Strain identifier

BacDive ID: 1499

Type strain: Yes

Species: Jeotgalibacillus marinus

Strain Designation: 581

Strain history: CIP <- 1989, DSM <- H.J. Rüger: strain 581, Bacillus psychrophilus subsp. marinus

NCBI tax ID(s): 86667 (species)

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General

@ref: 628

BacDive-ID: 1499

DSM-Number: 1297

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, psychrophilic, motile

description: Jeotgalibacillus marinus 581 is an obligate aerobe, spore-forming, psychrophilic bacterium that was isolated from sediment.

NCBI tax id

  • NCBI tax id: 86667
  • Matching level: species

strain history

@refhistory
628<- H. J. Rüger, AWI; 581
120815CIP <- 1989, DSM <- H.J. Rüger: strain 581, Bacillus psychrophilus subsp. marinus

doi: 10.13145/bacdive1499.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Caryophanaceae
  • genus: Jeotgalibacillus
  • species: Jeotgalibacillus marinus
  • full scientific name: Jeotgalibacillus marinus (Rüger and Richter 1979) Yoon et al. 2010

  • synonyms

    @refsynonym
    20215Bacillus globisporus subsp. marinus
    20215Marinibacillus marinus
    20215Bacillus marinus

@ref: 628

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Jeotgalibacillus

species: Jeotgalibacillus marinus

full scientific name: Jeotgalibacillus marinus (Rüger and Richter 1979) Yoon et al. 2010

strain designation: 581

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.857
69480100positive
120815nopositiverod-shaped

colony morphology

  • @ref: 120815

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
34033Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
628MARINE AGAR (DSMZ Medium 123)yesName: MARINE AGAR (DSMZ Medium 123) Composition: NaCl 24.0 g/l Agar 15.0 g/l MgCl2 x 6 H2O 11.0 g/l Bacto peptone 5.0 g/l Na2SO4 4.0 g/l CaCl2 x 6 H2O 2.0 g/l Yeast extract 1.0 g/l KCl 0.7 g/l KBr 0.1 g/l SrCl2 x 6 H2O 0.04 g/l H3BO3 0.03 g/l NaSiO3 x 9 H2O 0.005 g/l NaF 0.003 g/l NH4NO3 0.002 g/l Fe(III)PO4 x 4 H2O 0.001 g/l Distilled waterhttps://mediadive.dsmz.de/medium/123
120815CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
628positivegrowth20psychrophilic
34033positivegrowth22psychrophilic
120815positivegrowth10-30
120815nogrowth37mesophilic
120815nogrowth45thermophilic
120815nogrowth55thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120815
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
120815NaClpositivegrowth2 %
120815NaClnogrowth0 %
120815NaClnogrowth4 %
120815NaClnogrowth6 %
120815NaClnogrowth8 %
120815NaClnogrowth10 %

murein

  • @ref: 628
  • murein short key: A11. gly
  • type: A1alpha L-Lys-direct; alpha-carboxyl group of D-Glu substituted by glycine

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
120815606565hippurate-hydrolysis
12081517632nitrate-reduction
12081516301nitrite-reduction

metabolite production

  • @ref: 120815
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12081515688acetoin-
12081517234glucose+

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
120815oxidase-
120815beta-galactosidase+3.2.1.23
120815alcohol dehydrogenase-1.1.1.1
120815gelatinase+/-
120815amylase-
120815DNase-
120815caseinase+3.4.21.50
120815catalase+1.11.1.6
120815tween esterase-
120815gamma-glutamyltransferase-2.3.2.2
120815lecithinase-
120815lipase-
120815lysine decarboxylase-4.1.1.18
120815ornithine decarboxylase-4.1.1.17
120815urease-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
120815-+---+-----+--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120815++-++--------------------------+---------------------------+--+--+--------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountry
628sedimentNorth East Atlantic, Josephine Bank
49442SedimentNortheast Atlantic,Josephine BankAtlantic Ocean
120815Environment, Marine sediment, 237 m depthJosephine bank , NorthAtlantic Ocean

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Sediment
#Environmental#Terrestrial#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_5653.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_1505;97_1796;98_4213;99_5653&stattab=map
  • Last taxonomy: Jeotgalibacillus
  • 16S sequence: AB021190
  • Sequence Identity:
  • Total samples: 719
  • soil counts: 275
  • aquatic counts: 244
  • animal counts: 167
  • plant counts: 33

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
6281Risk group (German classification)
1208151Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus marinus gene for 16S ribosomal RNAAB0211901514ena86667
20218Marinibacillus marinus clone GO-1_f 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF478075744ena86667
20218Marinibacillus marinus isolate Mm10 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceEU723661604ena86667
20218Marinibacillus marinus isolate Mm21 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceEU723662507ena86667
20218Marinibacillus marinus isolate Mm56 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceEU723663858ena86667
628Bacillus marinus 16S rRNA gene, strain DSM 1297AJ2377081523ena86667

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Jeotgalibacillus marinus strain DSM 129786667.3wgspatric86667
66792Jeotgalibacillus marinus DSM 12972651869825draftimg86667

GC content

  • @ref: 628
  • GC-content: 39.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes91.562no
flagellatedyes90.593no
gram-positiveyes92.737no
anaerobicno99.272no
halophileyes85.441no
spore-formingyes96.894no
glucose-utilyes87.977no
aerobicyes93.354no
thermophileno97.462yes
glucose-fermentno89.999no

External links

@ref: 628

culture collection no.: DSM 1297, ATCC 29841, CCUG 28884, CIP 103308, LMG 6930, NRRL B-14558, NCIMB 2140

straininfo link

  • @ref: 71145
  • straininfo: 1153

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11760951Jeotgalibacillus alimentarius gen. nov., sp. nov., a novel bacterium isolated from jeotgal with L-lysine in the cell wall, and reclassification of Bacillus marinus Ruger 1983 . as mMrinibacillus marinus gen nov., comb. nov.Yoon JH, Weiss N, Lee KC, Lee IS, Kang KH, Park YHInt J Syst Evol Microbiol10.1099/00207713-51-6-20872001Bacillus/chemistry/*classification/genetics/isolation & purification/physiology, Culture Media, DNA, Ribosomal/genetics, Fermentation, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology, Sequence Analysis, DNACultivation
Phylogeny15280308Marinibacillus campisalis sp. nov., a moderate halophile isolated from a marine solar saltern in Korea, with emended description of the genus Marinibacillus.Yoon JH, Kim IG, Schumann P, Oh TK, Park YHInt J Syst Evol Microbiol10.1099/ijs.0.02779-02004Bacillaceae/*classification/cytology/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Fatty Acids/analysis, Genes, rRNA, Gentian Violet, Geologic Sediments/*microbiology, Growth Inhibitors/pharmacology, Korea, Molecular Sequence Data, Movement, Peptidoglycan/chemistry, Phenazines, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Sodium Chloride/pharmacology, Spores, Bacterial/cytology, Temperature, Water MicrobiologyGenetics
Phylogeny19643870Jeotgalibacillus salarius sp. nov., isolated from a marine saltern, and reclassification of Marinibacillus marinus and Marinibacillus campisalis as Jeotgalibacillus marinus comb. nov. and Jeotgalibacillus campisalis comb. nov., respectively.Yoon JH, Kang SJ, Schumann P, Oh TKInt J Syst Evol Microbiol10.1099/ijs.0.008318-02009Bacillales/*classification/genetics/*isolation & purification/metabolism, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism
Phylogeny21531739Jeotgalibacillus soli sp. nov., a Gram-stain-positive bacterium isolated from soil.Cunha S, Tiago I, Paiva G, Nobre F, da Costa MS, Verissimo AInt J Syst Evol Microbiol10.1099/ijs.0.028878-02011Aerobiosis, Bacterial Typing Techniques, Base Composition, Benzoquinones/analysis, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Lysine/analysis, Molecular Sequence Data, Oxidoreductases/metabolism, Peptidoglycan/chemistry, Phylogeny, Planococcaceae/*classification/genetics/*isolation & purification/physiology, Portugal, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, TemperatureMetabolism
Phylogeny30328805Jeotgalibacillus proteolyticus sp. nov., a protease-producing bacterium isolated from ocean sediments.Li Y, Zhang Z, Xu Z, Fang D, Wang ET, Shao S, Du Z, Liu W, Xie ZInt J Syst Evol Microbiol10.1099/ijsem.0.0030602018Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Peptide Hydrolases, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Planococcaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
628Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1297)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1297
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
34033Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15092
49442Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 28884)https://www.ccug.se/strain?id=28884
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)
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
71145Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1153.1StrainInfo: A central database for resolving microbial strain identifiers
120815Curators of the CIPCollection of Institut Pasteur (CIP 103308)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103308