Paeniclostridium sordellii (DSM 29974, MJJO609-3-1)

Name: Paeniclostridium sordellii (DSM 29974, MJJO609-3-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130928

Type strain

Strain Designation MJJO609-3-1

Culture col. no. DSM 29974 MJJO609-3-1

NCBI tax ID(s) 1505

Special Collections DSMZ Mouse DZIF

Links

Paeniclostridium sordellii MJJO609-3-1 is an anaerobe, spore-forming, mesophilic human pathogen that was isolated from wild mouse.

spore-forming rod-shaped anaerobe mesophilic human pathogen genome sequence 16S sequence

Name and taxonomic classification

SI-ID 398291

DSM 29974

@ref 20215

Last LPSN update 2025-12-16 10:01:07

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Peptostreptococcales

Family Peptostreptococcaceae

Genus Paeniclostridium

Species Paeniclostridium sordellii

Full scientific name Paeniclostridium sordellii (Hall and Scott 1927) Sasi Jyothsna et al. 2016

Synonyms (3)

Clostridium sordellii
Paraclostridium sordellii
"Bacillus sordellii"

BacDive ID	Other strains from **Paeniclostridium sordellii** (9)	Type strain
2666	P. sordellii 211, DSM 2141, ATCC 9714, NCIB 10717, CCUG ... (type strain)
139094	P. sordellii LRA 051 07 89, CIP 103710, JCM 11011
139417	P. sordellii 82, CIP 60.18
141754	P. sordellii CCUG 6329, NCTC 8780
147226	P. sordellii CCUG 33098
149145	P. sordellii CCUG 36938
151037	P. sordellii CCUG 43123
155970	P. sordellii CCUG 59819
156626	P. sordellii CCUG 63734

Morphology

Cell morphology

@ref	Cell shape
68367	rod-shaped	from API 20A
68367		from API 20A

Colony morphology

22220

Incubation period2-3 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22220	FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)		Medium recipe at MediaDive	Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water
22220	WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)		Medium recipe at MediaDive	Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22220	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

22220

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation
68367		from API 20A

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68367	17057 ChEBI	cellobiose	-	builds acid from	from API 20A
68367	17634 ChEBI	D-glucose	+	builds acid from	from API 20A
68367	16899 ChEBI	D-mannitol	-	builds acid from	from API 20A
68367	16024 ChEBI	D-mannose	-	builds acid from	from API 20A
68367	65327 ChEBI	D-xylose	-	builds acid from	from API 20A
68367	4853 ChEBI	esculin	+	hydrolysis	from API 20A
68367	5291 ChEBI	gelatin	+	hydrolysis	from API 20A
68367	17754 ChEBI	glycerol	-	builds acid from	from API 20A
68367	30849 ChEBI	L-arabinose	-	builds acid from	from API 20A
68367	62345 ChEBI	L-rhamnose	-	builds acid from	from API 20A
68367	17716 ChEBI	lactose	-	builds acid from	from API 20A
68367	17306 ChEBI	maltose	+	builds acid from	from API 20A
68367	6731 ChEBI	melezitose	-	builds acid from	from API 20A
68367	16634 ChEBI	raffinose	-	builds acid from	from API 20A
68367	17814 ChEBI	salicin	-	builds acid from	from API 20A
68367	30911 ChEBI	sorbitol	-	builds acid from	from API 20A
68367	17992 ChEBI	sucrose	-	builds acid from	from API 20A
68367	27082 ChEBI	trehalose	-	builds acid from	from API 20A
68367	27897 ChEBI	tryptophan	+	energy source	from API 20A
68367	16199 ChEBI	urea	-	hydrolysis	from API 20A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68367	35581 ChEBI	indole		from API 20A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68367	35581 ChEBI	indole	+	from API 20A

Enzymes

@ref	Value	Activity	Ec
68367	beta-glucosidase	+	3.2.1.21	from API 20A
68367	catalase	+	1.11.1.6	from API 20A
68367	gelatinase	+		from API 20A
68367	urease	-	3.5.1.5	from API 20A

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	gluconeogenesis	100	8 of 8
66794	L-lactaldehyde degradation	100	3 of 3
66794	biotin biosynthesis	100	4 of 4
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	phenylmercury acetate degradation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	aminopropanol phosphate biosynthesis	100	2 of 2
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	purine metabolism	80.85	76 of 94
66794	glycine betaine biosynthesis	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	lipoate biosynthesis	80	4 of 5
66794	cellulose degradation	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	alanine metabolism	79.31	23 of 29
66794	heme metabolism	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	vitamin B1 metabolism	76.92	10 of 13
66794	CMP-KDO biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	pyrimidine metabolism	73.33	33 of 45
66794	flavin biosynthesis	73.33	11 of 15
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	starch degradation	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	urea cycle	69.23	9 of 13
66794	acetoin degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	serine metabolism	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	cyanate degradation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	glycolysis	64.71	11 of 17
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	isoleucine metabolism	62.5	5 of 8
66794	NAD metabolism	61.11	11 of 18
66794	glutamate and glutamine metabolism	60.71	17 of 28
66794	non-pathway related	60.53	23 of 38
66794	factor 420 biosynthesis	60	3 of 5
66794	threonine metabolism	60	6 of 10
66794	myo-inositol biosynthesis	60	6 of 10
66794	Entner Doudoroff pathway	60	6 of 10
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	propanol degradation	57.14	4 of 7
66794	oxidative phosphorylation	56.04	51 of 91
66794	degradation of hexoses	55.56	10 of 18
66794	valine metabolism	55.56	5 of 9
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	phenylalanine metabolism	53.85	7 of 13
66794	isoprenoid biosynthesis	50	13 of 26
66794	butanoate fermentation	50	2 of 4
66794	ketogluconate metabolism	50	4 of 8
66794	ribulose monophosphate pathway	50	1 of 2
66794	adipate degradation	50	1 of 2
66794	suberin monomers biosynthesis	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	lactate fermentation	50	2 of 4
66794	propionate fermentation	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	arginine metabolism	50	12 of 24
66794	sulfopterin metabolism	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	lipid metabolism	48.39	15 of 31
66794	histidine metabolism	48.28	14 of 29
66794	tryptophan metabolism	47.37	18 of 38
66794	sulfate reduction	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	pentose phosphate pathway	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	lysine metabolism	42.86	18 of 42
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	creatinine degradation	40	2 of 5
66794	degradation of sugar acids	40	10 of 25
66794	arachidonate biosynthesis	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	leucine metabolism	38.46	5 of 13
66794	metabolism of disaccharids	36.36	4 of 11
66794	degradation of pentoses	35.71	10 of 28
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	methane metabolism	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	sphingosine metabolism	33.33	2 of 6
66794	ascorbate metabolism	31.82	7 of 22
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	coenzyme M biosynthesis	30	3 of 10
66794	tyrosine metabolism	28.57	4 of 14
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	vitamin B6 metabolism	27.27	3 of 11
66794	degradation of sugar alcohols	25	4 of 16
66794	catecholamine biosynthesis	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	carnitine metabolism	25	2 of 8
66794	arachidonic acid metabolism	22.22	4 of 18
66794	glutathione metabolism	21.43	3 of 14

API 20A

@ref	IND	URE	GLU	MAN	LAC	SAC	MAL	SAL	XYL	ARA	GEL	ESC	GLY	CEL	MNE	MLZ	RAF	SOR	RHA	TRE	CAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
22220	+	-	+	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
22220	+	-	+	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	-	+	+	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
22220	wild mouse	Freising	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence KR364762 (>99% sequence identity) for Paeniclostridium sordellii from Microbeatlas

Aquatic Samples	4522
Soil Samples	4480
Animal Samples	35570
Plant Samples	2044
Total Samples	46616

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Pathogenicity animal	Biosafety level	Biosafety level comment
22220			2	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM2462213v1 assembly for Paraclostridium sordellii DSM 29974	contig	GCA_024622135	1505.143	1505	73.7

Genome browser: GCA_024622135

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22220	Paraclostridium sordellii strain MJJ0609-3-1 16S ribosomal RNA gene, partial sequence	KR364762	1437		1796621

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paeniclostridium sordellii DSM 29974
NCBI: GCA_024622135.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	74.78	yes
125438	anaerobic	anaerobicⓘ	yes	86.88	no
125438	aerobic	aerobicⓘ	no	95.47	no
125438	spore-forming	spore-formingⓘ	yes	69.42	no
125438	thermophilic	thermophileⓘ	no	91.91	no
125438	flagellated	motile2+ⓘ	yes	74.78	no

Literature

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 )
#22220	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29974
#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 )
#68367	Automatically annotated from API 20A .
#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 )
#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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