Pyramidobacter porci (DSM 105193, SM-530-WT-4B, JCM 34368)

Name: Pyramidobacter porci (DSM 105193, SM-530-WT-4B, JCM 34368)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159445

Type strain

Strain Designation SM-530-WT-4B

Culture col. no. DSM 105193 SM-530-WT-4B JCM 34368

NCBI tax ID(s) 2605789

Special Collections DSMZ JCM Pig DZIF

History DSMZ <- T. Clavel , TU Munich, Freising-Weihenstephan, Germany; JCM <-- B. Abt; DSMZ, Germany; DSM 105193 (=SM-530-WT-4B) <-- T. Clavel; RWTH Aachen, Germany.

Links

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

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 400131

JCM 34368,DSM 105193

@ref 20215

Last LPSN update 2026-05-29 08:44:11

Domain Bacteria

Phylum Synergistota

Class Synergistia

Order Synergistales

Family Dethiosulfovibrionaceae

Genus Pyramidobacter

Species Pyramidobacter porci

Full scientific name Pyramidobacter porci Wylensek et al. 2021

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	91.682

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
66268	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)
66268	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	anaerobe	90.604

Spore formation

@ref	Spore formation	Confidence
125439		99.556

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
66268	pig, WT, 37 weeks old, feces	Kranzberg (Bavaria)	Germany	DEU	Europe
67770	Feces of a German Landrace pig (minipig breed)	Freising	Germany	DEU	Europe

Taxonmaps

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

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM969574v1 assembly for Pyramidobacter porci SM-530-WT-4B	contig	GCA_009695745	2605789.3	2890187157	2605789	72.81

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66268	Pyramidobacter porci strain SM-530-WT-4B 16S ribosomal RNA gene, partial sequence	MN537479	1481		2652283

GC content

@ref	GC-content (mol%)	Method
67770	59.6	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM969574v1 assembly for Pyramidobacter porci SM-530-WT-4B
BV-BRC: 2605789.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	89.64	no
125439	gram_stain	BacteriaNetⓘ	negative	91.68	no
125439	motility	BacteriaNetⓘ	yes	63.20	no
125439	spore_formation	BacteriaNetⓘ	no	99.56	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pyramidobacter sp. SM-530-WT-4B
PATRIC: 2605789.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	80.03	no
125438	anaerobic	anaerobicⓘ	yes	90.60	no
125438	spore-forming	spore-formingⓘ	no	80.85	no
125438	aerobic	aerobicⓘ	no	95.61	no
125438	thermophilic	thermophileⓘ	no	85.14	yes
125438	flagellated	motile2+ⓘ	no	86.00	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 )
#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 .
#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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