Strain identifier

BacDive ID: 133672

Type strain: Yes

Species: Corallibacter vietnamensis

Strain history: <- OI Nedashkovskaya, Pacific Institute of Bioorganic Chemistry, Russia [7139]

NCBI tax ID(s): 904130 (species)

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General

@ref: 30059

BacDive-ID: 133672

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

description: Corallibacter vietnamensis JCM 17525 is an aerobe, Gram-negative, motile bacterium that was isolated from Coral.

NCBI tax id

  • NCBI tax id: 904130
  • Matching level: species

strain history

@refhistory
67770S. B. Kim KMM 6217.
67771<- OI Nedashkovskaya, Pacific Institute of Bioorganic Chemistry, Russia [7139]

doi: 10.13145/bacdive133672.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Corallibacter
  • species: Corallibacter vietnamensis
  • full scientific name: Corallibacter vietnamensis Kim et al. 2012

@ref: 30059

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Corallibacter

species: Corallibacter vietnamensis

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
30059negative1.4-3.2 µm0.4-0.5 µmrod-shapedyesgliding
67771rod-shapedyesgliding
67771negative

pigmentation

  • @ref: 30059
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30059positivegrowth10-40
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
30059positivegrowth04-10alkaliphile
30059positiveoptimum5.5-7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30059aerobe
67771aerobe

spore formation

  • @ref: 30059
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
30059NaClpositivegrowth0.5-8 %
30059NaClpositiveoptimum2-4 %

observation

@refobservation
67770quinones: MK-6
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3005922599arabinose+carbon source
3005916947citrate+carbon source
3005937684mannose+carbon source
3005953423tween 40+carbon source
3005953426tween 80+carbon source
300594853esculin+hydrolysis

enzymes

@refvalueactivityec
30059alkaline phosphatase+3.1.3.1
30059catalase+1.11.1.6
30059gelatinase+
30059cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
30059Coral
67770Coral (Palythoa sp.) from Vanfong BayPalythoa sp.South China SeaVietnamVNMAsia
67771From coral `Palythoa` sp.Vanfong Bay, South China SeaVietnamVNMAsia

isolation source categories

  • Cat1: #Host
  • Cat2: #Invertebrates (Other)
  • Cat3: #Cnidaria (Corals)

taxonmaps

  • @ref: 69479
  • File name: preview.99_47432.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_21528;97_26879;98_34218;99_47432&stattab=map
  • Last taxonomy: Corallibacter vietnamensis subclade
  • 16S sequence: HQ257254
  • Sequence Identity:
  • Total samples: 1778
  • soil counts: 49
  • aquatic counts: 1527
  • animal counts: 189
  • plant counts: 13

Sequence information

16S sequences

  • @ref: 30059
  • description: Corallibacter vietnamensis strain KMM 6217 16S ribosomal RNA gene, partial sequence
  • accession: HQ257254
  • length: 1463
  • database: nuccore
  • NCBI tax ID: 904130

GC content

@refGC-contentmethod
3005934.8
6777034.8thermal denaturation, midpoint method (Tm)

External links

@ref: 30059

culture collection no.: JCM 17525, KCTC 23026, KMM 6217

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21515707Corallibacter vietnamensis gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae.Kim SB, Nedashkovskaya OI, Zhukova NV, Kuchlevskiy AD, Mikhailov VVInt J Syst Evol Microbiol10.1099/ijs.0.028928-02011Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureGenetics
Phylogeny25351879Hanstruepera neustonica gen. nov., sp. nov., a zeaxanthin-producing member of the family Flavobacteriaceae isolated from estuarine water, and emendation of Sediminibacter furfurosus Khan et al. 2007 emend. Kwon et al. 2014, Mangrovimonas yunxiaonensis Li et al. 2013, Antarcticimonas flava Yang et al. 2009 and Hoppeia youngheungensis Kwon et al. 2014.Hameed A, Shahina M, Lai WA, Lin SY, Liu YC, Hsu YH, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.066852-02014Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Estuaries, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Phosphatidylethanolamines/chemistry, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistry, Zeaxanthins/*biosynthesisGenetics

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
30059Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172642028776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/