Strain identifier

BacDive ID: 1518

Type strain: Yes

Species: Terribacillus halophilus

Strain Designation: 002-051

Strain history: CIP <- 2007, IAM

NCBI tax ID(s): 361279 (species)

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General

@ref: 15771

BacDive-ID: 1518

DSM-Number: 21620

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

description: Terribacillus halophilus 002-051 is an aerobe, spore-forming, mesophilic bacterium that was isolated from Field soil.

NCBI tax id

  • NCBI tax id: 361279
  • Matching level: species

strain history

@refhistory
15771<- JCM <- IAM <- A. Yokota; 002-051
400432007, IAM
67770IAM 15310 <-- A. Yokota 002-051.
67771<- A Yokota, IAM
119819CIP <- 2007, IAM

doi: 10.13145/bacdive1518.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 15771

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Terribacillus

species: Terribacillus halophilus

full scientific name: Terribacillus halophilus An et al. 2007

strain designation: 002-051

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31809positive3.8 µm0.7 µmrod-shapedno
67771rod-shapedno
67771positive
69480yes98.393
69480positive100
119819positiverod-shapedyes

pigmentation

  • @ref: 31809
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15771BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
40043MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119819CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
15771positivegrowth30mesophilic
31809positivegrowth05-45
31809positiveoptimum25mesophilic
40043positivegrowth30mesophilic
67770positivegrowth30mesophilic
67771positivegrowth25-30mesophilic

culture pH

@refabilitytypepHPH range
31809positivegrowth05-10alkaliphile
31809positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31809aerobe
67771aerobe
119819obligate aerobe

spore formation

@refspore formationtype of sporeconfidence
31809yes
67771yesendospore
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
31809NaClpositivegrowth0-19 %
31809NaClpositiveoptimum01-05 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3180922599arabinose+carbon source
3180917057cellobiose+carbon source
3180928757fructose+carbon source
3180917234glucose+carbon source
3180917754glycerol+carbon source
3180917716lactose+carbon source
3180929864mannitol+carbon source
3180937684mannose+carbon source
31809506227N-acetylglucosamine+carbon source
3180926546rhamnose+carbon source
3180917814salicin+carbon source
3180917992sucrose+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose+builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose+builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose+builds acid from
6837128053melibiose+builds acid from
6837117716lactose+builds acid from
6837117306maltose-builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose+builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol+builds acid from
11981917632nitrate+reduction
11981916301nitrite-reduction

metabolite production

  • @ref: 119819
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31809catalase+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
119819oxidase-
119819catalase+1.11.1.6
119819urease-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
119819-+++-+--+-++++-++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119819+--+-----++++-+--+---++++++-+++---+---+--+-------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15771Field soilTama City, TokyoJapanJPNAsia
67770Field soil from Tama CityTokyoJapanJPNAsia
67771From field soil in JapanJapanJPNAsia
119819Environment, SoilJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_56376.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_2557;97_3126;98_3926;99_56376&stattab=map
  • Last taxonomy: Terribacillus halophilus
  • 16S sequence: AB243849
  • Sequence Identity:
  • Total samples: 1440
  • soil counts: 498
  • aquatic counts: 225
  • animal counts: 322
  • plant counts: 395

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
157711Risk group (German classification)
1198191Risk group (French classification)

Sequence information

16S sequences

  • @ref: 15771
  • description: Terribacillus halophilus rrs gene for 16S rRNA, partial sequence
  • accession: AB243849
  • length: 1514
  • database: ena
  • NCBI tax ID: 361279

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Terribacillus halophilus strain DSM 21620361279.6wgspatric361279
66792Terribacillus halophilus DSM 216202675903149draftimg361279
67770Terribacillus halophilus DSM 21620GCA_900101385scaffoldncbi361279

GC content

@refGC-contentmethod
6777145.8
6777045.8high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes92.926no
anaerobicno98.98no
halophileyes82.146no
spore-formingyes94.888yes
glucose-utilyes88.359no
motileyes83.43yes
flagellatedyes52.544yes
thermophileno99.605yes
aerobicyes91.408no
glucose-fermentno78.135no

External links

@ref: 15771

culture collection no.: DSM 21620, IAM 15310, JCM 21760, KCTC 13937, CGMCC 1.7684, CIP 109484

straininfo link

  • @ref: 71164
  • straininfo: 297338

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17220440Terribacillus saccharophilus gen. nov., sp. nov. and Terribacillus halophilus sp. nov., spore-forming bacteria isolated from field soil in Japan.An SY, Asahara M, Goto K, Kasai H, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.64340-02007Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Rods/*classification/genetics/isolation & purification/physiology, Japan, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/physiologyGenetics
Phylogeny18842842Proposal for transfer of Pelagibacillus goriensis Kim et al. 2007 to the genus Terribacillus as Terribacillus goriensis comb. nov.Krishnamurthi S, Chakrabarti TInt J Syst Evol Microbiol10.1099/ijs.0.65579-02008Bacillaceae/chemistry/*classification/*genetics, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Genes, rRNA, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil MicrobiologyPhenotype
Phylogeny20118295Terribacillus aidingensis sp. nov., a moderately halophilic bacterium.Liu W, Jiang L, Guo C, Yang SSInt J Syst Evol Microbiol10.1099/ijs.0.017228-02010Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15771Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21620)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21620
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
31809Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2807828776041
40043Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7232
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71164Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297338.1StrainInfo: A central database for resolving microbial strain identifiers
119819Curators of the CIPCollection of Institut Pasteur (CIP 109484)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109484