Coprobacter secundus subsp. similis (JCM 34079, DSM 111570, 2CBH44)

Name: Coprobacter secundus subsp. similis (JCM 34079, DSM 111570, 2CBH44)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 160201

Type strain

Strain Designation 2CBH44

Culture col. no. JCM 34079 DSM 111570 2CBH44

NCBI tax ID(s) 2751153

Special Collections DSMZ JCM

Links

Coprobacter secundus subsp. similis 2CBH44 is a mesophilic prokaryote that was isolated from feces of man.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 406182

JCM 34079,DSM 111570

@ref 20215

Last LPSN update 2025-12-16 10:08:26

Domain Pseudomonadati

Phylum Bacteroidota

Class Bacteroidia

Order Bacteroidales

Family Barnesiellaceae

Genus Coprobacter

Species Coprobacter secundus subsp. similis

Full scientific name Coprobacter secundus subsp. similis Sakamoto et al. 2021

BacDive ID	Other strains from **Coprobacter secundus subsp. similis** (1)	Type strain
164723	C. secundus subsp. similis JCM 34080

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	95.51
125439	negative	99.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
67105	YCFA-MEDIUM (MODIFIED) (DSMZ Medium 1611)		Medium recipe at MediaDive	Name: YCFA MEDIUM (modified) (DSMZ Medium 1611) Composition: Casitone 10.0 g/l Glucose 5.0 g/l NaHCO3 4.0 g/l Yeast extract 2.5 g/l Acetic acid 1.78695 g/l L-Cysteine HCl 1.0 g/l NaCl 0.9 g/l Propionic acid 0.62559 g/l KH2PO4 0.45 g/l K2HPO4 0.45 g/l CaCl2 x 2 H2O 0.09 g/l n-Valeric acid 0.08451 g/l iso-Valeric acid 0.0837899 g/l iso-Butyric acid 0.07695 g/l MgSO4 x 7 H2O 0.045 g/l Hemin 0.01 g/l Resazurin 0.001 g/l Pyridoxine hydrochloride 0.0001 g/l Nicotinic acid 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavin 5e-05 g/l D-Calcium pantothenate 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Lipoic acid 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67105	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	anaerobe	98.3

Spore formation

@ref	Spore formation	Confidence
125438		92.5
125439		98.8

Observation

67770

Observationquinones: MK-10

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
67105	feces of man	Tsukuba	Japan	JPN	Asia	36.0239	140.121 36.0239/140.121
67770	Feces of a 35-years-old healthy Japanese man

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1509727v1 assembly for Coprobacter secundus subsp. similis 2CBH44	complete	GCA_015097275	2751153.3	2910222220	2751153	99.25

Genome browser: GCA_015097275

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Coprobacter secundus subsp. similis 2CBH44 gene for 16S rRNA, partial sequence	LC580152	1465		2751153

GC content

@ref	GC-content (mol%)	Method
67770	38.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Coprobacter secundus subsp. similis 2CBH44
NCBI: GCA_015097275

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.80	no
125439	motility	BacteriaNetⓘ	no	65.70	no
125439	gram_stain	BacteriaNetⓘ	negative	99.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	98.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Coprobacter secundus subsp. similis 2CBH44
NCBI: GCA_015097275.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.51	no
125438	anaerobic	anaerobicⓘ	yes	88.88	no
125438	aerobic	aerobicⓘ	no	91.88	no
125438	spore-forming	spore-formingⓘ	no	92.50	no
125438	thermophilic	thermophileⓘ	no	95.16	no
125438	flagellated	motile2+ⓘ	no	86.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Coprobacter secundus subsp. similis subsp. nov. and Solibaculum mannosilyticum gen. nov., sp. nov., isolated from human feces.	Sakamoto M, Ikeyama N, Toyoda A, Murakami T, Mori H, Morohoshi S, Kunihiro T, Iino T, Ohkuma M	Microbiol Immunol	10.1111/1348-0421.12886	2021

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 )
#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) .
#67105	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 111570
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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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Coprobacter secundus subsp. similis (JCM 34079, DSM 111570, 2CBH44)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_015097275

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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