Strain identifier

BacDive ID: 411

Type strain: Yes

Species: Alicyclobacillus hesperidum

Strain Designation: FR-11

Strain history: CIP <- 2001, MS Da Costa, Coimbra Univ., Coimbra, Portugal, strain: FR-11

NCBI tax ID(s): 89784 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 4743

BacDive-ID: 411

DSM-Number: 12489

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, thermophilic, motile

description: Alicyclobacillus hesperidum FR-11 is a spore-forming, thermophilic, motile bacterium of the family Alicyclobacillaceae.

NCBI tax id

  • NCBI tax id: 89784
  • Matching level: species

strain history

@refhistory
4743<- M. F. Nobre, Univ. Coimbra; FR-11
119887CIP <- 2001, MS Da Costa, Coimbra Univ., Coimbra, Portugal, strain: FR-11

doi: 10.13145/bacdive411.20230509.8.1

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 hesperidum
  • full scientific name: Alicyclobacillus hesperidum Albuquerque et al. 2000

@ref: 4743

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Alicyclobacillaceae

genus: Alicyclobacillus

species: Alicyclobacillus hesperidum

full scientific name: Alicyclobacillus hesperidum Albuquerque et al. 2000

strain designation: FR-11

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes93.31
6948099.719positive
119887nonegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4743ALICYCLOBACILLUS MEDIUM (DSMZ Medium 402)yeshttps://mediadive.dsmz.de/medium/402Name: ALICYCLOBACILLUS MEDIUM (DSMZ Medium 402) Composition: Agar 15.0 g/l Glucose 5.0 g/l KH2PO4 3.0 g/l Yeast extract 2.0 g/l MgSO4 x 7 H2O 0.5 g/l CaCl2 x 2 H2O 0.25 g/l (NH4)2SO4 0.2 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water
33756MEDIUM 413 - for Alicyclobacillus hesperidumyesDistilled water make up to (500.000 ml);Magnesium sulphate heptahydrate (0.500 g);Calcium chloride dihydrate (0.250 g);Glucose (5.000 g);Yeast extract (2.000 g);Ammonium sulphate (0.200 g);Potassium di-hydrogen phosphate (3.000 g);Solution SL-6 - M00545(1
119887CIP Medium 413yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=413

culture temp

@refgrowthtypetemperaturerangeconfidence
4743positivegrowth50thermophilic
33756positivegrowth55thermophilic
69480thermophilic99.312
119887positivegrowth37-55
119887nogrowth10psychrophilic
119887nogrowth30mesophilic

culture pH

  • @ref: 119887
  • ability: no
  • type: growth
  • pH: 6

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 99.412

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1198874853esculin-hydrolysis
119887606565hippurate-hydrolysis
11988717632nitrate-reduction
11988716301nitrite-reduction

metabolite production

  • @ref: 119887
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11988715688acetoin-
11988717234glucose-

enzymes

@refvalueactivityec
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
119887oxidase-
119887beta-galactosidase-3.2.1.23
119887alcohol dehydrogenase-1.1.1.1
119887gelatinase+
119887catalase-1.11.1.6
119887gamma-glutamyltransferase-2.3.2.2
119887lysine decarboxylase-4.1.1.18
119887ornithine decarboxylase-4.1.1.17
119887phenylalanine ammonia-lyase-4.3.1.24
119887urease-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
119887--++-+++++++++-++---

Isolation, sampling and environmental information

isolation

@refgeographic locationsample typecountryorigin.countrycontinent
4743Island of S. Miguel, Furnas
119887AzoresEnvironment, Solfataric soilPortugalPRTEurope

taxonmaps

  • @ref: 69479
  • File name: preview.99_7326.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_313;96_2480;97_4206;98_5373;99_7326&stattab=map
  • Last taxonomy: Alicyclobacillus
  • 16S sequence: AJ133633
  • Sequence Identity:
  • Total samples: 1443
  • soil counts: 730
  • aquatic counts: 153
  • animal counts: 406
  • plant counts: 154

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
47431Risk group (German classification)
1198871Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Alicyclobacillus hesperidum gene for 16S rRNA, strain:DSM 12489TAB0596781517ena89784
20218Alicyclobacillus hesperidum isolate Ahe3 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceEU723615385ena89784
20218Alicyclobacillus hesperidum strain DSM 12489 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceGU208680182ena89784
20218Alicyclobacillus hesperidensis 16S rRNA gene, strain FR-11AJ1336331485ena89784

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alicyclobacillus hesperidum DSM 12489GCA_900107035scaffoldncbi89784
66792Alicyclobacillus hesperidum strain DSM 1248989784.3wgspatric89784
66792Alicyclobacillus hesperidum DSM 124892634166329draftimg89784

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes88no
motileyes82.516no
glucose-fermentno84.86no
flagellatedno73.074no
gram-positiveyes81.516no
anaerobicno97.745no
aerobicyes89.771no
halophileno94.206no
spore-formingyes95.572no
thermophileyes99.998yes
glucose-utilyes90.328no

External links

@ref: 4743

culture collection no.: DSM 12489, CIP 107290

straininfo link

  • @ref: 70091
  • straininfo: 49303

literature

  • topic: Phylogeny
  • Pubmed-ID: 10758847
  • title: Alicyclobacillus hesperidum sp. nov. and a related genomic species from solfataric soils of Sao Miguel in the Azores.
  • authors: Albuquerque L, Rainey FA, Chung AP, Sunna A, Nobre MF, Grote R, Antranikian G, da Costa MS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-50-2-451
  • year: 2000
  • mesh: Azores, Bacterial Typing Techniques, Fatty Acids/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Rods/*classification/genetics/*isolation & purification/physiology, Lipids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Temperature
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4743Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12489)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12489
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
33756Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4709
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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)
70091Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49303.1StrainInfo: A central database for resolving microbial strain identifiers
119887Curators of the CIPCollection of Institut Pasteur (CIP 107290)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107290