Strain identifier

BacDive ID: 429

Type strain: Yes

Species: Alicyclobacillus contaminans

Strain Designation: 3-A191

Strain history: IAM 15224 <-- K. Goto 3-A191.

NCBI tax ID(s): 1120971 (strain), 392016 (species)

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General

@ref: 7307

BacDive-ID: 429

DSM-Number: 17975

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

description: Alicyclobacillus contaminans 3-A191 is an aerobe, spore-forming, thermophilic bacterium that was isolated from soil, crop field.

NCBI tax id

NCBI tax idMatching level
392016species
1120971strain

strain history

@refhistory
7307<- Keiichi Goto, 3-A191
67770IAM 15224 <-- K. Goto 3-A191.

doi: 10.13145/bacdive429.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Alicyclobacillaceae
  • genus: Alicyclobacillus
  • species: Alicyclobacillus contaminans
  • full scientific name: Alicyclobacillus contaminans Goto et al. 2007

@ref: 7307

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Alicyclobacillaceae

genus: Alicyclobacillus

species: Alicyclobacillus contaminans

full scientific name: Alicyclobacillus contaminans Goto et al. 2007

strain designation: 3-A191

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31943positive04-05 µm0.8-0.9 µmrod-shapedyes
69480yes92.825
69480positive100

pigmentation

  • @ref: 31943
  • production: no

Culture and growth conditions

culture medium

  • @ref: 7307
  • name: BACILLUS ACIDOCALDARIUS MEDIUM (DSMZ Medium 13)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/13
  • composition: Name: BACILLUS ACIDOCALDARIUS MEDIUM (DSMZ Medium 13) Composition: Agar 20.0 g/l Glucose 1.0 g/l Yeast extract 1.0 g/l KH2PO4 0.6 g/l MgSO4 x 7 H2O 0.5 g/l CaCl2 x 2 H2O 0.25 g/l (NH4)2SO4 0.2 g/l Distilled water

culture temp

@refgrowthtypetemperaturerangeconfidence
7307positivegrowth55thermophilic
31943positivegrowth35-60
31943positiveoptimum50-55thermophilic
67770positivegrowth50thermophilic
69480thermophilic99.999

culture pH

@refabilitytypepHPH range
31943positivegrowth4-4.5acidophile
31943positiveoptimum4.25

Physiology and metabolism

oxygen tolerance

  • @ref: 31943
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31943yes
69481yes100
69480yes99.999

halophily

@refsaltgrowthtested relationconcentration
31943NaClpositivegrowth0-2 %
31943NaClpositiveoptimum1 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3194322599arabinose+carbon source
3194317057cellobiose+carbon source
3194317754glycerol+carbon source
3194317716lactose+carbon source
3194317306maltose+carbon source
31943506227N-acetylglucosamine+carbon source
3194326546rhamnose+carbon source
3194317814salicin+carbon source
3194317992sucrose+carbon source
3194327082trehalose+carbon source
3194318222xylose+carbon source

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7307soil, crop fieldFuji cityJapanJPNAsia
67770Soil of a crop field in Fuji CityShizuoka Pref.JapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_22747.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_313;96_11483;97_13901;98_17142;99_22747&stattab=map
  • Last taxonomy: Alicyclobacillus contaminans subclade
  • 16S sequence: AB264026
  • Sequence Identity:
  • Total samples: 2020
  • soil counts: 1229
  • aquatic counts: 205
  • animal counts: 166
  • plant counts: 420

Safety information

risk assessment

  • @ref: 7307
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7307
  • description: Alicyclobacillus contaminans gene for 16S ribosomal RNA, partial sequence
  • accession: AB264026
  • length: 1520
  • database: ena
  • NCBI tax ID: 392016

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alicyclobacillus contaminans DSM 179751120971.3wgspatric1120971
66792Alicyclobacillus contaminans DSM 179752524023143draftimg1120971
67770Alicyclobacillus contaminans DSM 17975GCA_000429525scaffoldncbi1120971

GC content

@refGC-contentmethod
730760.1
3194360.1-60.6
6777060.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes87.57yes
flagellatedno69.735no
gram-positiveyes86.538yes
anaerobicno97.684yes
aerobicyes91.085yes
halophileno95.462no
spore-formingyes95.074yes
glucose-utilyes91.777no
thermophileyes99.737yes
glucose-fermentno88.669no

External links

@ref: 7307

culture collection no.: DSM 17975, IAM 15224, JCM 21678, NBRC 103102

straininfo link

  • @ref: 70108
  • straininfo: 309418

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17551043Proposal of six species of moderately thermophilic, acidophilic, endospore-forming bacteria: Alicyclobacillus contaminans sp. nov., Alicyclobacillus fastidiosus sp. nov., Alicyclobacillus kakegawensis sp. nov., Alicyclobacillus macrosporangiidus sp. nov., Alicyclobacillus sacchari sp. nov. and Alicyclobacillus shizuokensis sp. nov.Goto K, Mochida K, Kato Y, Asahara M, Fujita R, An SY, Kasai H, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.64692-02007Aerobiosis, Bacterial Proteins/genetics, Bacterial Typing Techniques, Beverages/*microbiology, Carbohydrate Metabolism, Carboxylic Acids/metabolism, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Bacteria/*classification/cytology/*isolation & purification/physiology, Guaiacol/metabolism, Hydrogen-Ion Concentration, Microscopy, Phase-Contrast, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, TemperatureMetabolism
Phylogeny25037879Alicyclobacillus tengchongensis sp. nov., a thermo-acidophilic bacterium isolated from hot spring soil.Kim MG, Lee JC, Park DJ, Li WJ, Kim CJJ Microbiol10.1007/s12275-014-3625-z2014Aerobiosis, Alicyclobacillus/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hot Springs, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Peptidoglycan/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Temperature, Vitamin K 2/analysisGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7307Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17975)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17975
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
31943Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2819928776041
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/
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
70108Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID309418.1StrainInfo: A central database for resolving microbial strain identifiers