Strain identifier

BacDive ID: 1348

Type strain: Yes

Species: Halobacillus dabanensis

Strain Designation: D-8

Strain history: CIP <- 2005, JCM <- 2004, W.Y. Liu, China Agric. Univ., Beijing, China

NCBI tax ID(s): 240302 (species)

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General

@ref: 7423

BacDive-ID: 1348

DSM-Number: 18199

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, Gram-positive, motile, rod-shaped, colony-forming, pigmented

description: Halobacillus dabanensis D-8 is a facultative anaerobe, spore-forming, Gram-positive bacterium that forms circular colonies and has a orange pigmentation.

NCBI tax id

  • NCBI tax id: 240302
  • Matching level: species

strain history

@refhistory
7423<- JCM
67770CGMCC 1.3704 <-- W. Y. Liu D-8.
118838CIP <- 2005, JCM <- 2004, W.Y. Liu, China Agric. Univ., Beijing, China

doi: 10.13145/bacdive1348.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Halobacillus
  • species: Halobacillus dabanensis
  • full scientific name: Halobacillus dabanensis Liu et al. 2005

@ref: 7423

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Halobacillus

species: Halobacillus dabanensis

full scientific name: Halobacillus dabanensis Liu et al. 2005

strain designation: D-8

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
22987positive2.2-4.2 µm0.6-0.9 µmrod-shapedyesperitrichous
118838positiverod-shapedyes

colony morphology

@refcolony sizecolony colorcolony shapeincubation period
229873.0-4.0 mmcreamcircular3 days
118838

pigmentation

  • @ref: 22987
  • production: yes
  • color: orange

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7423BACTO 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
40089MEDIUM 665 -for Halobacillus aidigensisyesDistilled water make up to (1000.000 ml);Sodium chloride (50.000 g);Potassium chloride (2.000 g);Magnesium sulphate heptahydrate (20.000 g);Agar (20.000 g);Yeastextract (10.000 g);Peptone (5.000 g);Tri-sodium citrate pentahydrate (3.000 g);Trypticase pept
118838CIP Medium 413yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=413

culture temp

@refgrowthtypetemperature
7423positivegrowth30
22987positivegrowth15.0-50.0
22987positiveoptimum35.0
40089positivegrowth30
67770positivegrowth35

culture pH

@refabilitytypepHPH range
22987positivegrowth5.0-11.0alkaliphile
22987positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 118838
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
22987ellipsoidal,central or subterminal positionendosporeyes
69480yes93.75
69481yes100

halophily

@refsaltgrowthtested relationconcentration
22987NaClpositivegrowth0.5-25.0 %(w/v)
22987NaCloptimum10.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2298712936D-galactose-builds acid from
229874853esculin-hydrolysis
229875291gelatin-hydrolysis
2298753426tween 80-hydrolysis
2298718186tyrosine-hydrolysis
2298717632nitrate-reduction
2298715824D-fructose+builds acid from
2298717634D-glucose+builds acid from
2298716899D-mannitol+builds acid from
2298716551D-trehalose+builds acid from
2298765327D-xylose+builds acid from
2298717306maltose+builds acid from
2298717992sucrose+builds acid from
22987casein+hydrolysis
2298728017starch+hydrolysis
68371Potassium 2-ketogluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-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
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
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol+builds acid from
11883817632nitrate-reduction
11883816301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
2298715688acetoinno
11883835581indoleno

metabolite tests

  • @ref: 22987
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
22987catalase+1.11.1.6
22987cytochrome oxidase+1.9.3.1
22987DNase+
22987urease-3.5.1.5
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
118838oxidase+
118838alcohol dehydrogenase-1.1.1.1
118838catalase+1.11.1.6
118838lysine decarboxylase-4.1.1.18
118838ornithine decarboxylase+4.1.1.17
118838urease-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
118838-+++-+----+-+--+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118838+---+/-+/---+/--+++----+/----+--++-+--+++/-+/------+/-----+/--+/--+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7423Daban salt lakeXinjiang ProvenceChinaCHNAsia
67770Daban salt lake in Xinjiang regionChinaCHNAsia
118838Environment, Salt lakeDaban, XinjiangChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_774.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_469;97_536;98_617;99_774&stattab=map
  • Last taxonomy: Halobacillus
  • 16S sequence: AY351395
  • Sequence Identity:
  • Total samples: 5980
  • soil counts: 2306
  • aquatic counts: 2677
  • animal counts: 590
  • plant counts: 407

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
74231Risk group (German classification)
1188381Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halobacillus dabanensis genes for 16S ribosomal RNA, internal transcribed spacer 1 and 23S ribosomal RNA, partial and complete sequence, clone: 569AB367148569nuccore240302
20218Halobacillus dabanensis genes for 16S ribosomal RNA, internal transcribed spacer 1 and 23S ribosomal RNA, partial and complete sequence, clone: 450AB367149450nuccore240302
20218Halobacillus dabanensis genes for 16S ribosomal RNA, internal transcribed spacer 1 and 23S ribosomal RNA, partial and complete sequence, clone: 449AB367150449nuccore240302
7423Halobacillus dabanensis strain D-8 16S ribosomal RNA gene, partial sequenceAY3513951459nuccore240302

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halobacillus dabanensis strain CGMCC 1.3704240302.16wgspatric240302
66792Halobacillus dabanensis CGMCC 1.37042617270759draftimg240302
67770Halobacillus dabanensis CGMCC 1.3704GCA_900114165scaffoldncbi240302

GC content

@refGC-contentmethod
742341.4
6777041.4thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes84.126yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.841no
69480spore-formingspore-formingAbility to form endo- or exosporesyes93.75yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes72.081yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94.853yes
69480flagellatedmotile2+Ability to perform flagellated movementyes84.396no

External links

@ref: 7423

culture collection no.: DSM 18199, CGMCC 1.3704, JCM 12772, CIP 109012

straininfo link

  • @ref: 70998
  • straininfo: 265604

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16166700Halobacillus dabanensis sp. nov. and Halobacillus aidingensis sp. nov., isolated from salt lakes in Xinjiang, China.Liu WY, Zeng J, Wang L, Dou YT, Yang SSInt J Syst Evol Microbiol10.1099/ijs.0.63787-02005Bacillaceae/chemistry/*classification/genetics/isolation & purification, Bacterial Typing Techniques, China, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium ChlorideGenetics
Phylogeny18175696Halobacillus mangrovi sp. nov., a moderately halophilic bacterium isolated from the black mangrove Avicennia germinans.Soto-Ramirez N, Sanchez-Porro C, Rosas-Padilla S, Almodovar K, Jimenez G, Machado-Rodriguez M, Zapata M, Ventosa A, Montalvo-Rodriguez RInt J Syst Evol Microbiol10.1099/ijs.0.65008-02008Avicennia/*microbiology, Bacillaceae/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, Species SpecificityGenetics
Phylogeny25795064Halobacillus andaensis sp. nov., a moderately halophilic bacterium isolated from saline and alkaline soil.Wang K, Zhang L, Yang Y, Pan Y, Meng L, Liu H, Hong S, Huang H, Jiang JInt J Syst Evol Microbiol10.1099/ijs.0.0001982015Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Halobacillus/*classification/genetics/isolation & purification, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Soil/chemistry, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7423Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18199)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18199
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
22987W. Y. Liu,J. Zeng,L. Wang,Y. T. Dou,S. S. Yang10.1099/ijs.0.63787-0Halobacillus dabanensis sp. nov. and Halobacillus aidingensis sp. nov., isolated from salt lakes in Xinjiang, ChinaIJSEM 55: 1991-1996 200516166700
40089Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6707
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/
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
70998Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID265604.1StrainInfo: A central database for resolving microbial strain identifiers
118838Curators of the CIPCollection of Institut Pasteur (CIP 109012)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109012