Kordiimonas aquimaris (KCCM 42940, JCM 16665, MEBiC 06554)

Name: Kordiimonas aquimaris (KCCM 42940, JCM 16665, MEBiC 06554)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133810

Type strain

Culture col. no. KCCM 42940 JCM 16665 MEBiC 06554

NCBI tax ID(s) 707591

Special Collections JCM Literature strains

Links

Kordiimonas aquimaris KCCM 42940 is an aerobe, Gram-negative, motile prokaryote that was isolated from seawater.

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

Name and taxonomic classification

SI-ID 393541

JCM 16665

@ref 20215

Last LPSN update 2025-12-16 10:01:53

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Kordiimonadales

Family Temperatibacteraceae

Genus Kordiimonas

Species Kordiimonas aquimaris

Full scientific name Kordiimonas aquimaris Yang et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
30566	negative	0.95 µm	0.75 µm	rod-shaped
125439	negative
125438	negative

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
30566	positive	growth	10.5-35
30566	positive	optimum	20
67770	positive	growth	20

Culture pH

@ref	Ability	Type	PH
30566	positive	optimum	7
30566	positive	growth	05-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
30566	aerobe
125439	obligate aerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.6
125438		90.287

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30566	NaCl	positive	growth	0-13 %
30566	NaCl	positive	optimum	3.25 %

Observation

@ref	Observation
30566	aggregates in chains
67770	quinones: Q-10

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30566	16449 ChEBI	alanine	+	carbon source
30566	22599 ChEBI	arabinose	+	carbon source
30566	22653 ChEBI	asparagine	+	carbon source
30566	35391 ChEBI	aspartate	+	carbon source
30566	17057 ChEBI	cellobiose	+	carbon source
30566	16947 ChEBI	citrate	+	carbon source
30566	28757 ChEBI	fructose	+	carbon source
30566	28260 ChEBI	galactose	+	carbon source
30566	24175 ChEBI	galacturonate	+	carbon source
30566	24265 ChEBI	gluconate	+	carbon source
30566	17234 ChEBI	glucose	+	carbon source
30566	21217 ChEBI	L-alaninamide	+	carbon source
30566	17716 ChEBI	lactose	+	carbon source
30566	17306 ChEBI	maltose	+	carbon source
30566	29864 ChEBI	mannitol	+	carbon source
30566	37684 ChEBI	mannose	+	carbon source
30566	28053 ChEBI	melibiose	+	carbon source
30566	37657 ChEBI	methyl D-glucoside	+	carbon source
30566	51850 ChEBI	methyl pyruvate	+	carbon source
30566	506227 ChEBI	N-acetylglucosamine	+	carbon source
30566	18257 ChEBI	ornithine	+	carbon source
30566	28044 ChEBI	phenylalanine	+	carbon source
30566	26271 ChEBI	proline	+	carbon source
30566	17272 ChEBI	propionate	+	carbon source
30566	26490 ChEBI	quinate	+	carbon source
30566	30031 ChEBI	succinate	+	carbon source
30566	17992 ChEBI	sucrose	+	carbon source
30566	27082 ChEBI	trehalose	+	carbon source
30566	53423 ChEBI	tween 40	+	carbon source
30566	53426 ChEBI	tween 80	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30566	acid phosphatase	+	3.1.3.2
30566	alkaline phosphatase	+	3.1.3.1
30566	catalase	+	1.11.1.6
30566	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type
30566	seawater
67770	Seawater

Taxonmaps

69479

Global distribution of 16S sequence GU289640 (>99% sequence identity) for Kordiimonas aquimaris subclade from Microbeatlas

Aquatic Samples	108
Soil Samples	16
Animal Samples	3
Plant Samples
Total Samples	127

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2557448v1 assembly for Kordiimonas aquimaris JCM 16665	scaffold	GCA_025574485	707591.5	8047817403	707591	74.29

Genome browser: GCA_025574485

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30566	Kordiimonas aquimaris strain MEBiC06554 16S ribosomal RNA gene, partial sequence	GU289640	1455		707591

GC content

@ref	GC-content (mol%)
30566	50.3
67770	50.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Kordiimonas aquimaris JCM 16665
NCBI: GCA_025574485

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.60	no
125439	motility	BacteriaNetⓘ	yes	86.60	no
125439	gram_stain	BacteriaNetⓘ	negative	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kordiimonas aquimaris JCM 16665
NCBI: GCA_025574485.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.09	yes
125438	anaerobic	anaerobicⓘ	no	91.58	yes
125438	aerobic	aerobicⓘ	yes	82.89	yes
125438	spore-forming	spore-formingⓘ	no	90.29	no
125438	thermophilic	thermophileⓘ	no	95.99	no
125438	flagellated	motile2+ⓘ	yes	71.26	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Kordiimonas sediminis sp. nov., isolated from a sea cucumber culture pond.	Zhang HX, Zhao JX, Chen GJ, Du ZJ	Antonie Van Leeuwenhoek	10.1007/s10482-016-0671-z	2016
Phylogeny	Description of Kordiimonas aquimaris sp. nov., isolated from seawater, and emended descriptions of the genus Kordiimonas Kwon et al. 2005 emend. Xu et al. 2011 and of its existing species.	Yang SH, Kim MR, Seo HS, Lee SH, Lee JH, Kim SJ, Kwon KK	Int J Syst Evol Microbiol	10.1099/ijs.0.038893-0	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 )
#30566	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 #26897 (see below)
#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;
#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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Kordiimonas aquimaris (KCCM 42940, JCM 16665, MEBiC 06554)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

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

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_025574485

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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