Strain identifier

BacDive ID: 6157

Type strain: Yes

Species: Aquabacter spiritensis

Strain Designation: SPL-1

Strain history: <- LMG <- J. Staley, SPL-1, (unidentified)

NCBI tax ID(s): 933073 (species)

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General

@ref: 3393

BacDive-ID: 6157

DSM-Number: 9035

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Aquabacter spiritensis SPL-1 is a mesophilic, Gram-negative bacterium that was isolated from water .

NCBI tax id

  • NCBI tax id: 933073
  • Matching level: species

strain history

  • @ref: 3393
  • history: <- LMG <- J. Staley, SPL-1, (unidentified)

doi: 10.13145/bacdive6157.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Xanthobacteraceae
  • genus: Aquabacter
  • species: Aquabacter spiritensis
  • full scientific name: Aquabacter spiritensis Irgens et al. 1993

@ref: 3393

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Xanthobacteraceae

genus: Aquabacter

species: Aquabacter spiritensis

full scientific name: Aquabacter spiritensis Irgens et al. 1993

strain designation: SPL-1

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.994

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3393R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
3393MMB MEDIUM (DSMZ Medium 628)yeshttps://mediadive.dsmz.de/medium/628Name: MMB MEDIUM (DSMZ Medium 628) Composition: Glucose 1.0 g/l MgSO4 x 7 H2O 0.594 g/l (NH4)2SO4 0.25 g/l Nitrilotriacetic acid 0.2 g/l Yeast extract 0.15 g/l Peptone 0.15 g/l CaCl2 x 2 H2O 0.0667 g/l ZnSO4 x 7 H2O 0.001095 g/l FeSO4 x 7 H2O 0.0005 g/l Na-EDTA 0.00025 g/l (NH4)6Mo7O24 x 4 H2O 0.000185 g/l MnSO4 x H2O 0.000154 g/l Calcium pantothenate 5e-05 g/l Pyridoxine hydrochloride 5e-05 g/l Riboflavin 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l CuSO4 x 5 H2O 3.92e-05 g/l Co(NO3)2 x 6 H2O 2.48e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2B4O7 x 10 H2O 1.77e-05 g/l Vitamin B12 1e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
3393positivegrowth28mesophilic
3393positivegrowth30mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.998

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
3393water (5 m depth)Spirit Lake, WashinghtonUSAUSANorth America
61658Water,5.0 m depthWashington,Spirit LakeUSAUSANorth America1981-04-10

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

Safety information

risk assessment

  • @ref: 3393
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 3393
  • description: Aquabacter spiritensis partial 16S rRNA gene, type strain DSM9035T
  • accession: FR733686
  • length: 1474
  • database: ena
  • NCBI tax ID: 933073

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aquabacter spiritensis DSM 9035GCA_004346185scaffoldncbi933073
66792Aquabacter spiritensis strain DSM 9035933073.3wgspatric933073
66792Aquabacter spiritensis DSM 90352784746799draftimg933073

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes84.649no
flagellatedno59.482no
gram-positiveno98.089no
anaerobicno95.696no
aerobicyes92.045no
halophileno80.934no
spore-formingno94.829no
glucose-utilyes83.92no
thermophileno97.571yes
glucose-fermentno91.038no

External links

@ref: 3393

culture collection no.: DSM 9035, ATCC 43981, LMG 8611, CCUG 58315

straininfo link

  • @ref: 75643
  • straininfo: 9843

literature

  • topic: Phylogeny
  • Pubmed-ID: 31592754
  • title: Aquabacter cavernae sp. nov., a bacterium isolated from cave soil.
  • authors: Duo JL, Cha QY, Zhou XK, Zhang TK, Qin SC, Yang PX, Zhu ML, Mo MH, Duan YQ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003585
  • year: 2019
  • mesh: Alphaproteobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, Caves/*microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3393Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9035)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9035
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
61658Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58315)https://www.ccug.se/strain?id=58315
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
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
75643Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID9843.1StrainInfo: A central database for resolving microbial strain identifiers