Strain identifier

BacDive ID: 134179

Type strain: Yes

Species: Caldalkalibacillus thermarum

Strain Designation: HA6

Strain history: Y. Xue and Y. Ma HA6.

NCBI tax ID(s): 296745 (species)

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General

@ref: 31714

BacDive-ID: 134179

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

description: Caldalkalibacillus thermarum HA6 is an aerobe, spore-forming, thermophilic bacterium that was isolated from hot spring.

NCBI tax id

  • NCBI tax id: 296745
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y. Xue and Y. Ma HA6.

doi: 10.13145/bacdive134179.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Caldalkalibacillus
  • species: Caldalkalibacillus thermarum
  • full scientific name: Caldalkalibacillus thermarum Xue et al. 2006

@ref: 31714

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Bacillaceae

genus: Caldalkalibacillus

species: Caldalkalibacillus thermarum

strain designation: HA6

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31714positive3-6.5 µm0.5 µmrod-shapedno
69480positive100

pigmentation

  • @ref: 31714
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerangeconfidence
31714positivegrowth45-65thermophilic
31714positiveoptimum60thermophilic
67770positivegrowth60thermophilic
69480thermophilic97.546

culture pH

@refabilitytypepHPH range
31714positivegrowth7.5-10alkaliphile
31714positiveoptimum8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31714
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31714yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
31714NaClpositivegrowth0-6 %
31714NaClpositiveoptimum01-05 %

observation

@refobservation
31714aggregates in chains
67770quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3171430089acetate+carbon source
3171417057cellobiose+carbon source
3171424175galacturonate+carbon source
3171417234glucose+carbon source
3171417754glycerol+carbon source
3171424996lactate+carbon source
3171417716lactose+carbon source
3171429864mannitol+carbon source
3171437684mannose+carbon source
3171428053melibiose+carbon source
3171415361pyruvate+carbon source
3171416634raffinose+carbon source
3171426546rhamnose+carbon source
3171417814salicin+carbon source
3171430031succinate+carbon source
3171417992sucrose+carbon source
3171427082trehalose+carbon source

metabolite production

  • @ref: 31714
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 31714
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

  • @ref: 31714
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
31714hot spring
67770Alkaline hot springTengchongChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Thermal spring
#Condition#Thermophilic (>45°C)

taxonmaps

  • @ref: 69479
  • File name: preview.99_5142.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_503;96_2502;97_3055;98_3834;99_5142&stattab=map
  • Last taxonomy: Caldalkalibacillus thermarum subclade
  • 16S sequence: AY753654
  • Sequence Identity:
  • Total samples: 5186
  • soil counts: 1038
  • aquatic counts: 974
  • animal counts: 2647
  • plant counts: 527

Sequence information

16S sequences

  • @ref: 31714
  • description: Caldalkalibacillus thermarum strain HA6 16S ribosomal RNA gene, partial sequence
  • accession: AY753654
  • length: 1485
  • database: nuccore
  • NCBI tax ID: 296745

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Caldalkalibacillus thermarum CGMCC 1.4242GCA_014644735scaffoldncbi296745
66792Caldalkalibacillus thermarum strain CGMCC 1.4242296745.3wgspatric296745

GC content

@refGC-contentmethod
3171445.2
6777045.2thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno71.345yes
gram-positiveyes86.416yes
anaerobicno95.873yes
aerobicyes91.728yes
halophileno73.303no
spore-formingyes96.117no
glucose-utilyes91.038yes
thermophileyes99.999yes
motileyes66.281yes
glucose-fermentno91.233no

External links

@ref: 31714

culture collection no.: CGMCC 1.4242, JCM 13486

straininfo link

  • @ref: 91777
  • straininfo: 297153

literature

  • topic: Phylogeny
  • Pubmed-ID: 16738094
  • title: Caldalkalibacillus thermarum gen. nov., sp. nov., a novel alkalithermophilic bacterium from a hot spring in China.
  • authors: Xue Y, Zhang X, Zhou C, Zhao Y, Cowan DA, Heaphy S, Grant WD, Jones BE, Ventosa A, Ma Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64105-0
  • year: 2006
  • mesh: China, Fatty Acids, Nonesterified/analysis, Gram-Positive Rods/*classification/*isolation & purification/physiology/ultrastructure, Hot Springs/*microbiology, Microscopy, Electron, Scanning, Molecular Sequence Data, Phylogeny, Spores, Bacterial, *Water Microbiology
  • topic2: Genetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
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
31714Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172799028776041
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/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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
91777Reimer, 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-ID297153.1