Strain identifier

BacDive ID: 1187

Type strain: No

Species: Bacillus spizizenii

Strain Designation: 231, NRS-231

Strain history: CIP <- 1952, R.E. Gordon, New Jersey Agri. Exper. Stat., New Brunswick, USA: strain NRS-231 <- K.F. Kellerman

NCBI tax ID(s): 96241 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 140

BacDive-ID: 1187

DSM-Number: 347

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, motile, antibiotic compound production, human pathogen

description: Bacillus spizizenii 231 is an aerobe, spore-forming, mesophilic human pathogen that produces antibiotic compounds and was isolated from Collected before 1952.

NCBI tax id

  • NCBI tax id: 96241
  • Matching level: species

strain history

@refhistory
140<- ATCC <- N.R. Smith, 231 <- K.F. Kellermann
67770ATCC 6633 <-- N. R. Smith 231 <-- K. F. Kellerman.
67770IAM 1069 <-- K. Sakaguchi <-- NIHJ <-- ATCC 6633 <-- N. R. Smith NRS 231 <-- K. F. Kellerman.
123358CIP <- 1952, R.E. Gordon, New Jersey Agri. Exper. Stat., New Brunswick, USA: strain NRS-231 <- K.F. Kellerman

doi: 10.13145/bacdive1187.20230509.8.1

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 spizizenii
  • full scientific name: Bacillus spizizenii (Nakamura et al. 1999) Dunlap et al. 2020
  • synonyms

    • @ref: 20215
    • synonym: Bacillus subtilis subsp. spizizenii

@ref: 140

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Bacillus

species: Bacillus spizizenii

full scientific name: Bacillus spizizenii (Nakamura et al. 1999) Dunlap et al. 2020

strain designation: 231, NRS-231

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes93.501
69480100positive
123358yespositiverod-shaped

colony morphology

  • @ref: 123358

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
41811MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
140NUTRIENT AGAR (DSMZ Medium 1)yesName: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/1
123358CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
140positivegrowth30mesophilic
41811positivegrowth30mesophilic
45335positivegrowth37mesophilic
67770positivegrowth30mesophilic
123358positivegrowth30-45
123358nogrowth10psychrophilic
123358nogrowth55thermophilic

culture pH

  • @ref: 123358
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
45335aerobe
123358obligate aerobe

antibiogram

@refmediumPenicillin Goxacillinampicillinticarcillinmezlocillincefalotincefazolincefotaximeaztreonamimipenemtetracyclinechloramphenicolgentamycinamikacinvancomycinerythromycinlincomycinofloxacinnorfloxacincolistinpipemidic acidnitrofurantoinbacitracinpolymyxin bkanamycinneomycindoxycyclineceftriaxoneclindamycinfosfomycinmoxifloxacinlinezolidnystatinquinupristin/dalfopristinteicoplaninpiperacillin/tazobactamincubation temperatureoxygen conditionincubation time
140Mueller-Hinton Agar3832364232-34484238-40124836-38342830263420363410242414-161430243634321040360202034
140Mueller-Hinton Agar383236-38423246424014-16503634-3626302632-342034341024228123022-2438-4034-36321438360222234
140Mueller-Hinton Agar4032-34404232-34504238-4010-125038-403628-3030-3226362236361226221016322638-403632-346-84040022223430aerob
140Mueller-Hinton Agar403440443650424012503838303026-2836-38223638102824101432244036-383284040022-24223630aerob1
140Mueller-Hinton Agar38323840324440361246343230302432163434102422812302236n.d.n.d.n.d.n.d.n.d.n.d.n.d.n.d.n.d.37
140Mueller-Hinton Agar36-383236-3840324840-42381650383630302434223634-36102624614322440343404040022223430aerob
140Mueller-Hinton Agar36-383236-3840324840-42381650383630302434223634-36102624614322440343404040022223430aerob
140Mueller Hinton4034384234484240164840342628243216-1836348262861230244036-38308-104040022203430aerob

spore formation

@refspore formationconfidence
69481yes100
69480yes100
123358yes

compound production

@refcompound
140restriction endonuclease Bsu6633
140subtilin
140bacilysin
140fengymycin

halophily

  • @ref: 123358
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

  • @ref: 67770
  • observation: quinones: MK-7

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
68371starch+builds acid from28017
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
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
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
68371glycerol+builds acid from17754
68368nitrate-reduction17632
68368L-arabinose+fermentation30849
68368amygdalin-fermentation27613
68368melibiose-fermentation28053
68368sucrose-fermentation17992
68368L-rhamnose-fermentation62345
68368sorbitol-fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol-fermentation16899
68368D-glucose-fermentation17634
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine-hydrolysis29016
123358nitrate+reduction17632
123358nitrite-reduction16301
123358nitrate-respiration17632

metabolite production

@refChebi-IDmetaboliteproduction
6836817997dinitrogenno
6836816301nitriteno
6836835581indoleno
6836816136hydrogen sulfideno
12335835581indoleno

metabolite tests

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

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
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
123358oxidase+
123358alcohol dehydrogenase-1.1.1.1
123358gelatinase+
123358amylase+
123358caseinase+3.4.21.50
123358catalase+1.11.1.6
123358lecithinase-
123358lysine decarboxylase-4.1.1.18
123358ornithine decarboxylase-4.1.1.17
123358protease+
123358urease-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
123358-+++-+--+-++-+-++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOXNO2N2
45335+---+----++--------+-
123358--------------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
45335-+--+++----+++----++-+--+++++--+++--++-+-------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123358---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

  • @ref: 123358
  • sample type: Collected before 1952

taxonmaps

  • @ref: 69479
  • File name: preview.99_21.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_17;97_17;98_20;99_21&stattab=map
  • Last taxonomy: Bacillus
  • 16S sequence: JX861887
  • Sequence Identity:
  • Total samples: 18201
  • soil counts: 3768
  • aquatic counts: 2854
  • animal counts: 9674
  • plant counts: 1905

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
140yes, in single cases1Risk group (German classification)
1233581Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus subtilis gene for 16S rRNA, partial sequence, strain: ATCC 6633AB0184861507ena703612
20218Bacillus subtilis strain ATCC 6633 16S ribosomal RNA gene, partial sequenceAY616162560ena703612
20218Bacillus subtilis strain CCM 1999 16S ribosomal RNA gene, complete sequenceDQ2077301534ena1423
20218Bacillus subtilis subsp. spizizenii strain ATCC 6633 16S ribosomal RNA gene, partial sequenceGQ911555804ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlA03 16S ribosomal RNA gene, partial sequenceJF508185743ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlA07 16S ribosomal RNA gene, partial sequenceJF508188742ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlA10 16S ribosomal RNA gene, partial sequenceJF508191739ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlA12 16S ribosomal RNA gene, partial sequenceJF508193743ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlB03 16S ribosomal RNA gene, partial sequenceJF508196740ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlB04 16S ribosomal RNA gene, partial sequenceJF508197739ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlB07 16S ribosomal RNA gene, partial sequenceJF508200713ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlC01 16S ribosomal RNA gene, partial sequenceJF508205743ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlC04 16S ribosomal RNA gene, partial sequenceJF508208739ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlC09 16S ribosomal RNA gene, partial sequenceJF508213726ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlC10 16S ribosomal RNA gene, partial sequenceJF508214727ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlC11 16S ribosomal RNA gene, partial sequenceJF508215728ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlC12 16S ribosomal RNA gene, partial sequenceJF508216719ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlD02 16S ribosomal RNA gene, partial sequenceJF508218738ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlD03 16S ribosomal RNA gene, partial sequenceJF508219744ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlD04 16S ribosomal RNA gene, partial sequenceJF508220739ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlD09 16S ribosomal RNA gene, partial sequenceJF508225726ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlE08 16S ribosomal RNA gene, partial sequenceJF508236744ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlE10 16S ribosomal RNA gene, partial sequenceJF508238744ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlF03 16S ribosomal RNA gene, partial sequenceJF508242744ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlF04 16S ribosomal RNA gene, partial sequenceJF508243744ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlF06 16S ribosomal RNA gene, partial sequenceJF508245742ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlF10 16S ribosomal RNA gene, partial sequenceJF508248745ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlF11 16S ribosomal RNA gene, partial sequenceJF508249727ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlG05 16S ribosomal RNA gene, partial sequenceJF508254797ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlG08 16S ribosomal RNA gene, partial sequenceJF508257726ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlG11 16S ribosomal RNA gene, partial sequenceJF508260738ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlH03 16S ribosomal RNA gene, partial sequenceJF508264739ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlH05 16S ribosomal RNA gene, partial sequenceJF508265727ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlH09 16S ribosomal RNA gene, partial sequenceJF508269739ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 clone ControlH12 16S ribosomal RNA gene, partial sequenceJF508272725ena703612
20218Bacillus subtilis subsp. spizizenii ATCC 6633 16S ribosomal RNA gene, partial sequenceJX8618871424ena703612

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus spizizenii ATCC 6633 = JCM 2499GCA_006094475completencbi703612
66792Bacillus spizizenii NCTC10400GCA_900445425contigncbi96241
66792Bacillus spizizenii ATCC 6633 = JCM 2499GCA_000177595contigncbi703612
66792Bacillus spizizenii ATCC 6633 = JCM 2499GCA_001312785contigncbi703612
66792Bacillus subtilis strain NRS 2311423.767completepatric1423
66792Bacillus subtilis subsp. spizizenii ATCC 6633703612.3wgspatric703612
66792Bacillus subtilis subsp. spizizenii ATCC 6633703612.22completepatric703612
66792Bacillus subtilis subsp. spizizenii JCM 24991300158.3wgspatric703612
66792Bacillus subtilis subsp. spizizenii strain NCTC1040096241.10wgspatric96241
66792Bacillus subtilis spizizenii ATCC 6633647000211draftimg703612
66792Bacillus subtilis spizizenii JCM 24992734481915draftimg1300158

GC content

  • @ref: 140
  • GC-content: 42.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes89.514no
flagellatedyes89.951no
gram-positiveyes92.854no
anaerobicno99.246yes
aerobicyes95.048yes
halophileyes86.937no
spore-formingyes97.133no
glucose-utilyes89.811no
thermophileno96.999yes
glucose-fermentno91.279yes

External links

@ref: 140

culture collection no.: DSM 347, ATCC 6633, CCM 1999, IAM 1069, NCIB 8054, NCTC 10400, WDCM 00003, CCUG 10779, JCM 20035, AHU 1038, BCRC 10447, BUCSAV 425, CECT 356, CIP 52.62, IFO 3134, IID 506, IMET 10880, JCM 2499, KCTC 2189, LMG 8197, NBRC 3134, NCIMB 8054, NRIC 1022, NRIC 1521, NRRL B-209, NRRL B-354, OUT 8351, PCI 219, RIMD 0225013, VTT E-85231, NCDO 1733, CMCC (B) 63501

straininfo link

  • @ref: 70844
  • straininfo: 71774

literature

  • topic: Enzymology
  • Pubmed-ID: 29897252
  • title: Chemical composition and antibacterial activity of essential oil from fruit of Micromelum integerrimum (Buch.-Ham. ex DC.) Wight & Arn. ex M. Roem.
  • authors: Kotoky R, Bordoloi M, Yadav A, Tamuli KJ, Saikia S, Dutta PP, Khound PP, Saikia SP
  • journal: Nat Prod Res
  • DOI: 10.1080/14786419.2018.1483923
  • year: 2018
  • mesh: Anti-Bacterial Agents/*isolation & purification/pharmacology, Bacteria/drug effects, Fruit/*chemistry, Gas Chromatography-Mass Spectrometry, Microbial Sensitivity Tests, Monoterpenes/analysis/isolation & purification/pharmacology, Oils, Volatile/*chemistry/pharmacology, Rutaceae/*chemistry, Sesquiterpenes/analysis/isolation & purification/pharmacology
  • topic2: Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
140Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 347)https://www.dsmz.de/collection/catalogue/details/culture/DSM-347
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
41811Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/13234
45335Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 10779)https://www.ccug.se/strain?id=10779
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
70844Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID71774.1StrainInfo: A central database for resolving microbial strain identifiers
123358Curators of the CIPCollection of Institut Pasteur (CIP 52.62)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2052.62