Name: Clostridium porci WCA-389-WT-23D1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159188

Type strain:

Species: Clostridium porci

Strain Designation: WCA-389-WT-23D1

Culture col. no.: DSM 100959, JCM 34385

Strain history: B. Abt; DSMZ, Germany; DSM 100959 (=WCA-389-WT-23D1) <-- T. Clavel; RWTH Aachen, Germany.

NCBI tax ID(s): 2605778 (species)

SI-ID 403330

DSM 100959

Section

Clostridium porci WCA-389-WT-23D1 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from feces; pig, 8 weeks old, wild type.

Gram-positive
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Clostridiaceae*
	Genus	*Clostridium*
	Species	**Clostridium porci**
	Full Scientific Name (LPSN)	Clostridium porci Wylensek et al. 2021

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #69645]	Cell shape	rod-shaped

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66011]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #66011]

Culture medium growth

[Ref.: #66011]

Culture medium link

Medium recipe at MediaDive

[Ref.: #66011]

Culture medium composition

expand / minimize

[Ref.: #69645]

Culture medium

Wilkins-Chalgren Anaerobe broth

[Ref.: #69645]

Culture medium growth

[Ref.: #69645]

Culture medium composition

expand / minimize

[Ref.: #69645]

Culture medium

modified YCFA

[Ref.: #69645]

Culture medium growth

		Temperature
[Ref.: #66011]	growth	37 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #69645]	growth	37 °C

[Ref.: #66011]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #69645]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69645]	Oxygen tolerance	obligate anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.907

[Ref.: #69645]

Observation

Cells often occur in pairs

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69645]		glucose ChEBI	+	assimilation

	Metabolite	Production
[Ref.: #69645]	acetate ChEBI	yes
[Ref.: #69645]	formate ChEBI	yes
[Ref.: #69645]	isobutyrate ChEBI	yes

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #66011]	Sample type/isolated from	feces; pig, 8 weeks old, wild type
[Ref.: #66011]	Geographic location (country and/or sea, region)	Kranzberg (Bavaria)
[Ref.: #66011]	Country	Germany
[Ref.: #66011]	Country ISO 3 Code	DEU
[Ref.: #66011]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Feces of a German Landrace pig
[Ref.: #67770]	Geographic location (country and/or sea, region)	Freising
[Ref.: #67770]	Country	Germany
[Ref.: #67770]	Country ISO 3 Code	DEU
[Ref.: #67770]	Continent	Europe

[Ref.: #69645]	Sample type/isolated from	Pig feces
[Ref.: #69645]	Geographic location (country and/or sea, region)	Thalhausen, Bavaria
[Ref.: #69645]	Country	Germany
[Ref.: #69645]	Country ISO 3 Code	DEU
[Ref.: #69645]	Continent	Europe
[Ref.: #69645]	Enrichment culture	Wilkins-Chalgren Anaerobe broth
[Ref.: #69645]	Enrichment culture duration	1-3 days
[Ref.: #69645]	Enrichment culture temperature	37 ̊C
[Ref.: #69645]	Isolation/enrichment procedure	anaerobic
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence MN537446 (>99% sequence identity) for Clostridium porci subclade from Microbeatlas

Aquatic Samples	95
Soil Samples	191
Animal Samples	13250
Plant Samples	37
Total Samples	13573

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66011]	Clostridium sp. DSM 100959 16S ribosomal RNA gene, partial sequence	MN537446	1468	ENA	2652270 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #69645]	Whole genome shotgun	VUMD00000000		GenBank	2605778 tax ID
[Ref.: #66792]	Clostridium porci WCA-389-WT-23D1	GCA_009696375	contig	GenBank	2605778 tax ID	*
[Ref.: #66792]	Clostridium sp. WCA-389-WT-23D1	2605778.3	wgs	PATRIC	2605778 tax ID	*

[Ref.: #69645]

GC-content

46.2 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Clostridium sp. WCA-389-WT-23D1 PATRIC: 2605778.3
[Ref.: #69481]	spore-forming	yes	77	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Clostridium sp. WCA-389-WT-23D1 PATRIC: 2605778.3
[Ref.: #69480]	motile	yes	76.243	no
[Ref.: #69480]	gram-positive	yes	86.331	no
[Ref.: #69480]	anaerobic	yes	99.5	no
[Ref.: #69480]	aerobic	no	97.904	no
[Ref.: #69480]	halophile	no	92.903	no
[Ref.: #69480]	spore-forming	yes	74.105	no
[Ref.: #69480]	glucose-util	yes	88.376	no
[Ref.: #69480]	flagellated	no	62.25	no
[Ref.: #69480]	thermophile	no	87.585	no
[Ref.: #69480]	glucose-ferment	yes	80.322	no

Availability in culture collections External links

[Ref.: #66011]

Culture collection no.

DSM 100959, JCM 34385

[Ref.: #111691]

SI-ID 403330

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 )

#66011

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100959

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#69645

David Wylensek, Thomas C. A. Hitch, Thomas Riedel, Afrizal Afrizal, Neeraj Kumar, Esther Wortmann, Tianzhe Liu, Saravanan Devendran, Till R. Lesker, Sara B. Hernández, Viktoria Heine, Eva M. Buhl, Paul M. D'Agostino, Fabio Cumbo, Thomas Fischöder, Marzena Wyschkon, Torey Looft, Valeria R. Parreira, Birte Abt, Heidi L. Doden, Lindsey Ly, João M. P. Alves, Markus Reichlin, Krzysztof Flisikowski, Laura Navarro Suarez, Anthony P. Neumann, Garret Suen, Tomas de Wouters, Sascha Rohn, Ilias Lagkouvardos, Emma Allen-Vercoe, Cathrin Spröer, Boyke Bunk, Anja J. Taverne-Thiele, Marcel Giesbers, Jerry M. Wells, Klaus Neuhaus, Angelika Schnieke, Felipe Cava, Nicola Segata, Lothar Elling, Till Strowig, Jason M. Ridlon, Tobias A. M. Gulder, Jörg Overmann, Thomas Clavel: A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity. Nat. Commun. 11: 2020 ( DOI 10.1038/s41467-020-19929-w )

#111691

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID403330.1 )

* These data were automatically processed and therefore are not curated

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Clostridium sp. WCA-389-WT-23D1

Clostridium sp. WCA-389-WT-23D1

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