Clostridium paraputrificum (DSM 103826, J4)

Name: Clostridium paraputrificum (DSM 103826, J4)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131687

Type strain

Strain Designation J4

Culture col. no. DSM 103826 J4

NCBI tax ID(s) 29363

Special Collections DSMZ

History <- J. Simunek, Inst. Animal Physiol. and Genetics, Czech Acad. Sci., Prague <- H. Bartonova

Links

Clostridium paraputrificum J4 is a bacterium that was isolated from human feces.

16S sequence Bacteria

Name and taxonomic classification

SI-ID 401466

DSM 103826

@ref 20215

Last LPSN update 2026-02-09 11:31:31

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Clostridiaceae

Genus Clostridium

Species Clostridium paraputrificum

Full scientific name Clostridium paraputrificum (Bienstock 1906) Snyder 1936 (Approved Lists 1980)

Synonyms (1)

"Bacillus paraputrificus"

BacDive ID	Other strains from **Clostridium paraputrificum** (16)	Type strain
2624	C. paraputrificum DSM 2630, ATCC 25780, NCIB 10671, CCUG 32755, ... (type strain)
2623	C. paraputrificum Schubert, strain Schubert (Jena), DSM 661
2625	C. paraputrificum DSM 46280, IMET 10865, SG 1339
145054	C. paraputrificum CCUG 27528
145423	C. paraputrificum CCUG 28442
145729	C. paraputrificum CCUG 29418
146671	C. paraputrificum CCUG 31763
150022	C. paraputrificum CCUG 38856 A
150637	C. paraputrificum CCUG 41839
152166	C. paraputrificum CCUG 45954
156920	C. paraputrificum CCUG 67066
158914	C. paraputrificum H4_20, DSM 108201
160009	C. paraputrificum Cla-CZ-230, DSM 109054
163982	C. paraputrificum JCM 31254
165124	C. paraputrificum JCM 5236, VPI 1586
165125	C. paraputrificum JCM 5237, VPI 6372

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23483	PY + X MEDIUM (DSMZ Medium 104b)		Medium recipe at MediaDive	Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
23483	positive	growth	37

Physiology and metabolism

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	starch degradation	100	10 of 10
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	adipate degradation	100	2 of 2
66794	vitamin B1 metabolism	92.31	12 of 13
66794	palmitate biosynthesis	90.91	20 of 22
66794	chorismate metabolism	88.89	8 of 9
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	hydrogen production	80	4 of 5
66794	pyrimidine metabolism	80	36 of 45
66794	cellulose degradation	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	glycine betaine biosynthesis	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	threonine metabolism	80	8 of 10
66794	purine metabolism	79.79	75 of 94
66794	serine metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	glycolysis	76.47	13 of 17
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	NAD metabolism	72.22	13 of 18
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	photosynthesis	71.43	10 of 14
66794	non-pathway related	71.05	27 of 38
66794	phenylalanine metabolism	69.23	9 of 13
66794	alanine metabolism	68.97	20 of 29
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	degradation of hexoses	66.67	12 of 18
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	nitrate assimilation	66.67	6 of 9
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	histidine metabolism	65.52	19 of 29
66794	methionine metabolism	65.38	17 of 26
66794	glutathione metabolism	64.29	9 of 14
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	heme metabolism	64.29	9 of 14
66794	pentose phosphate pathway	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	isoleucine metabolism	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	leucine metabolism	61.54	8 of 13
66794	glutamate and glutamine metabolism	60.71	17 of 28
66794	oxidative phosphorylation	60.44	55 of 91
66794	methylglyoxal degradation	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	propanol degradation	57.14	4 of 7
66794	cysteine metabolism	55.56	10 of 18
66794	tryptophan metabolism	55.26	21 of 38
66794	lipid metabolism	54.84	17 of 31
66794	metabolism of disaccharids	54.55	6 of 11
66794	urea cycle	53.85	7 of 13
66794	toluene degradation	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	CMP-KDO biosynthesis	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	biotin biosynthesis	50	2 of 4
66794	selenocysteine biosynthesis	50	3 of 6
66794	butanoate fermentation	50	2 of 4
66794	citric acid cycle	50	7 of 14
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	ketogluconate metabolism	50	4 of 8
66794	phenylmercury acetate degradation	50	1 of 2
66794	proline metabolism	45.45	5 of 11
66794	lysine metabolism	45.24	19 of 42
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	propionate fermentation	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	flavin biosynthesis	40	6 of 15
66794	coenzyme M biosynthesis	40	4 of 10
66794	degradation of pentoses	39.29	11 of 28
66794	arachidonic acid metabolism	38.89	7 of 18
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	sulfate reduction	38.46	5 of 13
66794	vitamin B12 metabolism	38.24	13 of 34
66794	tyrosine metabolism	35.71	5 of 14
66794	enterobactin biosynthesis	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	sphingosine metabolism	33.33	2 of 6
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	polyamine pathway	30.43	7 of 23
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	ascorbate metabolism	27.27	6 of 22
66794	vitamin B6 metabolism	27.27	3 of 11
66794	degradation of sugar alcohols	25	4 of 16
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	carnitine metabolism	25	2 of 8
66794	androgen and estrogen metabolism	25	4 of 16
66794	degradation of sugar acids	24	6 of 25
66794	allantoin degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
23483	human feces	Czech Republic	CZE	Europe

Taxonmaps

69479

Global distribution of 16S sequence KX766027 (>99% sequence identity) for Clostridium paraputrificum subclade from Microbeatlas

Aquatic Samples	4616
Soil Samples	2219
Animal Samples	54761
Plant Samples	345
Total Samples	61941

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
23483	2	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
23483	Clostridium paraputrificum strain J4 16S ribosomal RNA gene, partial sequence	KX766027	1442		29363

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	Microbiota-derived bile acids antagonize the host androgen receptor and drive anti-tumor immunity.	Jin WB, Xiao L, Jeong M, Han SJ, Zhang W, Yano H, Shi H, Arifuzzaman M, Lyu M, Wang D, Tang YA, Qiao S, JRI IBD Live Cell Bank Consortium, Yang X, Yang HS, Fu J, Sonnenberg GF, Collins N, Artis D, Guo CJ.	Cell	10.1016/j.cell.2025.02.029	2025

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 )
#23483	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103826
#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 )
#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 .
#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 )

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Clostridium paraputrificum (DSM 103826, J4)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

Genome-based predictions

Literature

Literature

References

BacDive

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