Strain identifier

BacDive ID: 2537

Type strain: Yes

Species: Gottschalkia acidurici

Strain Designation: 9a

Strain history: <- Institut für Mikrobiologie, Universität Göttingen (IMG), Germany; IMG 1642 <- G. Gottschalk <- H. A. Barker and J. V. Beck, University of California, Berkeley, USA; 9a

NCBI tax ID(s): 1556 (species)

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General

@ref: 316

BacDive-ID: 2537

DSM-Number: 604

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

description: Gottschalkia acidurici 9a is an anaerobe, chemoorganotroph, spore-forming bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1556
  • Matching level: species

strain history

  • @ref: 316
  • history: <- Institut für Mikrobiologie, Universität Göttingen (IMG), Germany; IMG 1642 <- G. Gottschalk <- H. A. Barker and J. V. Beck, University of California, Berkeley, USA; 9a

doi: 10.13145/bacdive2537.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Tissierellales
  • family: Gottschalkiaceae
  • genus: Gottschalkia
  • species: Gottschalkia acidurici
  • full scientific name: Gottschalkia acidurici (Liebert 1909) Poehlein et al. 2017

  • synonyms

    @refsynonym
    20215Bacillus acidiurici
    20215Clostridium acidiurici
    20215Gottschalkia acidurici
    20215Clostridium acidurici

@ref: 316

domain: Bacteria

phylum: Firmicutes

class: Tissierellia

order: Clostridiales

family: Gottschalkiaceae

genus: Gottschalkia

species: Gottschalkia acidurici

full scientific name: Gottschalkia acidurici (Liebert 1909) Poehlein et al. 2017

strain designation: 9a

type strain: yes

Morphology

cell morphology

  • @ref: 43456
  • gram stain: positive
  • cell length: 2.5-4 µm
  • cell width: 0.5-0.7 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

colony morphology

  • @ref: 43456
  • colony size: 1-2 mm
  • colony color: whitish
  • medium used: Enrichment medium containing uric acid

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
316GOTTSCHALKIA MEDIUM (DSMZ Medium 76)yeshttps://mediadive.dsmz.de/medium/76Name: GOTTSCHALKIA MEDIUM (DSMZ Medium 76) Composition: Uric acid 2.0 g/l Na2CO3 1.5 g/l Yeast extract 1.0 g/l K2HPO4 0.91 g/l KOH 0.67 g/l Na-thioglycolate 0.5 g/l MgSO4 x 7 H2O 0.25 g/l CaCl2 x 2 H2O 0.015 g/l FeSO4 x 7 H2O 0.006 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l Sodium resazurin 0.0005 g/l NaOH 0.0005 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
43456Enrichment medium containing uric acidyes

culture temp

@refgrowthtypetemperaturerange
316positivegrowth37mesophilic
43456positiveoptimum31-37mesophilic

culture pH

  • @ref: 43456
  • ability: positive
  • type: optimum
  • pH: 7.6-8.1

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
316anaerobe
43456obligate anaerobe

nutrition type

  • @ref: 43456
  • type: chemoorganotroph

spore formation

  • @ref: 43456
  • spore description: terminally located oval spores that cause a swelling of the cell
  • type of spore: spore
  • spore formation: yes

compound production

@refcompound
316(R) citrate synthase
316xanthine dehydrogenase

observation

  • @ref: 43456
  • observation: requires purines for growth

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4345616708adenine-assimilation
4345616335adenosine-assimilation
4345617057cellobiose-assimilation
4345615824D-fructose-assimilation
4345612936D-galactose-assimilation
4345617634D-glucose-assimilation
4345616899D-mannitol-assimilation
4345616024D-mannose-assimilation
4345616988D-ribose-assimilation
4345617924D-sorbitol-assimilation
4345665327D-xylose-assimilation
4345630849L-arabinose-assimilation
4345617716lactose-assimilation
4345617306maltose-assimilation
4345617992sucrose-assimilation
434565291gelatin-hydrolysis
4345628017starch-hydrolysis
4345617632nitrate-reduction
4345616189sulfate-reduction
4345617359sulfite-reduction
4345616094thiosulfate-reduction
4345616235guanine+assimilation
4345617368hypoxanthine+assimilation
4345627226uric acid+assimilation
4345615318xanthine+assimilation

metabolite production

@refChebi-IDmetaboliteproduction
4345617968butyrateno
4345618276dihydrogenno
4345630089acetateyes
4345616134ammoniayes
4345616526carbon dioxideyes
4345615740formateyes

enzymes

@refvalueactivityec
43456catalase-1.11.1.6
43456lecithinase-
43456lipase-
43456urease-3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
316soilCaliforniaUSAUSANorth America
43456Garden soil in CaliforniaCaliforniaUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Garden
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_2331.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16124;96_1257;97_1492;98_1818;99_2331&stattab=map
  • Last taxonomy: Gottschalkia acidurici subclade
  • 16S sequence: HE582772
  • Sequence Identity:
  • Total samples: 6753
  • soil counts: 1881
  • aquatic counts: 996
  • animal counts: 3560
  • plant counts: 316

Safety information

risk assessment

  • @ref: 316
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Clostridium acidiurici 16S ribosomal RNAM590841527ena1556
316Clostridium acidurici partial 16S rRNA gene, type strain DSM 604THE5827721513ena1556

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Gottschalkia acidurici 9aGCA_000299355completencbi1128398
66792Gottschalkia acidurici 9a1128398.8plasmidpatric1128398
66792Gottschalkia acidurici 9a2517487003completeimg1128398

GC content

@refGC-contentmethod
31627.8thermal denaturation, midpoint method (Tm)
4345629.9
31629.9sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes81.595no
flagellatedno57.613no
gram-positiveyes85.476yes
anaerobicyes98.206yes
aerobicno96.48yes
halophileno91.218no
spore-formingyes91.613no
glucose-utilyes53.84yes
thermophileno95.858yes
glucose-fermentyes50.503no

External links

@ref: 316

culture collection no.: DSM 604, ATCC 7906, IMG 1642, KCTC 5404

straininfo link

  • @ref: 72071
  • straininfo: 34890

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
316Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 604)https://www.dsmz.de/collection/catalogue/details/culture/DSM-604
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
43456Anja Poehlein, Natalya Yutin, Rolf Daniel, Michael Y. Galperin10.1099/ijsem.0.002008Proposal for the reclassification of obligately purine-fermenting bacteria Clostridium acidurici (Barker 1938) and Clostridium purinilyticum (Dürre et al. 1981) as Gottschalkia acidurici gen. nov. comb. nov. and Gottschalkia purinilytica comb. nov. and of Eubacterium angustum (Beuscher and Andreesen 1985) as Andreesenia angusta gen. nov. comb. nov. in the family Gottschalkiaceae fam. nov.IJSEM 67: 2711-2719 201728853681
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)
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
72071Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID34890.1StrainInfo: A central database for resolving microbial strain identifiers