Strain identifier

BacDive ID: 547

Type strain: Yes

Species: Alkalibacillus silvisoli

Strain Designation: BM2

Strain history: CIP <- 2007 JCM <- 2006, A. Echigo, Tokyo Univ., Saitama, Japan: strain BM2

NCBI tax ID(s): 392823 (species)

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General

@ref: 7563

BacDive-ID: 547

DSM-Number: 18495

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

description: Alkalibacillus silvisoli BM2 is an aerobe, spore-forming, mesophilic bacterium that was isolated from forest soil.

NCBI tax id

  • NCBI tax id: 392823
  • Matching level: species

strain history

@refhistory
7563<- Akinobu Echigo
67770A. Echigo BM2.
122612CIP <- 2007 JCM <- 2006, A. Echigo, Tokyo Univ., Saitama, Japan: strain BM2

doi: 10.13145/bacdive547.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Alkalibacillus
  • species: Alkalibacillus silvisoli
  • full scientific name: Alkalibacillus silvisoli Usami et al. 2007

@ref: 7563

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Alkalibacillus

species: Alkalibacillus silvisoli

full scientific name: Alkalibacillus silvisoli Usami et al. 2007

strain designation: BM2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31957positive04-07 µm0.3-0.5 µmrod-shapedyes
122612positiverod-shapedyes

pigmentation

  • @ref: 31957
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7563HALOBACTERIA MEDIUM (DSMZ Medium 372)yeshttps://mediadive.dsmz.de/medium/372Name: HALOBACTERIA MEDIUM (DSMZ Medium 372; with strain-specific modifications) Composition: NaCl 200.0 g/l Agar 20.0 g/l MgSO4 x 7 H2O 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l MgSO4 0.2 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
40069MEDIUM674 - for Alkalibacillus filiformisyes
122612CIP Medium 413yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=413

culture temp

@refgrowthtypetemperaturerange
7563positivegrowth30mesophilic
31957positivegrowth20-50
31957positiveoptimum30-37mesophilic
40069positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31957positivegrowth07-10alkaliphile
31957positiveoptimum9-9.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31957
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31957
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
31957NaClpositivegrowth05-25 %
31957NaClpositiveoptimum10-15 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3195728260galactose+carbon source
3195717306maltose+carbon source
3195729864mannitol+carbon source
3195717992sucrose+carbon source
3195727082trehalose+carbon source
12261217632nitrate-reduction
12261216301nitrite-reduction

metabolite production

  • @ref: 122612
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31957catalase+1.11.1.6
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
122612oxidase-
122612catalase+1.11.1.6
122612urease-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
122612-++--+---------+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7563forest soilSaitama prefecture, Kawagoe CityJapanJPNAsia
67770Non-saline surface soil from a forest in KawagoeSaitama Pref.JapanJPNAsia
122612Environment, Soil, non-saline forestJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_12652.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_1819;97_2183;98_2680;99_12652&stattab=map
  • Last taxonomy: Alkalibacillus silvisoli
  • 16S sequence: AB264528
  • Sequence Identity:
  • Total samples: 20
  • soil counts: 5
  • aquatic counts: 7
  • animal counts: 7
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
75631Risk group (German classification)
1226121Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31957
  • description: Alkalibacillus silvisoli gene for 16S rRNA, partial sequence, strain: BM2
  • accession: AB264528
  • length: 1492
  • database: nuccore
  • NCBI tax ID: 392823

GC content

@refGC-contentmethod
756337.0
3195737
6777037high performance liquid chromatography (HPLC)

External links

@ref: 7563

culture collection no.: DSM 18495, JCM 14193, CIP 109569

straininfo link

  • @ref: 70225
  • straininfo: 302749

literature

  • topic: Phylogeny
  • Pubmed-ID: 17392204
  • title: Alkalibacillus silvisoli sp. nov., an alkaliphilic moderate halophile isolated from non-saline forest soil in Japan.
  • authors: Usami R, Echigo A, Fukushima T, Mizuki T, Yoshida Y, Kamekura M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64713-0
  • year: 2007
  • mesh: Bacillaceae/*classification/genetics/isolation & purification/physiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Japan, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride, *Soil Microbiology, Trees
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7563Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18495)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18495
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
31957Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2821328776041
40069Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7327
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
70225Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID302749.1StrainInfo: A central database for resolving microbial strain identifiers
122612Curators of the CIPCollection of Institut Pasteur (CIP 109569)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109569