Hespellia stercorisuis (DSM 15480, ATCC BAA-677, CCUG 46279)

Name: Hespellia stercorisuis (DSM 15480, ATCC BAA-677, CCUG 46279)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6356

Type strain

Strain Designation PC18

Culture col. no. DSM 15480 ATCC BAA-677 CCUG 46279 NRRL B-23456 CIP 108344 1 more

NCBI tax ID(s) 1121950 180311

Special Collections DSMZ CCUG CIP Literature strains

History <- T. R. Whitehead, National Center for Agricultural Utilization Research, USDA, Peoria, USA; PC18 <- T. R. Whitehead {1998} CIP <- 2004, CCUG <- 2002, T.R. Whitehead, USDA, Peoria, USA: strain PC18

Links

Hespellia stercorisuis PC18 is an anaerobe, Gram-positive, rod-shaped bacterium that was isolated from stored swine manure.

Gram-positive rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 130840

ATCC BAA-677,CCUG 46279,NRRL B-23456,DSM 15480,ATCC BAA-676,CIP 108344

@ref 20215

Last LPSN update 2026-02-09 11:19:11

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Hespellia

Species Hespellia stercorisuis

Full scientific name Hespellia stercorisuis Whitehead et al. 2004

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
29938	positive	1.5-5.0 µm	0.5-1.0 µm	rod-shaped
123317	positive			rod-shaped

Colony morphology

57136

Incubation period3 days

Pigmentation

29938

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5950	WILKINS-CHALGREN ANAEROBE BROTH (N2/CO2) (DSMZ Medium 339a)	Medium recipe at MediaDive	Name: WILKINS-CHALGREN ANAEROBE BROTH (N2/CO2) (DSMZ Medium 339a) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l D-Glucose 5.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water
5950	CMC MEDIUM (N2/CO2) (DSMZ Medium 110a)	Medium recipe at MediaDive	Name: CMC MEDIUM (N2/CO2) (DSMZ Medium 110a) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Yeast extract 5.0 g/l K2HPO4 5.0 g/l D-Glucose 4.0 g/l Na2CO3 1.5 g/l Cellobiose 1.0 g/l Maltose 1.0 g/l Starch 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l Sodium resazurin 0.0005 g/l NaOH Distilled water
36724	MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and Neisseria		Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml);PolyVitex mischung (10.000 ml)
123317	CIP Medium 45	Medium recipe at CIP
123317	CIP Medium 10	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5950	positive	growth	37
29938	positive	optimum	37
36724	positive	growth	37
57136	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
5950	anaerobe
29938	anaerobe
57136	anaerobe
125439	anaerobe	99.7

Spore formation

29938

Spore formationno

Observation

29938

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29938	17057 ChEBI	cellobiose	+	carbon source
29938	28757 ChEBI	fructose	+	carbon source
29938	17234 ChEBI	glucose	+	carbon source
29938	17306 ChEBI	maltose	+	carbon source
29938	37684 ChEBI	mannose	+	carbon source
123317	17632 ChEBI	nitrate	-	reduction
123317	16301 ChEBI	nitrite	-	reduction
29938	30911 ChEBI	sorbitol	+	carbon source
29938	17992 ChEBI	sucrose	+	carbon source
29938	27082 ChEBI	trehalose	+	carbon source
29938	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123317	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123317	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
123317	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
123317	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	L-lactaldehyde degradation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	starch degradation	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	threonine metabolism	90	9 of 10
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	vitamin B1 metabolism	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	Entner Doudoroff pathway	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	flavin biosynthesis	80	12 of 15
66794	photosynthesis	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	glutamate and glutamine metabolism	75	21 of 28
66794	ppGpp biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	ketogluconate metabolism	75	6 of 8
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	pyrimidine metabolism	71.11	32 of 45
66794	glycolysis	70.59	12 of 17
66794	vitamin B12 metabolism	70.59	24 of 34
66794	acetoin degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	serine metabolism	66.67	6 of 9
66794	methane metabolism	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	formaldehyde oxidation	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	histidine metabolism	65.52	19 of 29
66794	degradation of sugar acids	64	16 of 25
66794	d-xylose degradation	63.64	7 of 11
66794	vitamin B6 metabolism	63.64	7 of 11
66794	leucine metabolism	61.54	8 of 13
66794	methionine metabolism	61.54	16 of 26
66794	tryptophan metabolism	60.53	23 of 38
66794	oxidative phosphorylation	60.44	55 of 91
66794	glycine betaine biosynthesis	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	lipoate biosynthesis	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	alanine metabolism	58.62	17 of 29
66794	citric acid cycle	57.14	8 of 14
66794	tetrahydrofolate metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	proline metabolism	54.55	6 of 11
66794	lysine metabolism	52.38	22 of 42
66794	lipid metabolism	51.61	16 of 31
66794	ribulose monophosphate pathway	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	suberin monomers biosynthesis	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	coenzyme A metabolism	50	2 of 4
66794	isoprenoid biosynthesis	50	13 of 26
66794	phenylmercury acetate degradation	50	1 of 2
66794	biotin biosynthesis	50	2 of 4
66794	vitamin E metabolism	50	2 of 4
66794	cysteine metabolism	50	9 of 18
66794	butanoate fermentation	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	urea cycle	46.15	6 of 13
66794	arginine metabolism	45.83	11 of 24
66794	pentose phosphate pathway	45.45	5 of 11
66794	metabolism of disaccharids	45.45	5 of 11
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	glycine metabolism	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	methylglyoxal degradation	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	degradation of pentoses	39.29	11 of 28
66794	heme metabolism	35.71	5 of 14
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	lipid A biosynthesis	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	sulfate reduction	30.77	4 of 13
66794	myo-inositol biosynthesis	30	3 of 10
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	glutathione metabolism	28.57	4 of 14
66794	tyrosine metabolism	28.57	4 of 14
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	phenol degradation	25	5 of 20
66794	toluene degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	nitrate assimilation	22.22	2 of 9
66794	polyamine pathway	21.74	5 of 23

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
123317	-	-	+	+	-	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Suidae (Pig,Swine)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
5950	stored swine manure		Illinois, Peoria	USA	USA	North America
57136	Swine manure,stored	1998-07-01	Illinois,Eureka	USA	USA	North America
123317	Swine manure, stored		Illinois	United States of America	USA	North America	1998

Taxonmaps

69479

Global distribution of 16S sequence AF445264 (>99% sequence identity) for Hespellia stercorisuis subclade from Microbeatlas

Aquatic Samples	219
Soil Samples	18
Animal Samples	1451
Plant Samples	24
Total Samples	1712

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5950	1	Risk group (German classification) According to TRBA 466
123317	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2585428171 annotated assembly for Hespellia stercorisuis DSM 15480	scaffold	GCA_900142165	1121950.3	2585428171	1121950	43.4

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5950	Hespellia stercorisuis strain PPC18 16S ribosomal RNA gene, partial sequence	AF445264	1469		180311

GC content

5950

GC-content (mol%)43.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Hespellia stercorisuis DSM 15480
NCBI: GCA_900142165

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	83.10	no
125439	motility	BacteriaNetⓘ	yes	82.50	no
125439	gram_stain	BacteriaNetⓘ	variable	83.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Hespellia stercorisuis DSM 15480 DSM 15480
NCBI: GCA_900142165.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	79.36	yes
125438	anaerobic	anaerobicⓘ	yes	88.15	no
125438	aerobic	aerobicⓘ	no	95.19	yes
125438	spore-forming	spore-formingⓘ	no	52.15	no
125438	thermophilic	thermophileⓘ	no	95.06	no
125438	flagellated	motile2+ⓘ	no	81.62	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Complete Genome Sequence of Methanofollis formosanus DSM 15483^T, Isolated from an Aquaculture Fish Pond.	Chen SC, Wu CH, You YT, Wu SY, Liao CH, Wang X, Li H, Guo Y, You J, Qiu W.	Microbiol Resour Announc	10.1128/mra.00068-22	2022
Metabolism	Milk Formula Diet Alters Bacterial and Host Protein Profile in Comparison to Human Milk Diet in Neonatal Piglet Model.	Rosa F, Zybailov BL, Glazko GV, Rahmatallah Y, Byrum S, Mackintosh SG, Bowlin AK, Yeruva L.	Nutrients	10.3390/nu13113718	2021
Phylogeny	Different fecal microbiotas and volatile organic compounds in treated and untreated children with celiac disease.	Di Cagno R, Rizzello CG, Gagliardi F, Ricciuti P, Ndagijimana M, Francavilla R, Guerzoni ME, Crecchio C, Gobbetti M, De Angelis M.	Appl Environ Microbiol	10.1128/aem.02793-08	2009
Phylogeny	Hespellia stercorisuis gen. nov., sp. nov. and Hespellia porcina sp. nov., isolated from swine manure storage pits.	Whitehead TR, Cotta MA, Collins MD, Lawson PA	Int J Syst Evol Microbiol	10.1099/ijs.0.02719-0	2004

References

#5950	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15480
#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 )
#26309	IJSEM 241 2004 ( DOI 10.1099/ijs.0.02719-0 , PubMed 14742487 )
#29938	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26309
#36724	; Curators of the CIP;
#57136	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 46279
#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 )
#68382	Automatically annotated from API zym .
#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 .
#123317	Collection of Institut Pasteur ; Curators of the CIP; CIP 108344
#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 )

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Hespellia stercorisuis (DSM 15480, ATCC BAA-677, CCUG 46279)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Metabolite production

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900142165

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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