Name: Pyramidobacter porci SM-530-WT-4B
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159445

Type strain:

Species: Pyramidobacter porci

Strain Designation: SM-530-WT-4B

Culture col. no.: DSM 105193, JCM 34368

Strain history: B. Abt; DSMZ, Germany; DSM 105193 (=SM-530-WT-4B) <-- T. Clavel; RWTH Aachen, Germany.

NCBI tax ID(s): 2605789 (species)

SI-ID 400131

DSM 105193

Special Collections

Section

Pyramidobacter porci SM-530-WT-4B is an anaerobe, Gram-negative bacterium that was isolated from pig, WT, 37 weeks old, feces.

Gram-negative
anaerobe
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	*Synergistota*
	Class	*Synergistia*
	Order	*Synergistales*
	Family	*Synergistaceae*
	Genus	*Pyramidobacter*
	Species	**Pyramidobacter porci**
	Full Scientific Name (LPSN)	Pyramidobacter porci Wylensek et al. 2021

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66268]

Culture medium

WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)

[Ref.: #66268]

Culture medium growth

[Ref.: #66268]

Culture medium link

Medium recipe at MediaDive

[Ref.: #66268]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #66268]			growth	37 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %90.604

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

[Ref.: #66268]	Sample type/isolated from	pig, WT, 37 weeks old, feces
[Ref.: #66268]	Geographic location (country and/or sea, region)	Kranzberg (Bavaria)
[Ref.: #66268]	Country	Germany
[Ref.: #66268]	Country ISO 3 Code	DEU
[Ref.: #66268]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Feces of a German Landrace pig (minipig breed)
[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
* 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 MN537479 (>99% sequence identity) for Pyramidobacter porci subclade from Microbeatlas

Aquatic Samples	29
Soil Samples	90
Animal Samples	2500
Plant Samples	17
Total Samples	2636

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.: #66268]	Pyramidobacter porci strain SM-530-WT-4B 16S ribosomal RNA gene, partial sequence	MN537479	1481	GenBank ENA	2652283 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pyramidobacter porci SM-530-WT-4B	GCA_009695745	contig	GenBank ENA	2605789 tax ID	*
[Ref.: #66792]	Pyramidobacter sp. SM-530-WT-4B	2605789.3	wgs	PATRIC	2605789 tax ID	*
[Ref.: #66792]	Pyramidobacter porci SM-530-WT-4B	2890187157	draft	JGI IMG/M	2605789 tax ID	*

[Ref.: #67770]

GC-content

59.6 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Pyramidobacter sp. SM-530-WT-4B PATRIC: 2605789.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	71	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pyramidobacter sp. SM-530-WT-4B PATRIC: 2605789.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	80.028	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	90.604	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	80.853	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	95.612	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	85.142	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	86	no

Availability in culture collections External links

[Ref.: #66268]

Culture collection no.

DSM 105193, JCM 34368

[Ref.: #111939]

SI-ID 400131

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 )

#66268

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105193

#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 )

#111939

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-ID400131.1 )

* These data were automatically processed and therefore are not curated

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Pyramidobacter sp. SM-530-WT-4B

Pyramidobacter sp. SM-530-WT-4B

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