Strain identifier

BacDive ID: 140293

Type strain: Yes

Species: Marinisporobacter balticus

Strain Designation: 59.4M

Strain history: V. Vandieken; Univ. of Oldenburg, Germany; 59.4M.

NCBI tax ID(s): 2018667 (species)

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General

@ref: 42900

BacDive-ID: 140293

DSM-Number: 102940

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, heterotroph, spore-forming, mesophilic, Gram-positive, rod-shaped

description: Marinisporobacter balticus 59.4M is a facultative anaerobe, heterotroph, spore-forming bacterium that was isolated from marine subsurface sediment, sediment depth of 12.7 m.

NCBI tax id

  • NCBI tax id: 2018667
  • Matching level: species

strain history

@refhistory
42900<- V. Vandieken, ICMB, Univ. Oldenburg, Germany; 59.4M <- V. Vandieken {2014}
67770V. Vandieken; Univ. of Oldenburg, Germany; 59.4M.

doi: 10.13145/bacdive140293.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Marinisporobacter
  • species: Marinisporobacter balticus
  • full scientific name: Marinisporobacter balticus Vandieken et al. 2017

@ref: 42900

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Clostridiaceae

genus: Marinisporobacter

species: Marinisporobacter balticus

full scientific name: Marinisporobacter balticus Vandieken et al. 2017

strain designation: 59.4M

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43225positive2.7-7.8 µm0.6-0.8 µmrod-shaped
69480yes95.883
69480positive99.999

Culture and growth conditions

culture medium

  • @ref: 42900
  • name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/641
  • composition: Name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641; with strain-specific modifications) Composition: D-Fructose 3.48953 g/l Na2SO4 1.99402 g/l Na2S2O3 x 5 H2O 0.997009 g/l MgSO4 x 7 H2O 0.997009 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2CO3 0.997009 g/l KH2PO4 0.498504 g/l Na2S x 9 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43225positiveoptimum25mesophilic
43225positivegrowth15-30
42900positivegrowth20psychrophilic
67770positivegrowth25mesophilic

culture pH

@refabilitytypepH
43225positivegrowth6.6.-7.7
43225positiveoptimum7.0-7.3

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
43225facultative anaerobe
69480anaerobe99.728

nutrition type

  • @ref: 43225
  • type: heterotroph

spore formation

@reftype of sporespore formationconfidence
43225endosporeyes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
43225NaClpositivegrowth0.1-4.5 %
43225NaClpositiveoptimum0.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4322522599arabinose-anaerobic growth
4322517306maltose-anaerobic growth
4322517716lactose-anaerobic growth
4322533942ribose-anaerobic growth
4322528260galactose-anaerobic growth
4322526546rhamnose-anaerobic growth
4322518222xylose-anaerobic growth
4322517057cellobiose-anaerobic growth
43225506227N-acetylglucosamine-anaerobic growth
4322528300glutamine-anaerobic growth
4322522653asparagine-anaerobic growth
4322516449alanine-anaerobic growth
4322525094lysine-anaerobic growth
4322524898isoleucine-anaerobic growth
4322517822serine-anaerobic growth
4322527570histidine-anaerobic growth
4322529016arginine-anaerobic growth
4322526271proline-anaerobic growth
4322517750betaine-anaerobic growth
4322515361pyruvate-anaerobic growth
4322530031succinate-anaerobic growth
4322524996lactate-anaerobic growth
4322517968butyrate-anaerobic growth
4322525115malate-anaerobic growth
4322518139trimethylamine-anaerobic growth
4322517272propionate-anaerobic growth
4322515740formate-anaerobic growth
4322530089acetate-anaerobic growth
4322517790methanol-anaerobic growth
4322516236ethanol-anaerobic growth
4322528885butanol-anaerobic growth
43225526821,2-butandiol-anaerobic growth
4322528831propanol-anaerobic growth
4322515978glycerol 3-phosphate-anaerobic growth
4322529864mannitol-anaerobic growth
4322516526carbon dioxide-anaerobic growth
43225yeast extract+anaerobic growth
43225casein+anaerobic growth
43225tryptone+anaerobic growth
43225peptone+anaerobic growth
43225yeast extract+aerobic growth
43225casein+aerobic growth
43225tryptone+aerobic growth
43225peptone+aerobic growth
4322528757fructose+anaerobic growth
4322517234glucose+anaerobic growth
4322529806fumarate+anaerobic growth
4322517632nitrate-electron acceptor
4322516189sulfate-electron acceptor

enzymes

@refvalueactivityec
43225catalase+1.11.1.6
43225cytochrome oxidase-1.9.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43225C14:030.6
    43225C15:0 iso0.3
    43225C15:0 anteiso10
    43225C15:1ω8c0.6
    43225C15:1ω40.5
    43225C15:00.4
    43225C16:1ω9c25.1
    43225C16:1ω7c0.9
    43225C16:1ω5c0.4
    43225C16:011.2
    43225C17:1ω80.3
    43225C17:00.2
    43225C18:21.6
    43225C18:1ω9c12.6
    43225C18:1ω7c1
    43225C18:1ω5c0.5
    43225C18:016.5
  • type of FA analysis: whole cell analysis
  • incubation medium: seawater medium
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudesampling dateenrichment cultureenrichment culture temperatureisolation procedure
42900marine subsurface sediment, sediment depth of 12.7 mBaltic Sea, Little Belt (IODP Expedition 347, Research vessel "Greatship Manisha"), station M0059DenmarkDNKEurope55.004810.1082
43225sediment samples from depth of 12.7 mLittle Belt, Baltic SeaDenmarkDNKEurope55102013-10-30seawater medium15several transfers of anoxic deep-agar dilution series
67770Subsurface of marine sediment from Little Belt (Baltic Sea)DenmarkDNKEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_167251.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15791;96_62590;97_81117;98_109788;99_167251&stattab=map
  • Last taxonomy: Marinisporobacter balticus subclade
  • 16S sequence: KX822012
  • Sequence Identity:
  • Total samples: 3110
  • soil counts: 117
  • aquatic counts: 2814
  • animal counts: 168
  • plant counts: 11

Safety information

risk assessment

  • @ref: 42900
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 42900
  • description: Marinisporobacter balticus strain 59.4M 16S ribosomal RNA gene, partial sequence
  • accession: KX822012
  • length: 1435
  • database: ena
  • NCBI tax ID: 2018667

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinisporobacter balticus strain DSM 1029402018667.3wgspatric2018667
66792Marinisporobacter balticus DSM 1029402795385446draftimg2018667
67770Marinisporobacter balticus DSM 102940GCA_004345705contigncbi2018667

GC content

@refGC-contentmethod
4322542.9
4290042.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes88.961no
gram-positiveno55.215no
anaerobicyes94.215yes
aerobicno96.356yes
halophileno93.005yes
spore-formingyes95.711yes
glucose-utilyes88.956yes
flagellatedyes70.186no
thermophileno98.044yes
glucose-fermentno59.85no

External links

@ref: 42900

culture collection no.: DSM 102940, JCM 31103

straininfo link

  • @ref: 96598
  • straininfo: 401143

literature

  • topic: Phylogeny
  • Pubmed-ID: 28646634
  • title: Marinisporobacter balticus gen. nov., sp. nov., Desulfosporosinus nitroreducens sp. nov. and Desulfosporosinus fructosivorans sp. nov., new spore-forming bacteria isolated from subsurface sediments of the Baltic Sea.
  • authors: Vandieken V, Niemann H, Engelen B, Cypionka H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001883
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Geologic Sediments/*microbiology, Oxidation-Reduction, Peptococcaceae/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sulfur-Reducing Bacteria/classification
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
42900Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102940Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102940)
43225Verona Vandieken, Helge Niemann, Bert Engelen, Heribert CypionkaMarinisporobacter balticus gen. nov., sp. nov., Desulfosporosinus nitroreducens sp. nov. And Desulfosporosinus fructosivorans sp. nov., new spore-forming bacteria isolated from subsurface sediments of the Baltic Sea10.1099/ijsem.0.001883IJSEM 67: 1887-1893 201728646634
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
96598Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID401143.1