Strain identifier

BacDive ID: 133829

Type strain: Yes

Species: Gaetbulibacter lutimaris

Strain Designation: D1-y4

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 1031273 (species)

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General

@ref: 30621

BacDive-ID: 133829

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

description: Gaetbulibacter lutimaris D1-y4 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 1031273
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- JH Yoon, KRIBB

doi: 10.13145/bacdive133829.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Gaetbulibacter
  • species: Gaetbulibacter lutimaris
  • full scientific name: Gaetbulibacter lutimaris Yoon et al. 2013

@ref: 30621

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Gaetbulibacter

species: Gaetbulibacter lutimaris

strain designation: D1-y4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
30621negative3.25 µm0.65 µmrod-shapedno
67771rod-shapedno
67771negative

colony morphology

  • @ref: 62642
  • incubation period: 2 days

pigmentation

  • @ref: 30621
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30621positivegrowth04-28
30621positiveoptimum25mesophilic
62642positivegrowth20psychrophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepH
30621positivegrowth5-7.5
30621positiveoptimum7.25

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30621aerobe
62642aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
30621NaClpositivegrowth0-4 %
30621NaClpositiveoptimum2.5 %

observation

@refobservation
30621aggregates in clumps
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3062117057cellobiose+carbon source
3062128260galactose+carbon source
3062117234glucose+carbon source
3062137684mannose+carbon source
306214853esculin+hydrolysis

enzymes

@refvalueactivityec
30621alkaline phosphatase+3.1.3.1
30621catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinent
30621marine sediment
62642Tidal flat sediment2009BoseongRepublic of KoreaKORAsia
67771From tidal flat sedimentBosung on the South SeaRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_97582.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_4747;97_50721;98_66828;99_97582&stattab=map
  • Last taxonomy: Gaetbulibacter lutimaris subclade
  • 16S sequence: JF739861
  • Sequence Identity:
  • Total samples: 11
  • soil counts: 3
  • aquatic counts: 8

Sequence information

16S sequences

  • @ref: 30621
  • description: Gaetbulibacter lutimaris strain D1-y4 16S ribosomal RNA gene, partial sequence
  • accession: JF739861
  • length: 1440
  • database: nuccore
  • NCBI tax ID: 1031273

GC content

@refGC-contentmethod
3062134.6
6777134.6high performance liquid chromatography (HPLC)

External links

@ref: 30621

culture collection no.: KCTC 23716, CCUG 61504

straininfo link

  • @ref: 91610
  • straininfo: 408754

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22685106Gaetbulibacter lutimaris sp. nov., isolated from a tidal flat sediment.Yoon JH, Lee SY, Oh TKInt J Syst Evol Microbiol10.1099/ijs.0.040352-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny26669721Gaetbulibacter aquiaggeris sp. nov., a member of the Flavobacteriaceae isolated from seawater.Jung YT, Lee JS, Yoon JHInt J Syst Evol Microbiol10.1099/ijsem.0.0008452015

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
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
30621Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172695228776041
62642Curators of the CCUGhttps://www.ccug.se/strain?id=61504Culture Collection University of Gothenburg (CCUG) (CCUG 61504)
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/
91610Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID408754.1