Strain identifier

BacDive ID: 133810

Type strain: Yes

Species: Kordiimonas aquimaris

Strain history: K. K. Kwon MEBiC06554.

NCBI tax ID(s): 707591 (species)

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General

@ref: 30566

BacDive-ID: 133810

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

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

NCBI tax id

  • NCBI tax id: 707591
  • Matching level: species

strain history

  • @ref: 67770
  • history: K. K. Kwon MEBiC06554.

doi: 10.13145/bacdive133810.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Kordiimonadales
  • family: Temperatibacteraceae
  • genus: Kordiimonas
  • species: Kordiimonas aquimaris
  • full scientific name: Kordiimonas aquimaris Yang et al. 2013

@ref: 30566

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Kordiimonadales

family: Kordiimonadaceae

genus: Kordiimonas

species: Kordiimonas aquimaris

type strain: yes

Morphology

cell morphology

  • @ref: 30566
  • gram stain: negative
  • cell length: 0.95 µm
  • cell width: 0.75 µm
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30566positivegrowth10.5-35
30566positiveoptimum20psychrophilic
67770positivegrowth20psychrophilic

culture pH

@refabilitytypepH
30566positivegrowth05-08
30566positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 30566
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
30566NaClpositivegrowth0-13 %
30566NaClpositiveoptimum3.25 %

observation

@refobservation
30566aggregates in chains
67770quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3056621217L-alaninamide+carbon source
3056616449alanine+carbon source
3056622599arabinose+carbon source
3056622653asparagine+carbon source
3056635391aspartate+carbon source
3056617057cellobiose+carbon source
3056616947citrate+carbon source
3056628757fructose+carbon source
3056628260galactose+carbon source
3056624175galacturonate+carbon source
3056624265gluconate+carbon source
3056617234glucose+carbon source
3056617716lactose+carbon source
3056617306maltose+carbon source
3056629864mannitol+carbon source
3056637684mannose+carbon source
3056628053melibiose+carbon source
3056637657methyl D-glucoside+carbon source
3056651850methyl pyruvate+carbon source
30566506227N-acetylglucosamine+carbon source
3056618257ornithine+carbon source
3056628044phenylalanine+carbon source
3056626271proline+carbon source
3056617272propionate+carbon source
3056626490quinate+carbon source
3056630031succinate+carbon source
3056617992sucrose+carbon source
3056627082trehalose+carbon source
3056653423tween 40+carbon source
3056653426tween 80+carbon source

enzymes

@refvalueactivityec
30566acid phosphatase+3.1.3.2
30566alkaline phosphatase+3.1.3.1
30566catalase+1.11.1.6
30566cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample type
30566seawater
67770Seawater

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_168596.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16030;96_1039;97_51297;98_67633;99_168596&stattab=map
  • Last taxonomy: Kordiimonas aquimaris subclade
  • 16S sequence: GU289640
  • Sequence Identity:
  • Total samples: 127
  • soil counts: 16
  • aquatic counts: 108
  • animal counts: 3

Sequence information

16S sequences

  • @ref: 30566
  • description: Kordiimonas aquimaris strain MEBiC06554 16S ribosomal RNA gene, partial sequence
  • accession: GU289640
  • length: 1455
  • database: nuccore
  • NCBI tax ID: 707591

Genome sequences

  • @ref: 66792
  • description: Kordiimonas aquimaris JCM 16665
  • accession: GCA_025574485
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 707591

GC content

@refGC-contentmethod
3056650.3
6777050.3high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes87.65yes
flagellatedyes56.78no
gram-positiveno98.08yes
anaerobicno99.401yes
aerobicyes94.379yes
halophileno60.397no
spore-formingno95.004no
glucose-fermentno91.556no
thermophileno96.238no
glucose-utilyes83.293yes

External links

@ref: 30566

culture collection no.: KCCM 42940, JCM 16665, MEBiC 06554

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22427451Description 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 KKInt J Syst Evol Microbiol10.1099/ijs.0.038893-02012Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Glycolipids/analysis, Molecular Sequence Data, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny26936256Kordiimonas sediminis sp. nov., isolated from a sea cucumber culture pond.Zhang HX, Zhao JX, Chen GJ, Du ZJAntonie Van Leeuwenhoek10.1007/s10482-016-0671-z2016Alphaproteobacteria/*classification/genetics/growth & development/*isolation & purification, Animals, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Genotype, Geologic Sediments/microbiology, Phenotype, Phylogeny, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Sea Cucumbers/*microbiology, Seawater/*microbiologyGenetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
30566Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172689728776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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 betahttps://microbeatlas.org/