Rhodanobacter caeni (DSM 29349, JCM 16242, KCTC 22449)

Name: Rhodanobacter caeni (DSM 29349, JCM 16242, KCTC 22449)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130849

Type strain

Strain Designation MJ01

Culture col. no. DSM 29349 JCM 16242 KCTC 22449 MJ01

NCBI tax ID(s) 657654

Special Collections DSMZ JCM KCTC Literature strains

History DSMZ <- JCM <- M. Lee et al., Research and Development Division H-Plus Eco Ltd, BVC; MJ01 JCM <-- M. J. Lee MJ01.

Links

Rhodanobacter caeni MJ01 is an aerobe, Gram-negative, motile bacterium that was isolated from sewage sludge.

Gram-negative motile rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 397705

KCTC 22449,JCM 16242,DSM 29349

@ref 20215

Last LPSN update 2026-05-29 08:37:28

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Rhodanobacteraceae

Genus Rhodanobacter

Species Rhodanobacter caeni

Full scientific name Rhodanobacter caeni Woo et al. 2012

BacDive ID	Other strains from **Rhodanobacter caeni** (1)	Type strain
161747	R. caeni JCM 16243, KCTC 22460

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
30320	negative	1.45 µm	0.35 µm	rod-shaped
125439	negative					94.439

Pigmentation

30320

Productionyes

Multimedia

@ref:	21756
multimedia content:	DSM_29349.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_29349.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21756	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)		Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
21756	positive	growth	28
30320	positive	growth	10-37
30320	positive	optimum	27.5
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
30320	positive	optimum	6.5
30320	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30320	aerobe
125439	obligate aerobe	99.847

Spore formation

@ref	Spore formation	Confidence
125439		98.648

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30320	NaCl	positive	growth	0-3 %

Observation

67770

Observationquinones: Q-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30320	37054 ChEBI	3-hydroxybutyrate	+	carbon source
30320	30089 ChEBI	acetate	+	carbon source
30320	16449 ChEBI	alanine	+	carbon source
30320	22599 ChEBI	arabinose	+	carbon source
30320	16947 ChEBI	citrate	+	carbon source
30320	24265 ChEBI	gluconate	+	carbon source
30320	17234 ChEBI	glucose	+	carbon source
30320	25115 ChEBI	malate	+	carbon source
30320	17306 ChEBI	maltose	+	carbon source
30320	37684 ChEBI	mannose	+	carbon source
30320	28053 ChEBI	melibiose	+	carbon source
30320	506227 ChEBI	N-acetylglucosamine	+	carbon source
30320	17632 ChEBI	nitrate	+	reduction
30320	17272 ChEBI	propionate	+	carbon source
30320	17814 ChEBI	salicin	+	carbon source
30320	17992 ChEBI	sucrose	+	carbon source
30320	31011 ChEBI	valerate	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30320	acid phosphatase	+	3.1.3.2
30320	alkaline phosphatase	+	3.1.3.1
30320	alpha-galactosidase	+	3.2.1.22
30320	catalase	+	1.11.1.6
30320	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Sewage sludge

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21756	sewage sludge	Daejeon	Republic of Korea	KOR	Asia
67770	Sludge from the Daejeon sewage disposal plant		Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21756	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM3952357v1 assembly for Rhodanobacter caeni JCM 16242	contig	GCA_039523575	657654	47.14

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21756	Rhodanobacter caeni strain MJ01 16S ribosomal RNA gene, partial sequence	GQ250431	1495		657654

GC content

@ref	GC-content (mol%)	Method
30320	65.3
67770	65.3	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM3952357v1 assembly for Rhodanobacter caeni JCM 16242
NCBI: GCA_039523575

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.85	no
125439	motility	BacteriaNetⓘ	yes	77.66	no
125439	gram_stain	BacteriaNetⓘ	negative	94.44	no
125439	spore_formation	BacteriaNetⓘ	no	98.65	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodanobacter caeni sp. nov., isolated from sludge from a sewage disposal plant.	Woo SG, Srinivasan S, Kim MK, Lee M	Int J Syst Evol Microbiol	10.1099/ijs.0.033365-0	2012

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 )
#21756	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29349
#26661	IJSEM 2815 2012 ( DOI 10.1099/ijs.0.033365-0 , PubMed 22228656 )
#30320	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26661
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Rhodanobacter caeni (DSM 29349, JCM 16242, KCTC 22449)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_039523575

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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