Caenimonas koreensis (DSM 17982, KCTC 12616, EMB320)

Name: Caenimonas koreensis (DSM 17982, KCTC 12616, EMB320)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3027

Type strain

Strain Designation EMB320

Culture col. no. DSM 17982 KCTC 12616 EMB320

NCBI tax ID(s) 1121255 367474

Special Collections DSMZ KCTC Literature strains

History <- C. O. Jeon; EMB320 <- CO Jeon, Gyungsang Univ.

Links

Caenimonas koreensis EMB320 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from activated sludge.

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

Name and taxonomic classification

SI-ID 397253

KCTC 12616,DSM 17982

@ref 20215

Last LPSN update 2026-02-09 11:18:24

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Comamonadaceae

Genus Caenimonas

Species Caenimonas koreensis

Full scientific name Caenimonas koreensis Ryu et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
32387	negative	1.4 µm	0.5 µm	rod-shaped
67771	negative
125438	negative				97.244

Multimedia

@ref:	66793
multimedia content:	EM_DSM_17982_1.jpg
multimedia.multimedia content:	EM_DSM_17982_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17982_2.jpg
multimedia.multimedia content:	EM_DSM_17982_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17982_3.jpg
multimedia.multimedia content:	EM_DSM_17982_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17982_4.jpg
multimedia.multimedia content:	EM_DSM_17982_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17982_5.jpg
multimedia.multimedia content:	EM_DSM_17982_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7314	REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)		Medium recipe at MediaDive	Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
7314	positive	growth	28
32387	positive	optimum	30
67771	positive	growth	28

Culture pH

@ref	Ability	Type	PH
32387	positive	optimum	7.5
32387	positive	growth	07-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
32387	aerobe
67771	aerobe
125439	obligate aerobe	95

Observation

67771

Observationquinones: Q-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32387	28757 ChEBI	fructose	+	carbon source
32387	17234 ChEBI	glucose	+	carbon source
32387	15792 ChEBI	malonate	+	carbon source
32387	17632 ChEBI	nitrate	+	reduction

Enzymes

@ref	Value	Activity	Ec
32387	alkaline phosphatase	+	3.1.3.1
32387	catalase	+	1.11.1.6
32387	cytochrome oxidase	+	1.9.3.1
32387	gelatinase	+
32387	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Activated sludge

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7314	activated sludge	Pohang	Republic of Korea	KOR	Asia
67771	From activated sludge		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ349098 (>99% sequence identity) for Variovorax from Microbeatlas

Aquatic Samples	33
Soil Samples	45
Animal Samples	8
Plant Samples	1
Total Samples	87

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7314	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Caenimonas koreensis DSM 17982	complete			2574179763	1121255	89.24
66792	ASM964633v1 assembly for Caenimonas koreensis DSM 17982 EMB320	contig	GCA_009646335	1121255.3	8063998397	1121255	68.58

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7314	Caenimonas koreensis strain EMB320 16S ribosomal RNA gene, partial sequence	DQ349098	1457		1121255

GC content

32387

GC-content (mol%)62.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Caenimonas koreensis DSM 17982 EMB320
NCBI: GCA_009646335

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	89.10	no
125439	motility	BacteriaNetⓘ	yes	68.30	no
125439	gram_stain	BacteriaNetⓘ	negative	84.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Caenimonas koreensis DSM 17982 strain EMB320
PATRIC: 1121255.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.24	yes
125438	anaerobic	anaerobicⓘ	no	97.17	yes
125438	spore-forming	spore-formingⓘ	no	85.20	no
125438	aerobic	aerobicⓘ	yes	87.39	yes
125438	thermophilic	thermophileⓘ	no	98.22	yes
125438	flagellated	motile2+ⓘ	yes	59.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Evidence for Horizontal and Vertical Transmission of Mtr-Mediated Extracellular Electron Transfer among the Bacteria.	Baker IR, Conley BE, Gralnick JA, Girguis PR.	mBio	10.1128/mbio.02904-21	2021
Phylogeny	Caenimonas aquaedulcis sp. nov., Isolated from Freshwater of Daechung Reservoir during Microcystis Bloom.	Le VV, Ko SR, Lee SA, Kang M, Oh HM, Ahn CY	J Microbiol Biotechnol	10.4014/jmb.2201.01023	2022
Phylogeny	Caenimonas soli sp. nov., isolated from soil.	Dahal RH, Lee H, Chaudhary DK, Kim DY, Son J, Kim J, Ka JO, Kim DU	Arch Microbiol	10.1007/s00203-020-02110-8	2020
Phylogeny	Caenimonas sedimenti sp. nov., Isolated from Sediment of the Wastewater Outlet of an Agricultural Chemical Plant.	Xu J, Sheng M, Yang Z, Qiu J, Zhang J, Zhang L, He J	Curr Microbiol	10.1007/s00284-020-02145-6	2020
Phylogeny	Caenimonas terrae sp. nov., isolated from a soil sample in Korea, and emended description of the genus Caenimonas Ryu et al. 2008.	Kim SJ, Weon HY, Kim YS, Moon JY, Seok SJ, Hong SB, Kwon SW	J Microbiol	10.1007/s12275-012-1587-6	2012
Phylogeny	Caenimonas koreensis gen. nov., sp. nov., isolated from activated sludge.	Ryu SH, Lee DS, Park M, Wang Q, Jang HH, Park W, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.65416-0	2008

References

#7314	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17982
#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 )
#28612	IJSEM 1064 2008 ( DOI 10.1099/ijs.0.65416-0 , PubMed 18450689 )
#32387	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 #28612
#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) .
#66793	Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Caenimonas koreensis (DSM 17982, KCTC 12616, EMB320)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_009646335

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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