Strain identifier

BacDive ID: 11981

Type strain: Yes

Species: Sporosarcina pasteurii

Strain Designation: 22, Gibson 22

Strain history: CIP <- 1966, ATCC <- F.F. Lombard <- T. Gibson: strain 22

NCBI tax ID(s): 1474 (species)

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General

@ref: 2034

BacDive-ID: 11981

DSM-Number: 33

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, rod-shaped

description: Sporosarcina pasteurii 22 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1474
  • Matching level: species

strain history

@refhistory
2034<- ATCC <- F.F. Lombard <- T. Gibson, 22
121627CIP <- 1966, ATCC <- F.F. Lombard <- T. Gibson: strain 22

doi: 10.13145/bacdive11981.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Caryophanaceae
  • genus: Sporosarcina
  • species: Sporosarcina pasteurii
  • full scientific name: Sporosarcina pasteurii (Miquel 1889) Yoon et al. 2001

  • synonyms

    @refsynonym
    20215Bacillus pasteurii
    20215Urobacillus pasteurii

@ref: 2034

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Sporosarcina

species: Sporosarcina pasteurii

full scientific name: Sporosarcina pasteurii (Miquel 1889) Yoon et al. 2001

strain designation: 22, Gibson 22

type strain: yes

Morphology

cell morphology

  • @ref: 121627
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2034CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
41674MEDIUM 19 - for Bacillus pasteuriiyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Urea solution - M0090 (100.000 ml)
121627CIP Medium 19yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=19

culture temp

@refgrowthtypetemperaturerange
2034positivegrowth30mesophilic
41674positivegrowth30mesophilic
44994positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44994aerobe
121627obligate aerobe

compound production

  • @ref: 2034
  • compound: urease

murein

  • @ref: 2034
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12162717632nitrate+reduction
12162716301nitrite-reduction
6837917632nitrate+reduction
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin-hydrolysis
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

  • @ref: 121627
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
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
121627oxidase+
121627catalase+1.11.1.6
121627urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlRIBXYLMANMALLACSACGLYGCAT
44994+-+---+--+----------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121627--+------------+----

Isolation, sampling and environmental information

isolation

@refsample type
2034soil
121627Environment, Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_3717.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_1276;97_2304;98_2840;99_3717&stattab=map
  • Last taxonomy: Sporosarcina
  • 16S sequence: HQ676600
  • Sequence Identity:
  • Total samples: 4350
  • soil counts: 1270
  • aquatic counts: 421
  • animal counts: 2467
  • plant counts: 192

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
20341Risk group (German classification)
1216271Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Sporosarcina pasteurii NCCB:48021 16S ribosomal RNA gene, partial sequenceHQ6766001476ena1474
20218B.pasteurii 16S ribosomal RNAX606311431ena1474

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sporosarcina pasteurii NCTC4822GCA_900457495contigncbi1474
66792Sporosarcina pasteurii strain NCTC48221474.8wgspatric1474
66792Sporosarcina pasteurii NCTC 48222849954708draftimg1474
66792Sporosarcina pasteurii ATCC 118592582581329draftimg1474

GC content

@refGC-contentmethod
203438.5thermal denaturation, midpoint method (Tm)
203438.4Buoyant density centrifugation (BD)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes84.601no
gram-positiveyes89.629no
anaerobicno98.073no
aerobicyes89.278no
halophileyes81.106no
spore-formingyes90.823no
thermophileno98.34yes
glucose-utilyes81.319no
flagellatedyes72.081no
glucose-fermentno91.125no

External links

@ref: 2034

culture collection no.: DSM 33, ATCC 11859, CCM 2056, NCIB 8841, NCTC 4822, CCUG 7425, LMG 7130, CIP 66.21, NCDO 1776, NCIMB 8841

straininfo link

  • @ref: 81194
  • straininfo: 2909

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology3753142Nickel-content of urease from Bacillus pasteurii.Christians S, Kaltwasser HArch Microbiol10.1007/BF004130261986Bacillus/*enzymology, Chromatography, Affinity, Chromatography, Gel, Chromatography, Ion Exchange, Kinetics, Molecular Weight, Nickel/*analysis, Radioisotopes, Urease/*isolation & purification/metabolismPhylogeny
Metabolism8550459Ammonium/urea-dependent generation of a proton electrochemical potential and synthesis of ATP in Bacillus pasteurii.Jahns TJ Bacteriol10.1128/jb.178.2.403-409.19961996Adenosine Triphosphatases/metabolism, Adenosine Triphosphate/*biosynthesis, Bacillus/drug effects/*metabolism, Carbonyl Cyanide m-Chlorophenyl Hydrazone/pharmacology, Gramicidin/pharmacology, Hydrogen-Ion Concentration/drug effects, Hydroxamic Acids/pharmacology, Ion Transport, Membrane Potentials/drug effects, Potassium/metabolism, Proton-Motive Force/*drug effects, Quaternary Ammonium Compounds/metabolism/*pharmacology, Uncoupling Agents/pharmacology, Urea/*pharmacologyPathogenicity
8952946Regulation of leucine transport by intracellular pH in Bacillus pasteurii.Beck L, Jahns TArch Microbiol10.1007/s0020300503251996
Metabolism20947128Optimum conditions for microbial carbonate precipitation.Okwadha GD, Li JChemosphere10.1016/j.chemosphere.2010.09.0662010Ammonia/analysis/chemistry/metabolism, Calcium Carbonate/analysis/chemistry/metabolism, Carbonates/chemistry/*metabolism, Chemical Precipitation, Hydrogen-Ion Concentration, Sporosarcina/enzymology/*metabolism, Temperature, Urea/chemistry/metabolism, Urease/metabolismEnzymology
Metabolism21696884Biocontainment of polychlorinated biphenyls (PCBs) on flat concrete surfaces by microbial carbonate precipitation.Okwadha GD, Li JJ Environ Manage10.1016/j.jenvman.2011.05.0292011Calcium Carbonate/*metabolism, Conservation of Natural Resources/*methods, Construction Materials/*microbiology, Permeability, *Polychlorinated Biphenyls, *Soil Pollutants, Sporosarcina/*metabolism, Surface Properties, Temperature, *Water
Metabolism25239069Reducing hydraulic conductivity of porous media using CaCO(3) precipitation induced by Sporosarcina pasteurii.Eryuruk K, Yang S, Suzuki D, Sakaguchi I, Akatsuka T, Tsuchiya T, Katayama AJ Biosci Bioeng10.1016/j.jbiosc.2014.08.0092014Calcium Carbonate/*chemistry, *Chemical Precipitation, Crystallization, Glass/chemistry, Porosity, Sporosarcina/chemistry/*metabolism, Urea/chemistry
Metabolism25736267Effects of bentonite and yeast extract as nutrient on decrease in hydraulic conductivity of porous media due to CaCO3 precipitation induced by Sporosarcina pasteurii.Eryuruk K, Yang S, Suzuki D, Sakaguchi I, Katayama AJ Biosci Bioeng10.1016/j.jbiosc.2015.01.0202015Bentonite/*chemistry, Calcium Carbonate/*chemistry, *Chemical Precipitation, Glass, Microspheres, Particle Size, Porosity, Sporosarcina/growth & development/*metabolism, *Water Movements, Yeasts/*chemistry
28773600Microbially Induced Calcite Precipitation Employing Environmental Isolates.Kim G, Youn HMaterials (Basel)10.3390/ma90604682016
29505251Diversity of Sporosarcina-like Bacterial Strains Obtained from Meter-Scale Augmented and Stimulated Biocementation Experiments.Graddy CMR, Gomez MG, Kline LM, Morrill SR, DeJong JT, Nelson DCEnviron Sci Technol10.1021/acs.est.7b042712018Bacteria, Calcium Carbonate, *Sporosarcina, Urea, Urease
Metabolism30990806Towards a low CO2 emission building material employing bacterial metabolism (1/2): The bacterial system and prototype production.Royne A, Phua YJ, Balzer Le S, Eikjeland IG, Josefsen KD, Markussen S, Myhr A, Throne-Holst H, Sikorski P, Wentzel APLoS One10.1371/journal.pone.02129902019Bacillus, Bacteria/chemistry/*metabolism, Calcium Carbonate/*chemistry, Carbon Dioxide/chemistry/*toxicity, *Chemical Precipitation, Construction Industry, Construction Materials, Humans, Hydrolysis, Soil/chemistry, Urease/chemistryPathogenicity
Metabolism31301204Facultative and anaerobic consortia of haloalkaliphilic ureolytic micro-organisms capable of precipitating calcium carbonate.Skorupa DJ, Akyel A, Fields MW, Gerlach RJ Appl Microbiol10.1111/jam.143842019Alkalies/*metabolism, Anaerobiosis, Bacteria/metabolism, Calcium Carbonate/chemistry/*metabolism, Geologic Sediments/microbiology, Microbial Consortia, Sporosarcina/genetics/isolation & purification/*metabolism, Urea/*metabolismEnzymology
Metabolism33384450Revealing nutritional requirements of MICP-relevant Sporosarcina pasteurii DSM33 for growth improvement in chemically defined and complex media.Lapierre FM, Schmid J, Ederer B, Ihling N, Buchs J, Huber RSci Rep10.1038/s41598-020-79904-92020*Bacterial Physiological Phenomena, Carbon/metabolism, *Culture Media/chemistry, Hydrogen-Ion Concentration, Microbiological Techniques, *Nutritional Requirements, Sporosarcina/*physiologyCultivation
Metabolism34314060Contribution of bacterial cells as nucleation centers in microbiologically induced CaCO(3) precipitation-A mathematical modeling approach.Sovljanski O, Pezo L, Tomic A, Ranitovic A, Cvetkovic D, Markov SJ Basic Microbiol10.1002/jobm.2021002752021Bacillus/metabolism, Bacteria/*metabolism, Biofilms/growth & development, Calcium Carbonate/*metabolism, *Chemical Precipitation, Hydrogen-Ion Concentration, *Models, Theoretical, Neural Networks, Computer, Sporosarcina/metabolism
34315956Biocementation mediated by native microbes from Brahmaputra riverbank for mitigation of soil erodibility.Dubey AA, Ravi K, Mukherjee A, Sahoo L, Abiala MA, Dhami NKSci Rep10.1038/s41598-021-94614-62021
Metabolism34319256Improvement of Biomineralization of Sporosarcina pasteurii as Biocementing Material for Concrete Repair by Atmospheric and Room Temperature Plasma Mutagenesis and Response Surface Methodology.Han PP, Geng WJ, Li MN, Jia SR, Yin JL, Xue RZJ Microbiol Biotechnol10.4014/jmb.2104.040192021Analysis of Variance, Biomineralization, Calcium Carbonate/chemistry/*metabolism, Calcium Chloride/chemistry/metabolism, Construction Materials/*microbiology, Mutagenesis, Mutation, Plasma Gases, Sporosarcina/genetics/*metabolism, Temperature, Urea/chemistry/metabolism, Urease/genetics/metabolism
34442771Comprehensive Profiling of Microbiologically Induced CaCO3 Precipitation by Ureolytic Bacillus Isolates from Alkaline Soils.Sovljanski O, Pezo L, Stanojev J, Bajac B, Kovac S, Toth E, Ristic I, Tomic A, Ranitovic A, Cvetkovic D, Markov SMicroorganisms10.3390/microorganisms90816912021
35427694Best-performing Bacillus strains for microbiologically induced CaCO3 precipitation: Screening of relative influence of operational and environmental factors.Sovljanski O, Pezo L, Grahovac J, Tomic A, Ranitovic A, Cvetkovic D, Markov SJ Biotechnol10.1016/j.jbiotec.2022.04.0022022*Bacillus, Bacteria, Biomineralization, Calcium Carbonate, Chemical Precipitation, Soil, *Sporosarcina
35611563High level of calcium carbonate precipitation achieved by mixed culture containing ureolytic and non-ureolytic bacterial strains.Harnpicharnchai P, Mayteeworakoon S, Kitikhun S, Chunhametha S, Likhitrattanapisal S, Eurwilaichitr L, Ingsriswang SLett Appl Microbiol10.1111/lam.137482022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2034Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 33)https://www.dsmz.de/collection/catalogue/details/culture/DSM-33
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
41674Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10244
44994Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 7425)https://www.ccug.se/strain?id=7425
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 updatesNucleic Acids Res. 49: D498-D508 202033211880
68379Automatically annotated from API Coryne
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
81194Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2909.1StrainInfo: A central database for resolving microbial strain identifiers
121627Curators of the CIPCollection of Institut Pasteur (CIP 66.21)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2066.21