Rodentibacter caecimuris (DSM 100775, BIL2-426-CC-3)

Name: Rodentibacter caecimuris (DSM 100775, BIL2-426-CC-3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131524

Type strain

Strain Designation BIL2-426-CC-3

Culture col. no. DSM 100775 BIL2-426-CC-3

NCBI tax ID(s) 1796644

Special Collections DSMZ Mouse DZIF

History DSMZ <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; BIL2-426-CC-3

Links

Rodentibacter caecimuris BIL2-426-CC-3 is a bacterium that was isolated from caecal content; TNF^deltaARE/+ C57BL/6 mouse.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 403177

DSM 100775

@ref 20215

Last LPSN update 2026-05-29 08:37:38

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pasteurellales

Family Pasteurellaceae

Genus Rodentibacter

Species Rodentibacter caecimuris

Full scientific name Rodentibacter caecimuris (Lagkouvardos et al. 2016) Li 2024

Synonyms (2)

Pasteurella caecimuris
Rodentibacter heylii

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		93.988
125438		97.415	negative

Colony morphology

22751

Incubation period1-2 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22751	BHI MEDIUM (DSMZ Medium 215)		Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
22751	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)		Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

Culture temp

@ref	Growth	Type	Temperature (°C)
22751	positive	growth	37

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		91.497
125439		99.027

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body-Site	#Gastrointestinal tract	#Large intestine
#Host Body Product	#Gastrointestinal tract	#Caecal content

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
22751	caecal content; TNF^deltaARE/+ C57BL/6 mouse	Freising	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence KU196095 (>99% sequence identity) for Rodentibacter heylii from Microbeatlas

Aquatic Samples	200
Soil Samples	106
Animal Samples	7753
Plant Samples	52
Total Samples	8111

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM2544763v1 assembly for Rodentibacter caecimuris DSM 100775	contig	GCA_025447635	1796644.8	1796644	65.03

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22751	Rodentibacter caecimuris strain BIL2-426-CC-3 16S ribosomal RNA gene, partial sequence	KU196095	1425		1796644

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM2544763v1 assembly for Rodentibacter caecimuris DSM 100775
NCBI: GCA_025447635

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	89.82	no
125439	gram_stain	BacteriaNetⓘ	negative	53.87	no
125439	motility	BacteriaNetⓘ	no	79.69	no
125439	spore_formation	BacteriaNetⓘ	no	99.03	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pasteurella caecimuris DSM 100775
NCBI: GCA_025447635.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.42	no
125438	anaerobic	anaerobicⓘ	no	93.97	no
125438	aerobic	aerobicⓘ	no	80.24	no
125438	spore-forming	spore-formingⓘ	no	91.50	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	no	93.99	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 )
#22751	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100775
#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) .
#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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