Strain identifier

BacDive ID: 751

Type strain: No

Species: Bacillus pumilus

Strain Designation: CIP3.83, Mill Hill

Strain history: CIP <- 1976, NCTC <- J.H. Humphrey: strain Mill Hill

NCBI tax ID(s): 1408 (species)

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General

@ref: 151

BacDive-ID: 751

DSM-Number: 361

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

description: Bacillus pumilus CIP3.83 is an aerobe, spore-forming, mesophilic human pathogen of the family Bacillaceae.

NCBI tax id

  • NCBI tax id: 1408
  • Matching level: species

strain history

@refhistory
151<- NCTC <- J.H. Humphrey
122059CIP <- 1976, NCTC <- J.H. Humphrey: strain Mill Hill

doi: 10.13145/bacdive751.20230509.8.1

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 pumilus
  • full scientific name: Bacillus pumilus Meyer and Gottheil 1901 (Approved Lists 1980)

@ref: 151

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Bacillus

species: Bacillus pumilus

full scientific name: Bacillus pumilus Meyer and Gottheil 1901

strain designation: CIP3.83, Mill Hill

type strain: no

Morphology

cell morphology

  • @ref: 122059
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
151NUTRIENT 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
36568MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122059CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
151positivegrowth30mesophilic
36568positivegrowth30mesophilic
44628positivegrowth25-42
122059positivegrowth30-45
122059nogrowth10psychrophilic
122059nogrowth55thermophilic

culture pH

  • @ref: 122059
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44628aerobe
122059obligate aerobe

antibiogram

@refmediumincubation temperatureincubation timeoxygen conditionPenicillin Goxacillinampicillinticarcillinmezlocillincefalotincefazolincefotaximeaztreonamimipenemtetracyclinechloramphenicolgentamycinamikacinvancomycinerythromycinlincomycinofloxacinnorfloxacincolistinpipemidic acidnitrofurantoinbacitracinpolymyxin bkanamycinneomycindoxycyclineceftriaxoneclindamycinfosfomycinmoxifloxacinlinezolidnystatinquinupristin/dalfopristinteicoplaninpiperacillin/tazobactam
151Mueller-Hinton Agar301aerob4030384436464018-2004636262828-3026320342810162661430264028-3024-2618-2040400262234
151Mueller-Hinton Agar374028-30384432-3440-4238148-10443224283022-2430103228-301018246143024-2634-36n.d.n.d.n.d.n.d.n.d.n.d.n.d.n.d.n.d.

spore formation

  • @ref: 122059
  • spore formation: yes

halophily

  • @ref: 122059
  • 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
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
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
122059citrate-carbon source16947
122059esculin+hydrolysis4853
122059hippurate-hydrolysis606565
122059nitrate-reduction17632
122059nitrite-reduction16301
122059nitrate-respiration17632
68379nitrate-reduction17632
68379esculin+hydrolysis4853
68379urea-hydrolysis16199
68379gelatin+hydrolysis5291
68379D-ribose+fermentation16988
68379D-xylose-fermentation65327
68379D-mannitol+fermentation16899
68379maltose-fermentation17306
68379lactose-fermentation17716
68379sucrose+fermentation17992
68379glycogen-fermentation28087

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12205935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
12205915688acetoin+
12205917234glucose+

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
68379catalase+1.11.1.6
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase+3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15
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
122059oxidase+
122059beta-galactosidase+3.2.1.23
122059alcohol dehydrogenase+1.1.1.1
122059gelatinase+
122059amylase-
122059DNase-
122059caseinase-3.4.21.50
122059catalase+1.11.1.6
122059tween esterase-
122059gamma-glutamyltransferase+2.3.2.2
122059lecithinase-
122059lipase-
122059lysine decarboxylase-4.1.1.18
122059ornithine decarboxylase-4.1.1.17
122059protease+
122059urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44628C14:00.614
    44628C16:01.516
    44628C11:0 3OH2.512.441
    44628C13:0 iso0.712.612
    44628C14:0 ISO1.213.618
    44628C15:0 ANTEISO26.814.711
    44628C15:0 ISO47.914.621
    44628C16:0 iso1.315.626
    44628C16:1 ω11c2.915.757
    44628C16:1 ω7c alcohol1.615.386
    44628C17:0 anteiso3.116.722
    44628C17:0 iso3.316.629
    44628C17:1 ISO I/C16:0 DMA1.516.481
    44628C17:1 ω10c ISO4.116.387
    44628C18:1 ω9c0.817.769
    44628C18:2 ω6,9c/C18:0 ANTE0.417.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlRIBXYLMANMALLACSACGLYGCAT
44628-+-+-++-+-+-+-+--+-+

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122059-+++-+---++--+-++-+-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARA
44628+---+----++---------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
44628----++-----+++----+---+-++++---++------+--+-------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122059++++---+--+----++-+++++--------+---------+-------+++-+-----++------------+-----++-----+--++--------

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
151yes, in single cases1Risk group (German classification)
1220591Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Bacillus pumilus strain ATCC 14884 16S ribosomal RNA gene, partial sequence
  • accession: JF749284
  • length: 803
  • database: ena
  • NCBI tax ID: 1408

GC content

  • @ref: 151
  • GC-content: 42.9-43.9

External links

@ref: 151

culture collection no.: DSM 361, ATCC 14884, CCM 2218, CIP 3.83, IFO 12102, LMG 18517, NBRC 12102, NCIB 8982, NCTC 8241, CCUG 3273, CIP 76.18, IFO 3813, NCIMB 8982

straininfo link

  • @ref: 70425
  • straininfo: 12135

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity2490094Flow microcalorimetric assay of antibiotics--II. Neomycin sulphate and its combinations with polymyxin B sulphate and zinc bacitracin on interaction with Bacillus pumilus (NCTC 8241).Joslin Kjeldsen N, Beezer AE, Miles RJJ Pharm Biomed Anal10.1016/0731-7085(89)80006-81989Bacillus/*drug effects, Bacitracin/*analysis/pharmacology, Biological Assay, Calorimetry/methods, Drug Synergism, Drug Therapy, Combination/analysis/pharmacology, Microbial Sensitivity Tests, Neomycin/*analysis/pharmacology, Polymyxin B/*analysis/pharmacology
Pathogenicity6524895[Comparative study of the quantitative determination of kanamycin sulfate in ophthalmic films with a collagen base by microbiological and chemical methods].Ivanova LA, Abramova TA, Levkovich NM, Okhotnikova VF, Kartashov VSAntibiotiki1984Agar, Bacillus/drug effects, Biological Assay, Collagen, Delayed-Action Preparations, Diffusion, Kanamycin/*analysis/pharmacology, Ophthalmic Solutions, Pharmaceutic Aids, Spectrophotometry
Metabolism19461961Acetoin catabolism and acetylbutanediol formation by Bacillus pumilus in a chemically defined medium.Xiao Z, Ma C, Xu P, Lu JRPLoS One10.1371/journal.pone.00056272009Acetoin/chemistry/*metabolism, Bacillus/*metabolism, Butylene Glycols/chemistry/*metabolism, Carbon/metabolism, Culture Media/*metabolism, Fermentation, Gas Chromatography-Mass Spectrometry, Magnetic Resonance SpectroscopyCultivation
Metabolism20717525Antibiotic producing potentials of three freshwater actinomycetes isolated from the Eastern Cape Province of South Africa.Sibanda T, Mabinya LV, Mazomba N, Akinpelu DA, Bernard K, Olaniran AO, Okoh AIInt J Mol Sci10.3390/ijms110726122010Actinobacteria/*metabolism, Anti-Bacterial Agents/*biosynthesis/*pharmacology, Fresh Water/*microbiology, Microbial Sensitivity Tests, South Africa, Water Microbiology
Phylogeny30141597[Identification and Antagonistic Properties of the Soil Streptomycete Streptomyces sp. 100].Biliavska LA, Efimenko TA, Efremenkova OV, Koziritska VY, Iutynska GAMikrobiol Z2016*Antibiosis, Fusarium, Pseudomonas, RNA, Ribosomal, 16S/genetics, Soil, *Soil Microbiology, Streptomyces/genetics/*physiology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
151Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 361)https://www.dsmz.de/collection/catalogue/details/culture/DSM-361
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
36568Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10787
44628Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 3273)https://www.ccug.se/strain?id=3273
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
70425Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12135.1StrainInfo: A central database for resolving microbial strain identifiers
122059Curators of the CIPCollection of Institut Pasteur (CIP 76.18)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2076.18