Strain identifier

BacDive ID: 748

Type strain: Yes

Species: Peribacillus psychrosaccharolyticus

Strain Designation: T25B, B-3394

Strain history: CIP <- 2001, CCUG <- 1991, L.K. Nakamura, NRRL, Peoria, USA: strain B-3394

NCBI tax ID(s): 1174504 (strain), 1407 (species)

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General

@ref: 2014

BacDive-ID: 748

DSM-Number: 6

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

description: Peribacillus psychrosaccharolyticus T25B is an obligate aerobe, spore-forming, Gram-positive bacterium that was isolated from soil or lowland marsh.

NCBI tax id

NCBI tax idMatching level
1174504strain
1407species

strain history

@refhistory
2014<- J.L. Stokes, T25B
122032CIP <- 2001, CCUG <- 1991, L.K. Nakamura, NRRL, Peoria, USA: strain B-3394

doi: 10.13145/bacdive748.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Peribacillus
  • species: Peribacillus psychrosaccharolyticus
  • full scientific name: Peribacillus psychrosaccharolyticus (Priest et al. 1989 ex Larkin and Stokes 1967) Patel and Gupta 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus psychrosaccharolyticus

@ref: 2014

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Peribacillus

species: Peribacillus psychrosaccharolyticus

full scientific name: Peribacillus psychrosaccharolyticus (Priest et al. 1989) Patel and Gupta 2020

strain designation: T25B, B-3394

type strain: yes

Morphology

cell morphology

  • @ref: 122032
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 122032

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2014BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
2014NUTRIENT 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
41557MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122032CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperature
2014positivegrowth20
41557positivegrowth20
122032positivegrowth22-45
122032nogrowth10
122032nogrowth55

culture pH

  • @ref: 122032
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

  • @ref: 122032
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 93.802

halophily

@refsaltgrowthtested relationconcentration
122032NaClpositivegrowth0-2 %
122032NaClnogrowth4 %
122032NaClnogrowth6 %
122032NaClnogrowth8 %
122032NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
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
68371starch-builds acid from28017
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
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
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
122032esculin+hydrolysis4853
122032hippurate+hydrolysis606565
122032nitrate+reduction17632
122032nitrite-reduction16301
122032nitrate-respiration17632

metabolite production

  • @ref: 122032
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12203215688acetoin-
12203217234glucose-

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
122032oxidase+
122032beta-galactosidase+3.2.1.23
122032alcohol dehydrogenase-1.1.1.1
122032gelatinase-
122032amylase-
122032DNase+
122032caseinase-3.4.21.50
122032catalase+1.11.1.6
122032tween esterase-
122032gamma-glutamyltransferase-2.3.2.2
122032lysine decarboxylase-4.1.1.18
122032ornithine decarboxylase-4.1.1.17
122032tryptophan deaminase-
122032urease-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
122032-+-+-----------+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122032+--+++----+-+---+/-+---+++++++++/-+/-+-+/-+/--+/--+-------+-+/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122032+--+-----++-+--++-+------------+-+------+----------------------------------------------------------

Isolation, sampling and environmental information

isolation

  • @ref: 2014
  • sample type: soil or lowland marsh

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Environmental#Terrestrial#Wetland (Swamp)

taxonmaps

  • @ref: 69479
  • File name: preview.99_143366.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_370;97_418;98_75930;99_143366&stattab=map
  • Last taxonomy: Peribacillus psychrosaccharolyticus subclade
  • 16S sequence: AB681415
  • Sequence Identity:
  • Total samples: 163
  • soil counts: 50
  • aquatic counts: 78
  • animal counts: 32
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
20141Risk group (German classification)
1220321Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus psychrosaccharolyticus gene for 16S ribosomal RNAAB0211951507nuccore1174504
20218Bacillus psychrosaccharolyticus clone LE-5F 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF478069512nuccore1174504
20218B.psychrosaccharolyticus 16S ribosomal RNAX606351426nuccore1174504
20218Bacillus psychrosaccharolyticus gene for 16S rRNA, partial sequence, strain: NBRC 101233AB6814151471nuccore1174504

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Peribacillus psychrosaccharolyticus ATCC 23296GCA_000305495contigncbi1174504
66792Bacillus psychrosaccharolyticus ATCC 232961174504.3wgspatric1174504
66792Bacillus psychrosaccharolyticus ATCC 232962547132175draftimg1174504

GC content

  • @ref: 2014
  • GC-content: 38.5
  • method: Buoyant density centrifugation (BD)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes75.402no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.765yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes93.802no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes71.358yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno92.906yes
69480flagellatedmotile2+Ability to perform flagellated movementyes84.035no

External links

@ref: 2014

culture collection no.: DSM 6, ATCC 23296, DSM 13778, LMG 9580, NCIMB 11729, CIP 106932, CCUG 28882

straininfo link

  • @ref: 70422
  • straininfo: 1166

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology2334516Structure and function of L-lactate dehydrogenases from thermophilic, mesophilic and psychrophilic bacteria, IX. Identification, isolation and nucleotide sequence of two L-lactate dehydrogenase genes of the psychrophilic bacterium Bacillus psychrosaccharolyticus.Vckovski V, Schlatter D, Zuber HBiol Chem Hoppe Seyler10.1515/bchm3.1990.371.1.1031990Amino Acid Sequence, Bacillus/enzymology/*genetics, Base Sequence, Cloning, Molecular, DNA, Bacterial/*analysis, Gene Expression, Isoenzymes, L-Lactate Dehydrogenase/*genetics, Molecular Sequence Data, Restriction Mapping, Sequence Homology, Nucleic AcidGenetics
Phylogeny24903955Bacillus huizhouensis sp. nov., isolated from a paddy field soil.Li J, Yang G, Wu M, Zhao Y, Zhou SAntonie Van Leeuwenhoek10.1007/s10482-014-0208-22014Aerobiosis, Anaerobiosis, Bacillus/*classification/*isolation & purification, Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Oryza, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Spores, Bacterial/cytology, Temperature, Vitamin K 2/analysisGenetics
Phylogeny26303844Bacillus gossypii sp. nov., isolated from the stem of Gossypium hirsutum.Kampfer P, Busse HJ, McInroy JA, Glaeser SPInt J Syst Evol Microbiol10.1099/ijsem.0.0005552015Alabama, Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gossypium/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Stems/*microbiology, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2014Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6
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
41557Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19117
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)
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)
70422Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1166.1StrainInfo: A central database for resolving microbial strain identifiers
122032Curators of the CIPCollection of Institut Pasteur (CIP 106932)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106932