Oliverpabstia intestinalis (DSM 106162, BSU-380-WT-5A, JCM 34394)

Name: Oliverpabstia intestinalis (DSM 106162, BSU-380-WT-5A, JCM 34394)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159030

Type strain

Strain Designation BSU-380-WT-5A, BSM-380-WT-5A

Culture col. no. DSM 106162 BSU-380-WT-5A JCM 34394 BSM-380-WT-5A

NCBI tax ID(s) 2606633

Special Collections DSMZ JCM Pig Literature strains DZIF

History DSMZ <- T. Clavel, TU Munich; JCM <-- B. Abt; DSMZ, Germany; DSM 106162 (=BSM-380-WT-5A) <-- T. Clavel; RWTH Aachen, Germany.

Links

Oliverpabstia intestinalis BSU-380-WT-5A is an obligate anaerobe, Gram-positive, coccus-shaped bacterium that was isolated from feces; pig, 5 month old, wild type.

Gram-positive coccus-shaped obligate anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 396938

JCM34394,DSM 106162

@ref 20215

Last LPSN update 2026-05-29 08:44:06

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Oliverpabstia

Species Oliverpabstia intestinalis

Full scientific name Oliverpabstia intestinalis Wylensek et al. 2021

BacDive ID	Other strains from **Oliverpabstia intestinalis** (1)	Type strain
174609	O. intestinalis H1-B2-G7, CLA-AA-H241, DSM 113008, JCM 35882

Morphology

Cell morphology

@ref	Gram stain	Cell shape
69645	positive	coccus-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
65853	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
69645	Wilkins-Chalgren Anaerobe broth		supplemented with L-cysteine and DTT (0.05% and 0.02% (w/v), respectively)
69645	Bifidus Selective Medium
69645	Brain Heart Infusion (BHI) agar

Culture temp

@ref	Growth	Type	Temperature (°C)
65853	positive	growth	37
67770	positive	growth	37
69645	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	anaerobe	92.935
125439	obligate anaerobe	97.097
69645	obligate anaerobe

Observation

@ref	Observation
69645	Cells often grow in pairs
69645	Deconjugates primary bile acids

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	Enrichment culture	Enrichment culture duration	Enrichment culture temperature	Isolation procedure
65853	feces; pig, 5 month old, wild type	Kranzberg (Bavaria)	Germany	DEU	Europe
67770	Feces of a German Landrace pig	Freising	Germany	DEU	Europe
69645	Pig feces	Thalhausen, Bavaria	Germany	DEU	Europe	Bifidus Selective Medium	1-3 days	37	anaerobic

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM969606v1 assembly for Oliverpabstia intestinalis BSM-380-WT-5A	contig	GCA_009696065	2606633.3	2936245661	2606633	60.67

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
65853	Oliverpabstia intestinalis strain BSM-380-WT-5A 16S ribosomal RNA gene, partial sequence	MN537507	1487		2652302

GC content

@ref	GC-content (mol%)	Method
69645	44.1	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM969606v1 assembly for Oliverpabstia intestinalis BSM-380-WT-5A
BV-BRC: 2606633.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	variable	66.54	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	97.10	no
125439	motility	BacteriaNetⓘ	yes	76.06	no
125439	spore_formation	BacteriaNetⓘ	yes	58.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lachnospiraceae bacterium BSM-380-WT-5A
PATRIC: 2606633.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	81.60	no
125438	anaerobic	anaerobicⓘ	yes	92.94	no
125438	spore-forming	spore-formingⓘ	no	51.27	no
125438	aerobic	aerobicⓘ	no	96.61	yes
125438	thermophilic	thermophileⓘ	no	93.52	yes
125438	flagellated	motile2+ⓘ	no	80.94	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 )
#65853	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106162
#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;
#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 )
#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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