Strain identifier

BacDive ID: 782

Type strain: Yes

Species: Hydrogenibacillus schlegelii

Strain Designation: MA-48

Strain history: CIP <- 2002, CCUG, Bacillus schlegelii <- 1990, LMG <- DSMZ <- M. Aragno: strain MA-48

NCBI tax ID(s): 1484 (species)

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General

@ref: 948

BacDive-ID: 782

DSM-Number: 2000

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, thermophilic, Gram-variable, rod-shaped

description: Hydrogenibacillus schlegelii MA-48 is a facultative anaerobe, spore-forming, thermophilic bacterium that was isolated from mud surface, eutrophic, holomictic lake.

NCBI tax id

  • NCBI tax id: 1484
  • Matching level: species

strain history

@refhistory
948<- M. Aragno; MA-48
122507CIP <- 2002, CCUG, Bacillus schlegelii <- 1990, LMG <- DSMZ <- M. Aragno: strain MA-48

doi: 10.13145/bacdive782.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Hydrogenibacillus
  • species: Hydrogenibacillus schlegelii
  • full scientific name: Hydrogenibacillus schlegelii (Schenk and Aragno 1981) Kämpfer et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Bacillus schlegelii

@ref: 948

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Hydrogenibacillus

species: Hydrogenibacillus schlegelii

full scientific name: Hydrogenibacillus schlegelii (Schenk and Aragno 1981) Kämpfer et al. 2013

strain designation: MA-48

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapeconfidencemotility
30816variable3.75 µm0.6 µmrod-shaped
69480positive97.768
122507negativerod-shapedno

pigmentation

  • @ref: 30816
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
948MEDIUM FOR CHEMOLITHOTROPHIC GROWTH OF BACILLUS SCHLEGELII (DSMZ Medium 261)yeshttps://mediadive.dsmz.de/medium/261Name: MEDIUM FOR CHEMOLITHOTROPHIC GROWTH OF BACILLUS SCHLEGELII (DSMZ Medium 261) Composition: Agar 15.0 g/l Na2HPO4 x 2 H2O 4.5 g/l KH2PO4 1.5 g/l NH4Cl 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.01 g/l CaCl2 x 2 H2O 0.01 g/l Ferric ammonium citrate 0.005 g/l H3BO3 0.0009 g/l CoCl2 x 6 H2O 0.0006 g/l ZnSO4 x 7 H2O 0.0003 g/l MnCl2 x 4 H2O 9e-05 g/l Na2MoO4 x 2 H2O 9e-05 g/l NiCl2 x 6 H2O 6e-05 g/l CuCl2 x 2 H2O 3e-05 g/l Distilled water
948BACILLUS SCHLEGELII HETEROTROPHIC MEDIUM (DSMZ Medium 260)yeshttps://mediadive.dsmz.de/medium/260Name: BACILLUS SCHLEGELII HETEROTROPHIC MEDIUM (DSMZ Medium 260) Composition: Agar 15.0 g/l Na2HPO4 x 2 H2O 4.5 g/l KH2PO4 1.5 g/l Na-pyruvate 1.5 g/l NH4Cl 1.0 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.01 g/l MnSO4 x H2O 0.01 g/l Ferric ammonium citrate 0.005 g/l H3BO3 0.0009 g/l CoCl2 x 6 H2O 0.0006 g/l ZnSO4 x 7 H2O 0.0003 g/l MnCl2 x 4 H2O 9e-05 g/l Na2MoO4 x 2 H2O 9e-05 g/l NiCl2 x 6 H2O 6e-05 g/l CuCl2 x 2 H2O 3e-05 g/l Distilled water
37319MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122507CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerangeconfidence
948positivegrowth65thermophilic
30816positivegrowth38-79
30816positiveoptimum72.5thermophilic
37319positivegrowth65thermophilic
48341positivegrowththermophilic
48341positivegrowth65thermophilic
69480thermophilic99.999
122507nogrowth10psychrophilic
122507nogrowth22psychrophilic
122507nogrowth30mesophilic
122507nogrowth37mesophilic
122507nogrowth45thermophilic
122507nogrowth55thermophilic

culture pH

@refabilitytypepH
30816positivegrowth4.2-7.5
30816positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30816
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
30816yes
69481yes100

compound production

  • @ref: 948
  • compound: hydrogenase

halophily

@refsaltgrowthtested relationconcentration
30816NaClpositiveoptimum3 %
122507NaClnogrowth0 %
122507NaClnogrowth2 %
122507NaClnogrowth4 %
122507NaClnogrowth6 %
122507NaClnogrowth8 %
122507NaClnogrowth10 %

observation

  • @ref: 30816
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3081617632nitrate+reduction
1225074853esculin+hydrolysis
122507606565hippurate+hydrolysis
12250717632nitrate+reduction
12250716301nitrite-reduction

metabolite production

  • @ref: 122507
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12250715688acetoin-
12250717234glucose-

enzymes

@refvalueactivityec
30816catalase+1.11.1.6
30816cytochrome oxidase+1.9.3.1
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
122507beta-galactosidase+3.2.1.23
122507alcohol dehydrogenase-1.1.1.1
122507gelatinase-
122507gamma-glutamyltransferase+2.3.2.2
122507lysine decarboxylase-4.1.1.18
122507ornithine decarboxylase-4.1.1.17
122507tryptophan deaminase-
122507urease-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
122507--+--------+----+---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
948mud surface, eutrophic, holomictic lakeSwitzerlandCHEEurope
48341Eutrophic, holomictic lake, mud surfaceSwitzerlandCHEEurope
122507Environment, Mud surfaceSwitzerlandCHEEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Terrestrial#Mud (Sludge)

taxonmaps

  • @ref: 69479
  • File name: preview.99_8101.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16958;96_3738;97_4596;98_5898;99_8101&stattab=map
  • Last taxonomy: Hydrogenibacillus schlegelii subclade
  • 16S sequence: AB042060
  • Sequence Identity:
  • Total samples: 1023
  • soil counts: 213
  • aquatic counts: 235
  • animal counts: 556
  • plant counts: 19

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
9481Risk group (German classification)
1225071Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218B.schlegelii gene for 16S ribosomal RNAZ269341432ena1484
948Bacillus schlegelii gene for 16S ribosomal RNA, partial sequenceAB0420601515ena1484

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hydrogenibacillus schlegelii DSM 2000GCA_001543875scaffoldncbi1484
66792Hydrogenibacillus schlegelii strain DSM 20001484.13wgspatric1484
66792Hydrogenibacillus schlegelii strain MA 481484.14wgspatric1484
66792Hydrogenibacillus schlegelii DSM 20002675903597draftimg1484

GC content

@refGC-contentmethod
94866.3Buoyant density centrifugation (BD)
94864.6thermal denaturation, midpoint method (Tm)
3081667.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno73.047no
gram-positiveyes67.605no
anaerobicno80.916no
halophileno91.572no
spore-formingyes78.108no
thermophileyes100yes
glucose-utilyes78.48no
motileyes85.227no
aerobicno66.601yes
glucose-fermentno90.736no

External links

@ref: 948

culture collection no.: DSM 2000, ATCC 43741, CCUG 26017, CIP 106933, LMG 7133

straininfo link

  • @ref: 70456
  • straininfo: 1177

literature

  • topic: Phylogeny
  • Pubmed-ID: 22922537
  • title: Transfer of Bacillus schlegelii to a novel genus and proposal of Hydrogenibacillus schlegelii gen. nov., comb. nov.
  • authors: Kampfer P, Glaeser SP, Busse HJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.045146-0
  • year: 2012
  • mesh: Bacillaceae/*classification/genetics, Bacillus/classification/genetics, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
948Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2000)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2000
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
30816Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604127147
37319Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19118
48341Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 26017)https://www.ccug.se/strain?id=26017
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)
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)
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
70456Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1177.1StrainInfo: A central database for resolving microbial strain identifiers
122507Curators of the CIPCollection of Institut Pasteur (CIP 106933)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106933