Strain identifier

BacDive ID: 1153

Type strain: No

Species: Bacillus mycoides

Strain history: CIP <- 1998, R. Mayr, FML Techn. Munich Univ., Freising, Germany, Bacillus weihenstephanensis

NCBI tax ID(s): 1405 (species)

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General

@ref: 4502

BacDive-ID: 1153

DSM-Number: 11821

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

description: Bacillus mycoides DSM 11821 is a facultative anaerobe, spore-forming, psychrophilic bacterium that was isolated from pasteurized milk.

NCBI tax id

  • NCBI tax id: 1405
  • Matching level: species

strain history

@refhistory
385801998, R. Mayr, FML, Univ. München, Germany
4502<- R. Mayr
121209CIP <- 1998, R. Mayr, FML Techn. Munich Univ., Freising, Germany, Bacillus weihenstephanensis

doi: 10.13145/bacdive1153.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Bacillus
  • species: Bacillus mycoides
  • full scientific name: Bacillus mycoides Flügge 1886 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus weihenstephanensis

@ref: 4502

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Bacillus

species: Bacillus mycoides

full scientific name: Bacillus mycoides Flügge 1886 emend. Liu et al. 2018

type strain: no

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
23304positiverod-shaped
69480yes93.312
69480positive100
121209positiverod-shapedyes

colony morphology

@refincubation period
617461 day
121209

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
38580MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
4502COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693
4502TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yesName: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/92
121209CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
23304nogrowth7psychrophilic
23304nogrowth43thermophilic
23304positivegrowth4psychrophilic
23304positivegrowth10psychrophilic
23304nogrowth40thermophilic
4502positivegrowth30mesophilic
38580positivegrowth30mesophilic
61746positivegrowth30-37mesophilic
121209positivegrowth10-37
121209nogrowth45thermophilic
121209nogrowth55thermophilic

culture pH

  • @ref: 121209
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23304facultative anaerobe
23304aerobe
61746aerobe
121209facultative anaerobe

spore formation

@refspore formationconfidence
23304yes
69481yes100
69480yes100
121209yes

halophily

@refsaltgrowthtested relationconcentration
121209NaClpositivegrowth0-4 %
121209NaClnogrowth6 %
121209NaClnogrowth8 %
121209NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68368L-arabinose-fermentation30849
68368amygdalin-fermentation27613
68368melibiose-fermentation28053
68368sucrose-fermentation17992
68368L-rhamnose-fermentation62345
68368sorbitol-fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol-fermentation16899
68368D-glucose-fermentation17634
68368gelatin+hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate-assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine+hydrolysis29016
121209citrate-carbon source16947
121209esculin+hydrolysis4853
121209hippurate-hydrolysis606565
121209nitrate+reduction17632
121209nitrite+reduction16301
121209nitrate+respiration17632

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12120935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
12120915688acetoin+
12120917234glucose+

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
68368cytochrome oxidase-1.9.3.1
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase-3.2.1.23
121209oxidase-
121209beta-galactosidase-3.2.1.23
121209alcohol dehydrogenase+1.1.1.1
121209gelatinase+
121209amylase+
121209DNase-
121209caseinase+3.4.21.50
121209catalase+1.11.1.6
121209tween esterase+
121209gamma-glutamyltransferase-2.3.2.2
121209lecithinase+
121209lipase+
121209lysine decarboxylase-4.1.1.18
121209ornithine decarboxylase-4.1.1.17
121209protease+
121209tryptophan deaminase-
121209urease-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
121209-+++-++--+++---++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
61746-+-------++----------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
61746-----+-----++---------+++++++---+----+------------
121209+---+-----++---------++/-++++/-+---+---++------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121209++-+---+-++----+-+++--+--------++--+-------------+---------++-----------+--+--+-++----+-++++-++-+-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
4502pasteurized milkBawariaGermanyDEUEurope
61746Pasteurized milkGermanyDEUEurope1992
121209Food, Pasteurized milkGermanyDEUEurope1992

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Dairy product
#Engineered#Treatment#Preserved
#Engineered#Treatment#Sterilized (Desinfected)

taxonmaps

  • @ref: 69479
  • File name: preview.99_26.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_21;97_22;98_25;99_26&stattab=map
  • Last taxonomy: Bacillus
  • 16S sequence: AM747230
  • Sequence Identity:
  • Total samples: 4969
  • soil counts: 1920
  • aquatic counts: 446
  • animal counts: 1524
  • plant counts: 1079

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
45022Risk group (German classification)
1212091Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus weihenstephanensis partial 16S rRNA gene and ITS1, strain DSM 11821AJ841876543ena86662
20218Bacillus weihenstephanensis clone DSMZ1182R 16S ribosomal RNA gene, partial sequenceDQ2900041418ena86662
20218Bacillus weihenstephanensis gene for 16S rRNA, partial sequence, strain: NBRC 101238AB6814191477ena86662
20218Bacillus weihenstephanensis partial 16S rRNA gene and ITS1, strain WSBC 10204AM7472301663ena86662
4502Bacillus weihenstephanensis gene for 16S ribosomal RNAAB0211991531ena1405

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus mycoides NBRC 101238 = DSM 11821GCA_000513155contigncbi1220585
66792Bacillus weihenstephanensis NBRC 101238 = DSM 118211220585.4wgspatric1220585
66792Bacillus weihenstephanensis strain WSBC 1020486662.17completepatric1405

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes61.833no
flagellatedyes77.345no
gram-positiveyes89.371yes
anaerobicno98.592yes
halophileno94.183no
spore-formingyes93.43yes
glucose-utilyes90.209no
aerobicyes76.164no
thermophileno99.328no
glucose-fermentno90.917yes

External links

@ref: 4502

culture collection no.: DSM 11821, CCM 4872, CCUG 58725, LMG 18989, CIP 105772, KCTC 3975, WSBC 10204, WDCM 00222, WS 2480

straininfo link

  • @ref: 70824
  • straininfo: 14497

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9828439Bacillus weihenstephanensis sp. nov. is a new psychrotolerant species of the Bacillus cereus group.Lechner S, Mayr R, Francis KP, Pruss BM, Kaplan T, Wiessner-Gunkel E, Stewart GS, Scherer SInt J Syst Bacteriol10.1099/00207713-48-4-13731998Animals, Bacillus/*classification/isolation & purification/physiology, Bacterial Proteins/genetics, Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Milk/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Random Amplified Polymorphic DNA Technique, Sequence Analysis, DNA, Species Specificity, Terminology as TopicGenetics
Metabolism25853650Temperature Dependence of the Proteome Profile of the Psychrotolerant Pathogenic Food Spoiler Bacillus weihenstephanensis Type Strain WSBC 10204.Stelder SK, Mahmud SA, Dekker HL, de Koning LJ, Brul S, de Koster CGJ Proteome Res10.1021/pr501307t2015Acetylation, Bacillus cereus/*genetics/metabolism, Bacterial Proteins/*genetics/metabolism, Carbon Cycle/physiology, DNA, Bacterial/genetics/metabolism, Enterotoxins, Food Microbiology, *Genome, Bacterial, Protein Isoforms, *Protein Processing, Post-Translational, Proteome/*genetics/metabolism, Sequence Analysis, DNA, Temperature, Urea/metabolismProteome
Stress33524880Bacillus weihenstephanensis can readily evolve for increased endospore heat resistance without compromising its thermotype.Kim TD, Begyn K, Khanal S, Taghlaoui F, Heyndrickx M, Rajkovic A, Devlieghere F, Michiels C, Aertsen AInt J Food Microbiol10.1016/j.ijfoodmicro.2021.1090722021Bacillus/*growth & development/*metabolism, Biological Evolution, Depsipeptides/biosynthesis, Food Handling, Hot Temperature, Spores, Bacterial/*growth & developmentMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4502Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11821)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11821
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
23304SABINE LECHNER, RALF MAYR, KEVIN P. FRANCIS, BIRGIT M. PRüß, THOMAS KAPLAN, ELKE WIEßNER-GUNKEL, GORDON S. A. B. STEWART, SIEGFRIED SCHERER10.1099/00207713-48-4-1373Bacillus weihenstephanensis sp. nov. is a new psychrotolerant species of the Bacillus cereus groupIJSEM 48: 1373-1382 19989828439
38580Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17828
61746Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58725)https://www.ccug.se/strain?id=58725
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)
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
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
70824Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID14497.1StrainInfo: A central database for resolving microbial strain identifiers
121209Curators of the CIPCollection of Institut Pasteur (CIP 105772)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105772