Strain identifier

BacDive ID: 133999

Type strain: Yes

Species: Anoxybacillus vitaminiphilus

Strain Designation: 3nP4

Strain history: X.-Q. Zhang 3nP4.

NCBI tax ID(s): 581036 (species)

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General

@ref: 31028

BacDive-ID: 133999

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

description: Anoxybacillus vitaminiphilus 3nP4 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from hot spring.

NCBI tax id

  • NCBI tax id: 581036
  • Matching level: species

strain history

  • @ref: 67770
  • history: X.-Q. Zhang 3nP4.

doi: 10.13145/bacdive133999.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Anoxybacillus
  • species: Anoxybacillus vitaminiphilus
  • full scientific name: Anoxybacillus vitaminiphilus Zhang et al. 2013

@ref: 31028

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Bacillaceae

genus: Anoxybacillus

species: Anoxybacillus vitaminiphilus

strain designation: 3nP4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31028positive5 µm0.9 µmrod-shapedyes
69480yes95.608
69480positive100

pigmentation

  • @ref: 31028
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerangeconfidence
31028positivegrowth38-66
31028positiveoptimum58.5thermophilic
67770positivegrowth55thermophilic
69480thermophilic99.691

culture pH

@refabilitytypepHPH range
31028positivegrowth6.0-9.3alkaliphile
31028positiveoptimum7.25

Physiology and metabolism

oxygen tolerance

  • @ref: 31028
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31028yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
31028NaClpositivegrowth0-4 %
31028NaClpositiveoptimum0.25 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3102830089acetate+carbon source
3102822653asparagine+carbon source
3102835391aspartate+carbon source
3102828757fructose+carbon source
3102828260galactose+carbon source
3102824265gluconate+carbon source
3102817234glucose+carbon source
3102829987glutamate+carbon source
3102817754glycerol+carbon source
3102825115malate+carbon source
3102817306maltose+carbon source
3102829864mannitol+carbon source
3102837684mannose+carbon source
3102828053melibiose+carbon source
3102817272propionate+carbon source
3102815361pyruvate+carbon source
3102816634raffinose+carbon source
3102817814salicin+carbon source
3102830031succinate+carbon source
3102817992sucrose+carbon source
3102827082trehalose+carbon source
3102816199urea+carbon source
3102818222xylose+carbon source
310284853esculin+hydrolysis
3102817632nitrate+reduction

metabolite production

  • @ref: 31028
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

@refvalueactivityec
31028catalase+1.11.1.6
31028cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
31028hot spring
67770Puge hot springSichuan, south-west ChinaChinaCHNAsia

isolation source categories

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

Sequence information

16S sequences

  • @ref: 31028
  • description: Anoxybacillus vitaminiphilus strain 3nP4 16S ribosomal RNA gene, partial sequence
  • accession: FJ474084
  • length: 1511
  • database: nuccore
  • NCBI tax ID: 581036

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Anoxybacillus vitaminiphilus strain CGMCC 1.8979581036.3wgspatric581036
66792Anoxybacillus vitaminiphilus CGMCC 1.89792718217676draftimg581036
67770Anoxybacillus vitaminiphilus CGMCC 1.8979GCA_003259935scaffoldncbi581036

GC content

@refGC-contentmethod
3102839.2
6777039.2high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes88.605yes
anaerobicno97.74yes
halophileno94.059yes
spore-formingyes95.473yes
glucose-utilyes89.753yes
thermophileyes99.353no
flagellatedyes87.567no
aerobicyes92.097yes
motileyes87.147yes
glucose-fermentno90.729no

External links

@ref: 31028

culture collection no.: CGMCC 1.8979, JCM 16594

literature

  • topic: Phylogeny
  • Pubmed-ID: 23728374
  • title: Anoxybacillus vitaminiphilus sp. nov., a strictly aerobic and moderately thermophilic bacterium isolated from a hot spring.
  • authors: Zhang XQ, Zhang ZL, Wu N, Zhu XF, Wu M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.050096-0
  • year: 2013
  • mesh: Anoxybacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Random Amplified Polymorphic DNA Technique, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, Water Microbiology
  • topic2: Genetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
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
31028Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172735828776041
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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