Strain identifier

BacDive ID: 133865

Type strain: Yes

Species: Brumimicrobium mesophilum

Strain Designation: YH207

Strain history: K. K. Kwon YH207.

NCBI tax ID(s): 392717 (species)

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General

@ref: 30707

BacDive-ID: 133865

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

description: Brumimicrobium mesophilum YH207 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 392717
  • Matching level: species

strain history

  • @ref: 67770
  • history: K. K. Kwon YH207.

doi: 10.13145/bacdive133865.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Crocinitomicaceae
  • genus: Brumimicrobium
  • species: Brumimicrobium mesophilum
  • full scientific name: Brumimicrobium mesophilum Yang et al. 2013

@ref: 30707

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Crocinitomicaceae

genus: Brumimicrobium

species: Brumimicrobium mesophilum

strain designation: YH207

type strain: yes

Morphology

cell morphology

  • @ref: 30707
  • gram stain: negative
  • cell length: 1.25 µm
  • cell width: 0.4 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 30707
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30707positivegrowth11-36
30707positiveoptimum26mesophilic
67770positivegrowth26mesophilic

culture pH

@refabilitytypepHPH range
30707positivegrowth6.5-10alkaliphile
30707positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30707
  • oxygen tolerance: aerobe

halophily

  • @ref: 30707
  • salt: NaCl
  • growth: positive
  • tested relation: optimum
  • concentration: 3.5 %

observation

@refobservation
30707aggregates in clumps
67770quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3070716449alanine+carbon source
3070740585alpha-cyclodextrin+carbon source
30707286442-oxopentanoate+carbon source
3070722653asparagine+carbon source
3070735391aspartate+carbon source
3070716947citrate+carbon source
3070728757fructose+carbon source
3070733984fucose+carbon source
3070728260galactose+carbon source
3070724175galacturonate+carbon source
3070724265gluconate+carbon source
307075417glucosamine+carbon source
3070717234glucose+carbon source
3070732323glucuronamide+carbon source
3070729987glutamate+carbon source
3070717716lactose+carbon source
3070717306maltose+carbon source
3070729864mannitol+carbon source
3070737657methyl D-glucoside+carbon source
3070717268myo-inositol+carbon source
3070726271proline+carbon source
3070726490quinate+carbon source
3070716634raffinose+carbon source
3070726546rhamnose+carbon source
3070730911sorbitol+carbon source
3070717992sucrose+carbon source
3070726986threonine+carbon source
3070727082trehalose+carbon source
3070717151xylitol+carbon source

enzymes

@refvalueactivityec
30707acid phosphatase+3.1.3.2
30707alkaline phosphatase+3.1.3.1
30707alpha-galactosidase+3.2.1.22
30707catalase+1.11.1.6
30707gelatinase+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentlatitudelongitude
30707marine sediment
67770Tidal flat sediment at Yeongheung-do on the coast of the Yellow Sea, (37° 16' N 126° 26' E)Republic of KoreaKORAsia37.2667126.433

isolation source categories

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

Sequence information

16S sequences

  • @ref: 30707
  • description: Brumimicrobium mesophilum strain YH207 16S ribosomal RNA gene, partial sequence
  • accession: DQ660382
  • length: 1484
  • database: nuccore
  • NCBI tax ID: 392717

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brumimicrobium mesophilum JCM 14063GCA_003025005contigncbi392717
66792Brumimicrobium mesophilum strain JCM 14063392717.5wgspatric392717
66792Brumimicrobium mesophilum JCM 140632831912403draftimg392717

GC content

@refGC-contentmethod
3070734.3
6777034.3high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno97.444yes
anaerobicno98.88yes
halophileyes64.769no
spore-formingno94.47no
glucose-utilyes83.738yes
aerobicyes91.478yes
motileno90.436yes
flagellatedno96.342yes
thermophileno99.849yes
glucose-fermentno91.472no

External links

@ref: 30707

culture collection no.: KCCM 42331, JCM 14063

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22707538Brumimicrobium mesophilum sp. nov., isolated from a tidal flat sediment, and emended descriptions of the genus Brumimicrobium and Brumimicrobium glaciale.Yang SH, Seo HS, Oh HM, Kim SJ, Lee JH, Kwon KKInt J Syst Evol Microbiol10.1099/ijs.0.042614-02012Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny23990655Luteibaculum oceani gen. nov., sp. nov., a carotenoid-producing, lipolytic bacterium isolated from surface seawater, and emended description of the genus Owenweeksia Lau et al. 2005.Shahina M, Hameed A, Lin SY, Lai WA, Liu YC, Hsu YH, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.054635-02013Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, Carotenoids/metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Spermidine/chemistry, Taiwan, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny30222094Brumimicrobium salinarum sp. nov., isolated from a marine solar saltern.Luo HR, Chen ZY, Fei JJ, Du ZJInt J Syst Evol Microbiol10.1099/ijsem.0.0030032018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Glycolipids/chemistry, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Water MicrobiologyTranscriptome

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
30707Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172703828776041
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/