Strain identifier

BacDive ID: 1379

Type strain: Yes

Species: Oceanobacillus sojae

Strain Designation: Y27

Strain history: CIP <- 2008, T. Tominaga, Saitama Ind. Technol. Cent. North Inst., Saitama, Japan: strain Y27

NCBI tax ID(s): 582851 (species)

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General

@ref: 16735

BacDive-ID: 1379

DSM-Number: 23151

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, motile

description: Oceanobacillus sojae Y27 is a facultative anaerobe, spore-forming, motile bacterium that was isolated from surface of soy sauce production equipment.

NCBI tax id

  • NCBI tax id: 582851
  • Matching level: species

strain history

@refhistory
378922008, T. Tominaga, Saitama Ind. Tech. Inst., Saitama, Japan: strain Y27
16735<- JCM/RIKEN <- T. Tominaga, Saitama Industrial Technology Center North Inst., Kumagaya, Japan; Y27
67770T. Tominaga Y27.
122650CIP <- 2008, T. Tominaga, Saitama Ind. Technol. Cent. North Inst., Saitama, Japan: strain Y27

doi: 10.13145/bacdive1379.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Oceanobacillus
  • species: Oceanobacillus sojae
  • full scientific name: Oceanobacillus sojae corrig. Tominaga et al. 2009

  • synonyms

    • @ref: 20215
    • synonym: Oceanobacillus soja

@ref: 16735

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Oceanobacillus

species: Oceanobacillus sojae

full scientific name: Oceanobacillus sojae Tominaga et al. 2009

strain designation: Y27

type strain: yes

Morphology

cell morphology

  • @ref: 122650
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16735CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220; with strain-specific modifications) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l MnSO4 Distilled water
37892MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122650CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperature
16735positivegrowth30
37892positivegrowth30
67770positivegrowth30

Physiology and metabolism

oxygen tolerance

  • @ref: 122650
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 91.01

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12265017632nitrate-reduction
12265016301nitrite-reduction

metabolite production

  • @ref: 122650
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
122650oxidase+
122650catalase+1.11.1.6
122650urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122650-+++-+--++++---++---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
16735surface of soy sauce production equipmentJapanJPNAsia
67770Surface of soy sauce production equipmentJapanJPNAsia
122650Surface of equiment in food plantJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production
#Engineered#Industrial#Engineered product

taxonmaps

  • @ref: 69479
  • File name: preview.99_3740.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_498;97_1273;98_1529;99_3740&stattab=map
  • Last taxonomy: Oceanobacillus sojae
  • 16S sequence: AB473561
  • Sequence Identity:
  • Total samples: 105
  • soil counts: 16
  • aquatic counts: 7
  • animal counts: 40
  • plant counts: 42

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
167351Risk group (German classification)
1226501Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Oceanobacillus sojae gene for 16S rRNA, partial sequence, strain: NBRC 105379AB6822531488nuccore582851
16735Oceanobacillus sojae gene for 16S ribosomal RNA, partial sequenceAB4735611518nuccore582851

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Oceanobacillus sojae NBRC 105379GCA_007991515contigncbi582851
66792Oceanobacillus sojae strain NBRC 105379582851.8wgspatric582851

GC content

@refGC-contentmethod
1673538.0high performance liquid chromatography (HPLC)
6777038high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes79.949no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no92.721no
69480spore-formingspore-formingAbility to form endo- or exosporesyes91.01no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes51.771yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.714yes
69480flagellatedmotile2+Ability to perform flagellated movementyes84.918no

External links

@ref: 16735

culture collection no.: DSM 23151, CIP 109918, JCM 15792, NBRC 105379, NCIMB 14542, NRRL B-59181, KCTC 13887

straininfo link

  • @ref: 71030
  • straininfo: 364728

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19590150Oceanobacillus soja sp. nov. isolated from soy sauce production equipment in Japan.Tominaga T, An SY, Oyaizu H, Yokota AJ Gen Appl Microbiol10.2323/jgam.55.2252009Bacillus/*classification/genetics/*isolation & purification, Base Composition, *Equipment Contamination, *Food Microbiology, *Food-Processing Industry, Genes, Bacterial/genetics, Japan, Molecular Sequence Data, Phylogeny, Soy Foods/*microbiologyBiotechnology
Phylogeny24595860Oceanobacillus aidingensis sp. nov., a moderately halophilic bacterium.Liu W, Yang SSAntonie Van Leeuwenhoek10.1007/s10482-014-0128-12014Amino Acids, Diamino/analysis, Bacillaceae/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Lakes/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spores, Bacterial/cytology, TemperatureGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16735Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23151)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23151
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
37892Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7716
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
71030Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364728.1StrainInfo: A central database for resolving microbial strain identifiers
122650Curators of the CIPCollection of Institut Pasteur (CIP 109918)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109918