Strain identifier

BacDive ID: 139432

Type strain: Yes

Species: Bacillus gaemokensis

Strain Designation: BL3-6

Strain history: CIP <- 2016, JCM <- 2008, Y.H. Chang, KRIBB, Daejon, Korea: strain BL3-6

NCBI tax ID(s): 574375 (species)

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General

@ref: 41617

BacDive-ID: 139432

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, motile, rod-shaped

description: Bacillus gaemokensis BL3-6 is an aerobe, spore-forming, mesophilic bacterium of the family Bacillaceae.

NCBI tax id

  • NCBI tax id: 574375
  • Matching level: species

strain history

@refhistory
67770Y.-H. Chang BL3-6.
67771<- YH Chang, KRIBB
41617CIP <- 2016, JCM <- 2008, Y.H. Chang, KRIBB, Daejon, Korea: strain BL3-6

doi: 10.13145/bacdive139432.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Bacillus
  • species: Bacillus gaemokensis
  • full scientific name: Bacillus gaemokensis Jung et al. 2021

@ref: 41617

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Bacillaceae

genus: Bacillus

species: Bacillus gaemokensis

strain designation: BL3-6

type strain: yes

Morphology

cell morphology

@refcell shapemotilityflagellum arrangementgram stainconfidence
67771rod-shapedyesperitrichous
67771positive
69480positive100
41617rod-shapednopositive

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
41617MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
41617CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
41617positivegrowth30mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@reftype of sporespore formationconfidence
67771endosporeyes
69481yes100
69480yes100

observation

@refobservation
67770quinones: MK-7
67771quinones: MK-7

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample type
41617Yellow SeaRepublic of KoreaKORAsia
67770Gaemock Harbor in the Yellow Sea coastal region of Tae-AnRepublic of KoreaKORAsiaOil-contaminated tidal flat sediment
67771TaeahnRepublic of KoreaKORAsiaFrom tidal flat sediment
41617Gaemock Harbor, Yellow Sea, coastal region of Tae-AnRepublic of KoreaKORAsiaEnvironment, Oil contaminated tidal flat sediment

Safety information

risk assessment

  • @ref: 41617
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 67771
  • description: Bacillus gaemokensis strain BL3-6 16S ribosomal RNA gene, partial sequence
  • accession: FJ416489
  • length: 1351
  • database: ena
  • NCBI tax ID: 574375

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus gaemokensis strain JCM 15801574375.6wgspatric574375
66792Bacillus gaemokensis strain KCTC 13318574375.8wgspatric574375
66792Bacillus gaemokensis KCTC 133182724679201draftimg574375
66792Bacillus gaemokensis JCM 158012585428004draftimg574375
67770Bacillus gaemokensis JCM 15801GCA_000712615contigncbi574375
67771Bacillus gaemokensis KCTC 13318GCA_001590835scaffoldncbi574375

GC content

@refGC-contentmethod
6777039.4thermal denaturation, midpoint method (Tm)
6777139.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes90.622yes
anaerobicno98.809yes
halophileno80.594no
spore-formingyes90.483yes
glucose-utilyes88.803no
motileno91.29no
flagellatedno77.679yes
aerobicyes88.135yes
thermophileno98.889yes
glucose-fermentno90.121no

External links

@ref: 41617

culture collection no.: CIP 111018, JCM 15801, KCTC 13318

straininfo link

  • @ref: 95934
  • straininfo: 413055

literature

  • topic: Phylogeny
  • Pubmed-ID: 21221948
  • title: Bacillus gaemokensis sp. nov., isolated from foreshore tidal flat sediment from the Yellow Sea.
  • authors: Jung MY, Paek WK, Park IS, Han JR, Sin Y, Paek J, Rhee MS, Kim H, Song HS, Chang YH
  • journal: J Microbiol
  • DOI: 10.1007/s12275-010-0148-0
  • year: 2011
  • mesh: Bacillus/chemistry/*classification/genetics/*isolation & purification, Base Composition, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Galactose/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spores, Bacterial/cytology
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
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
41617Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20111018Collection of Institut Pasteur (CIP 111018)
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
95934Reimer, 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-ID413055.1