Strain identifier

BacDive ID: 1075

Type strain: No

Species: Bacillus atrophaeus

Strain history: CIP <- 1990, DSM <- NCTC <- J.C. Kelsey <- C.R. Phillips, Bacillus globigii

NCBI tax ID(s): 1452 (species)

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General

@ref: 730

BacDive-ID: 1075

DSM-Number: 2277

keywords: 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped, human pathogen

description: Bacillus atrophaeus DSM 2277 is an obligate aerobe, spore-forming, mesophilic human pathogen of the family Bacillaceae.

NCBI tax id

  • NCBI tax id: 1452
  • Matching level: species

strain history

@refhistory
730<- NCTC <- J.C. Kelsey <- C.R. Phillips (Bacillus globigii, Bacillus subtilis var. niger)
67770IAM 1633 <-- NCIB 8649 ("Bacillus subtilis var. niger") <-- NRC B467 ("Bacillus globigii").
67772NCTC <- J.C. Kelsey <- C.R. Phillips (Bacillus globigii, Bacillus subtilis var. niger)
123357CIP <- 1990, DSM <- NCTC <- J.C. Kelsey <- C.R. Phillips, Bacillus globigii

doi: 10.13145/bacdive1075.20230509.8.1

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 atrophaeus
  • full scientific name: Bacillus atrophaeus Nakamura 1989

@ref: 730

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Bacillus

species: Bacillus atrophaeus

full scientific name: Bacillus atrophaeus Nakamura 1989

type strain: no

Morphology

cell morphology

  • @ref: 123357
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
730NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
37027MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
123357CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
123357CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
730positivegrowth30mesophilic
37027positivegrowth30mesophilic
67770positivegrowth30mesophilic
67772positiveminimum5-10psychrophilic
67772positiveoptimum28-30mesophilic
67772positivemaximum50-55thermophilic
123357positivegrowth30-45
123357nogrowth10psychrophilic
123357nogrowth55thermophilic

culture pH

@refabilitytypepH
67772positivemaximum5.7
67772positiveminimum5.6
123357positivegrowth6

Physiology and metabolism

oxygen tolerance

  • @ref: 123357
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 123357
  • spore formation: yes

halophily

  • @ref: 123357
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

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
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
68371cellobiose-builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
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
123357citrate-carbon source16947
123357nitrate+reduction17632
123357nitrite-reduction16301
123357nitrate-respiration17632

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12335735581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-
12335715688acetoin+

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
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
123357oxidase-
123357beta-galactosidase-3.2.1.23
123357alcohol dehydrogenase-1.1.1.1
123357gelatinase+
123357amylase+
123357DNase+
123357caseinase+3.4.21.50
123357catalase+1.11.1.6
123357tween esterase-
123357gamma-glutamyltransferase+2.3.2.2
123357lecithinase+
123357lysine decarboxylase-4.1.1.18
123357ornithine decarboxylase-4.1.1.17
123357urease-3.5.1.5

fatty acid profile

  • @reffatty acidpercentageECL
    45604C15:01.215
    45604C16:03.616
    45604C14:0 ISO1.413.618
    45604C15:0 ANTEISO50.414.711
    45604C15:0 ISO20.114.621
    45604C15:0 ISO 3OH0.716.135
    45604C16:0 iso2.615.626
    45604C17:0 anteiso9.816.722
    45604C17:0 iso5.416.629
    45604C17:1 ω5c ISO0.616.461
    45604Unidentified0.414.918
    45604Unidentified0.515.739
    45604Unidentified1.716.287
    45604Unidentified0.716.367
    45604Unidentified1.117.701
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG
  • @reffatty acidpercentageECL
    45604C15:01.615
    45604C16:02.116
    45604C14:0 ISO1.313.618
    45604C15:0 ANTEISO42.214.711
    45604C15:0 ISO35.214.621
    45604C16:0 iso1.715.626
    45604C16:1 ω11c1.115.757
    45604C17:0 anteiso5.116.722
    45604C17:0 iso5.616.629
    45604C17:1 ISO I/C16:0 DMA116.481
    45604C17:1 ω10c ISO1.916.387
    45604C18:2 ω6,9c/C18:0 ANTE1.417.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123357--------------------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARA
45604----------+---------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
45604-----------+++----+---+-+++----++-----------------
123357+---------+++----+/----+/--+++-+/---++---++------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123357---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

  • @ref: 67772
  • sampling date: 1982

taxonmaps

  • @ref: 69479
  • File name: preview.99_454.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_17;97_17;98_20;99_454&stattab=map
  • Last taxonomy: Bacillus
  • 16S sequence: EF188847
  • Sequence Identity:
  • Total samples: 133
  • soil counts: 16
  • aquatic counts: 40
  • animal counts: 61
  • plant counts: 16

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
730yes, in single cases1Risk group (German classification)
677721
1233571Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus atrophaeus ATCC 51189 16S ribosomal RNA gene, partial sequenceAY379772495ena1529886
20218Bacillus atrophaeus strain ATCC 51189 16S ribosomal RNA gene, partial sequenceEF1888471481ena1529886

External links

@ref: 730

culture collection no.: DSM 2277, ATCC 51189, CIP 103406, IAM 1633, NCIB 8649, NCTC 10073, CCUG 11738, JCM 20230, NBRC 14117, NCIMB 8649, NRC B467, UCCCB119

straininfo link

  • @ref: 70747
  • straininfo: 64068

literature

  • topic: Phylogeny
  • Pubmed-ID: 11211269
  • title: Reclassification of bioindicator strains Bacillus subtilis DSM 675 and Bacillus subtilis DSM 2277 as Bacillus atrophaeus.
  • authors: Fritze D, Pukall R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-1-35
  • year: 2001
  • mesh: Bacillus/*classification/genetics/physiology, Bacillus subtilis/*classification/genetics/physiology, Ethylene Oxide, Nucleic Acid Hybridization, Pigmentation, Reference Standards, Spores, Bacterial/physiology, Sterilization/methods

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
730Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2277)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2277
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
37027Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15199
45604Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 11738)https://www.ccug.se/strain?id=11738
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67772Curators of the UCCCBhttps://ucccb.uc.pt/
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
70747Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID64068.1StrainInfo: A central database for resolving microbial strain identifiers
123357Curators of the CIPCollection of Institut Pasteur (CIP 103406)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103406