Strain identifier

BacDive ID: 1297

Type strain: Yes

Species: Cytobacillus horneckiae

Strain Designation: 1P01SC

Strain history: CIP <- 2009, K. Venkateswaran, Californian Inst. Technol., Pasadena, California, USA: strain 1P01SC

NCBI tax ID(s): 549687 (species)

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

@ref: 17238

BacDive-ID: 1297

DSM-Number: 23495

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

description: Cytobacillus horneckiae 1P01SC is an aerobe, spore-forming, Gram-positive bacterium that was isolated from spacecraft-assembly clean room.

NCBI tax id

  • NCBI tax id: 549687
  • Matching level: species

strain history

@refhistory
379092009, K. Venkateswaran, Californian Inst. Technol., Pasadena, California, USA: strain 1P01SC
17238<- C. M. Manaia, Escola Superior Biotecnol. (UCP), Porto, Portugal; 1P01SC <- ARS Culture Collection (NRRL) <- P. A. Vaishampayan, California Inst. Technology (Caltech), Pasadena, USA
119972CIP <- 2009, K. Venkateswaran, Californian Inst. Technol., Pasadena, California, USA: strain 1P01SC

doi: 10.13145/bacdive1297.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Cytobacillus
  • species: Cytobacillus horneckiae
  • full scientific name: Cytobacillus horneckiae (Vaishampayan et al. 2010) Patel and Gupta 2020
  • synonyms

    • @ref: 20215
    • synonym: Bacillus horneckiae

@ref: 17238

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Cytobacillus

species: Cytobacillus horneckiae

full scientific name: Cytobacillus horneckiae (Vaishampayan et al. 2010) Patel and Gupta 2020

strain designation: 1P01SC

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29227positive5 µm1.25 µmrod-shapedyes
119972positiverod-shapedyes

pigmentation

  • @ref: 29227
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17238CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220; with strain-specific modifications) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l MnSO4 0.01 g/l Distilled water
37909MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119972CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
29227positivegrowth04-49
29227positiveoptimum30mesophilic
37909positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29227positivegrowth7-10.8alkaliphile
29227positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29227aerobe
119972obligate aerobe

spore formation

  • @ref: 29227
  • spore formation: yes

halophily

  • @ref: 29227
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2922717128adipate+carbon source
2922725115malate+carbon source
2922717306maltose+carbon source
2922753258sodium citrate+carbon source
2922717632nitrate+reduction
11997217632nitrate+reduction
11997216301nitrite-reduction

metabolite production

  • @ref: 119972
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29227alkaline phosphatase+3.1.3.1
29227catalase+1.11.1.6
29227gelatinase+
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
119972oxidase+
119972catalase+1.11.1.6
119972urease+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
119972-+++-+---+++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
17238spacecraft-assembly clean roomKennedy Space CenterUSAUSANorth America
119972Kennedy Space Center, clear roomFloridaUnited States of AmericaUSANorth America2007

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Built environment
  • Cat3: #Clean room

taxonmaps

  • @ref: 69479
  • File name: preview.99_542.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_264;97_383;98_440;99_542&stattab=map
  • Last taxonomy: Cytobacillus horneckiae subclade
  • 16S sequence: EU861362
  • Sequence Identity:
  • Total samples: 503
  • soil counts: 279
  • aquatic counts: 50
  • animal counts: 140
  • plant counts: 34

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
172381Risk group (German classification)
1199721Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17238
  • description: Bacillus horneckiae strain 1P01SC 16S ribosomal RNA gene, partial sequence
  • accession: EU861362
  • length: 1354
  • database: ena
  • NCBI tax ID: 549687

Genome sequences

  • @ref: 66792
  • description: Cytobacillus horneckiae 1P01SC
  • accession: GCA_002835735
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 549687

GC content

@refGC-contentmethod
1723835.6thermal denaturation, midpoint method (Tm)
2922735.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes78.292no
gram-positiveyes84.259no
anaerobicno97.7yes
halophileno76.417no
spore-formingyes97.328no
glucose-utilyes85.242no
aerobicyes91.826yes
thermophileno97.866no
motileyes84.837yes
glucose-fermentno93.144no

External links

@ref: 17238

culture collection no.: DSM 23495, MTCC 9535, NRRL B-59162, CIP 110062

straininfo link

  • @ref: 70948
  • straininfo: 370147

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19666815Bacillus horneckiae sp. nov., isolated from a spacecraft-assembly clean room.Vaishampayan P, Probst A, Krishnamurthi S, Ghosh S, Osman S, McDowall A, Ruckmani A, Mayilraj S, Venkateswaran KInt J Syst Evol Microbiol10.1099/ijs.0.008979-02009Bacillus/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, *Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Spacecraft, Species SpecificityGenetics
Phylogeny21335493Bacillus purgationiresistans sp. nov., isolated from a drinking-water treatment plant.Vaz-Moreira I, Figueira V, Lopes AR, Lobo-da-Cunha A, Sproer C, Schumann P, Nunes OC, Manaia CMInt J Syst Evol Microbiol10.1099/ijs.0.028605-02011Aerobiosis, Bacillus/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Drinking Water/*microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/metabolism, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spores, Bacterial/cytology, Temperature, *Water PurificationEnzymology
Phylogeny21705449Bacillus kochii sp. nov., isolated from foods and a pharmaceuticals manufacturing site.Seiler H, Schmidt V, Wenning M, Scherer SInt J Syst Evol Microbiol10.1099/ijs.0.027771-02011Aerobiosis, Bacillus/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Chaperonin 60/genetics, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, *Environmental Microbiology, *Food Microbiology, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spores, Bacterial/cytology, TemperatureBiotechnology
Phylogeny22634699Bacillus gottheilii sp. nov., isolated from a pharmaceutical manufacturing site.Seiler H, Wenning M, Schmidt V, Scherer SInt J Syst Evol Microbiol10.1099/ijs.0.036277-02012Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Drug Industry, *Environment, Controlled, Fatty Acids/analysis, Germany, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny26289817Bacillus solani sp. nov., isolated from rhizosphere soil of a potato field.Liu B, Liu GH, Sengonca C, Schumann P, Ge CB, Wang JP, Cui WD, Lin NQInt J Syst Evol Microbiol10.1099/ijsem.0.0005392015Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Solanum tuberosum/*microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny26452774Bacillus depressus sp. nov., isolated from soil of a sunflower field.Wei X, Xin D, Xin Y, Zhang H, Wang T, Zhang JAntonie Van Leeuwenhoek10.1007/s10482-015-0605-12015Bacillus/*classification/genetics/growth & development/*isolation & purification, Bacterial Typing Techniques, Base Composition, Benzoquinones/chemistry, Cell Wall/chemistry, China, DNA, Bacterial/analysis/genetics, Diaminopimelic Acid/analysis, Fatty Acids/chemistry, Glycerophospholipids/chemistry, Helianthus/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Phylogeny28820088Bacillus praedii sp. nov., isolated from purplish paddy soil.Liu B, Liu GH, Sengonca C, Schumann P, Wang JP, Zhu YJ, Liu QY, Wang MKInt J Syst Evol Microbiol10.1099/ijsem.0.0020302017Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oryza, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Phylogeny28984568Bacillus ciccensis sp. nov., isolated from maize (Zea mays L.) seeds.Liu Y, Li N, Eom MK, Schumann P, Zhang X, Cao Y, Ge Y, Xiao M, Zhao J, Cheng C, Kim SGInt J Syst Evol Microbiol10.1099/ijsem.0.0023412017Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seeds/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, Zea mays/*microbiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17238Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23495)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23495
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
29227Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2564828776041
37909Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7877
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
70948Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370147.1StrainInfo: A central database for resolving microbial strain identifiers
119972Curators of the CIPCollection of Institut Pasteur (CIP 110062)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110062