ref	Spore formation	Confidence
125439		99.21

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	coenzyme A metabolism	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	threonine metabolism	90	9 of 10
66794	valine metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	palmitate biosynthesis	86.36	19 of 22
66794	NAD metabolism	83.33	15 of 18
66794	peptidoglycan biosynthesis	80	12 of 15
66794	cellulose degradation	80	4 of 5
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	glycogen biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	photosynthesis	71.43	10 of 14
66794	vitamin B12 metabolism	70.59	24 of 34
66794	phenylalanine metabolism	69.23	9 of 13
66794	formaldehyde oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	pyrimidine metabolism	64.44	29 of 45
66794	hydrogen production	60	3 of 5
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	purine metabolism	59.57	56 of 94
66794	glycolysis	58.82	10 of 17
66794	heme metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	serine metabolism	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	glutamate and glutamine metabolism	53.57	15 of 28
66794	alanine metabolism	51.72	15 of 29
66794	oxidative phosphorylation	50.55	46 of 91
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	acetate fermentation	50	2 of 4
66794	biotin biosynthesis	50	2 of 4
66794	ketogluconate metabolism	50	4 of 8
66794	isoleucine metabolism	50	4 of 8
66794	citric acid cycle	50	7 of 14
66794	methionine metabolism	46.15	12 of 26
66794	vitamin B6 metabolism	45.45	5 of 11
66794	chorismate metabolism	44.44	4 of 9
66794	tetrahydrofolate metabolism	42.86	6 of 14
66794	methylglyoxal degradation	40	2 of 5
66794	propionate fermentation	40	4 of 10
66794	factor 420 biosynthesis	40	2 of 5
66794	starch degradation	40	4 of 10
66794	non-pathway related	39.47	15 of 38
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	37.5	3 of 8
66794	C4 and CAM-carbon fixation	37.5	3 of 8
66794	tryptophan metabolism	36.84	14 of 38
66794	proline metabolism	36.36	4 of 11
66794	pentose phosphate pathway	36.36	4 of 11
66794	glutathione metabolism	35.71	5 of 14
66794	lipid metabolism	35.48	11 of 31
66794	histidine metabolism	34.48	10 of 29
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	IAA biosynthesis	33.33	1 of 3
66794	L-lactaldehyde degradation	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	pantothenate biosynthesis	33.33	2 of 6
66794	nitrate assimilation	33.33	3 of 9
66794	enterobactin biosynthesis	33.33	1 of 3
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	lysine metabolism	30.95	13 of 42
66794	leucine metabolism	30.77	4 of 13
66794	sulfate reduction	30.77	4 of 13
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	glycine metabolism	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	degradation of hexoses	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	metabolism of disaccharids	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	degradation of sugar alcohols	25	4 of 16
66794	urea cycle	23.08	3 of 13
66794	ascorbate metabolism	22.73	5 of 22
66794	lipid A biosynthesis	22.22	2 of 9
66794	d-mannose degradation	22.22	2 of 9
66794	polyamine pathway	21.74	5 of 23
66794	degradation of pentoses	21.43	6 of 28
66794	tyrosine metabolism	21.43	3 of 14

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body-Site	#Other	#Wound
#Host Body-Site	#Limb	#Leg
#Infection	#Patient	-

Isolation

@ref	Sample type	Host species	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
62039	Human wound,leg	Homo sapiens	2007-08-01	CA,Santa Monica	USA	USA	North America
67770	Human clinical specimen	Homo sapiens

Taxonmaps

69479

Global distribution of 16S sequence GU938836 (>99% sequence identity) for Peptoniphilus coxii subclade from Microbeatlas

Aquatic Samples	1113
Soil Samples	819
Animal Samples	67578
Plant Samples	247
Total Samples	69757

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	CCUG59621 assembly for Peptoniphilus tyrrelliae	scaffold	GCA_910592365	755171.3	755171	45.04

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Peptoniphilus coxii strain RMA 16757 16S ribosomal RNA gene, partial sequence	GU938836	1465		755172

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: CCUG59621 assembly for Peptoniphilus tyrrelliae
NCBI: GCA_910592365

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	99.37	no
125439	gram_stain	BacteriaNetⓘ	positive	89.68	no
125439	spore_formation	BacteriaNetⓘ	no	99.21	no
125439	motility	BacteriaNetⓘ	no	76.57	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Peptoniphilus sp. 1804121828
PATRIC: 2582829.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	81.77	no
125438	anaerobic	anaerobicⓘ	yes	92.30	yes
125438	spore-forming	spore-formingⓘ	no	68.79	no
125438	aerobic	aerobicⓘ	no	96.90	yes
125438	thermophilic	thermophileⓘ	no	89.68	yes
125438	flagellated	motile2+ⓘ	no	84.28	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Peptoniphilus coli sp. nov. and Peptoniphilus urinae sp. nov., isolated from humans.	Mbaye B, Lo CI, Dione N, Benabdelkader S, Tidjani Alou M, Brahimi S, Armstrong N, Alibar S, Raoult D, Moal V, Million M, Fournier PE, Fenollar F.	Arch Microbiol	10.1007/s00203-022-03044-z	2022
Phylogeny	Peptoniphilus coxii sp. nov. and Peptoniphilus tyrrelliae sp. nov. isolated from human clinical infections.	Citron DM, Tyrrell KL, Goldstein EJ	Anaerobe	10.1016/j.anaerobe.2011.11.008	2011

References

#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#62039	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59622
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

Content

About us

Peptoniphilus coxii (CCUG 59622, JCM 16892, ATCC BAA-2106)

Name and taxonomic classification

Morphology

Colony morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_910592365

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media