Strain identifier

BacDive ID: 5398

Type strain: Yes

Species: Pelagerythrobacter marensis

Strain Designation: MSW-14

Strain history: S. D. Lee, Cheju National Univ., Rep. of Korea; MSW-14

NCBI tax ID(s): 543877 (species)

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General

@ref: 15700

BacDive-ID: 5398

DSM-Number: 21428

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Pelagerythrobacter marensis MSW-14 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from seawater.

NCBI tax id

  • NCBI tax id: 543877
  • Matching level: species

strain history

@refhistory
15700<- S. D. Lee, Cheju National Univ., Rep. of Korea; MSW-14
67771<- SD Lee, Cheju Univ.
67772S. D. Lee, Cheju National Univ., Rep. of Korea; MSW-14

doi: 10.13145/bacdive5398.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Pelagerythrobacter
  • species: Pelagerythrobacter marensis
  • full scientific name: Pelagerythrobacter marensis (Seo and Lee 2010) Xu et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Altererythrobacter marensis

@ref: 15700

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Altererythrobacter

species: Altererythrobacter marensis

full scientific name: Altererythrobacter marensis Seo and Lee 2010

strain designation: MSW-14

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
29331negative1.5 µm0.6 µmrod-shapedyes
25743negative1-2 µm0.5-0.7 µmrod-shapedyesmonotrichous, polar
67771negative
69480negative99.848

colony morphology

  • @ref: 25743
  • colony size: 0.8-1.0 mm
  • colony color: yellow opaque
  • colony shape: circular
  • incubation period: 4 days
  • medium used: Marine agar 2216 (Difco)

pigmentation

  • @ref: 29331
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15700BACTO 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
25743Marine agar 2216 (Difco)yes

culture temp

@refgrowthtypetemperaturerange
15700positivegrowth28mesophilic
29331positivegrowth04-42
29331positiveoptimum30mesophilic
25743positiveoptimum30mesophilic
25743positivegrowth4-42
67771positivegrowth30mesophilic
67772positiveminimum4psychrophilic
67772positiveoptimum30mesophilic
67772positivemaximum42thermophilic

culture pH

@refabilitytypepHPH range
29331positivegrowth6.1-11.1alkaliphile
29331positiveoptimum7.1
25743positivegrowth6.1-11.1
25743positiveoptimum7.1
67772positivemaximum11.1
67772positiveoptimum7.1
67772positiveminimum6.1

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29331aerobe
25743obligate aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.964

halophily

@refsaltgrowthtested relationconcentration
29331NaClpositivegrowth0-9 %
29331NaClpositiveoptimum2 %
25743NaClpositivegrowth0-9 %
25743NaClpositiveoptimum0-4 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2933125115malate+carbon source
293314853esculin+hydrolysis
257433557154-nitrophenyl-beta-D-galactoside-assimilation
2574317128adipate-assimilation
2574327689decanoate-assimilation
25743casein-degradation
2574362968cellulose-degradation
2574317029chitin-degradation
2574316947citrate-assimilation
2574317634D-glucose-fermentation
2574317634D-glucose-assimilation
2574317306maltose-assimilation
2574316899D-mannitol-assimilation
2574316024D-mannose-assimilation
2574316991dna-degradation
257434853esculin+hydrolysis
257435291gelatin-hydrolysis
257438391D-gluconate-assimilation
2574317368hypoxanthine-degradation
2574330849L-arabinose-assimilation
2574325115malate+assimilation
25743506227N-acetylglucosamine-assimilation
2574363043nitrate-reduction
2574318401phenylacetate-assimilation
2574328017starch-degradation
2574353426tween 80+degradation
2574318186tyrosine-degradation
2574316199urea-degradation
2574315318xanthine-degradation

metabolite production

  • @ref: 25743
  • Chebi-ID: 30033
  • metabolite: bacteriochlorophyll alpha
  • production: no

enzymes

@refvalueactivityec
29331acid phosphatase+3.1.3.2
29331alkaline phosphatase+3.1.3.1
29331catalase+1.11.1.6
29331cytochrome oxidase+1.9.3.1
25743alkaline phosphatase+3.1.3.1
25743esterase (C 4)+
25743esterase Lipase (C 8)+
25743leucine arylamidase+3.4.11.1
25743valine arylamidase+
25743alpha-chymotrypsin+3.4.21.1
25743acid phosphatase+3.1.3.2
25743naphthol-AS-BI-phosphohydrolase+
25743lipase (C 14)-
25743cystine arylamidase-3.4.11.3
25743trypsin-3.4.21.4
25743alpha-galactosidase-3.2.1.22
25743beta-glucuronidase-3.2.1.31
25743alpha-glucosidase-3.2.1.20
25743beta-glucosidase-3.2.1.21
25743N-acetyl-beta-glucosaminidase-3.2.1.52
25743alpha-fucosidase-3.2.1.51
25743alpha-mannosidase-3.2.1.24

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling datelatitudelongitudeenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
15700seawaterJeju, Mara IslandRepublic of KoreaKORAsia
25743Seawater samples from the surface near the coast of Mara IslandJejuRepublic of KoreaKORAsia2007-0433126.128Casein-Starch agar (Küster & Williams 1964)14 days30direct plating of seawater samples
67771From seawaterMara island, JejuRepublic of KoreaKORAsia
67772Seawater samples were collected from the sea surfaceJejuRepublic of KoreaKORAsia200733.1167126.267

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_5010.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_1655;97_1981;98_3746;99_5010&stattab=map
  • Last taxonomy: Pelagerythrobacter marensis
  • 16S sequence: FM177586
  • Sequence Identity:
  • Total samples: 65
  • soil counts: 17
  • aquatic counts: 39
  • animal counts: 6
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
157001Risk group (German classification)
677721

Sequence information

16S sequences

  • @ref: 15700
  • description: Alterierythrobacter sp. MSW-14 partial 16S rRNA gene, type strain MSW-14
  • accession: FM177586
  • length: 1397
  • database: ena
  • NCBI tax ID: 543877

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pelagerythrobacter marensis KCTC 22370GCA_001028625completencbi543877
66792Pelagerythrobacter marensis DSM 21428GCA_001461885contigncbi543877
66792Altererythrobacter marensis strain DSM 21428543877.5wgspatric543877
66792Altererythrobacter marensis strain KCTC 22370543877.4completepatric543877
66792Altererythrobacter marensis KCTC 223702648501407completeimg543877
66792Altererythrobacter marensis DSM 214282744054505draftimg543877

GC content

@refGC-contentmethod
1570063.1high performance liquid chromatography (HPLC)
2933163.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes78.005yes
flagellatedno74.214yes
gram-positiveno97.987no
anaerobicno99.013yes
aerobicyes95.398no
halophileno85.984no
spore-formingno93.2no
thermophileno95.544no
glucose-utilyes76.283yes
glucose-fermentno92.048no

External links

@ref: 15700

culture collection no.: DSM 21428, KCTC 22370, UCCCB27

straininfo link

  • @ref: 74888
  • straininfo: 398875

literature

  • topic: Phylogeny
  • Pubmed-ID: 33847861
  • title: Actirhodobacter atriluteus gen. nov., sp. nov., isolated from the surface water of the Yellow Sea.
  • authors: Xue HP, Zhang DF, Xu L, Wang XN, Zhang AH, Huang JK, Liu C
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-021-01576-w
  • year: 2021
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, *Seawater, Sequence Analysis, DNA, Ubiquinone, *Water
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlepubmedID_cross_referencejournal
15700Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21428)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21428
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
2574310.1099/ijs.0.011031-019651736
29331Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604125743
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
67772Curators of the UCCCBhttps://ucccb.uc.pt/
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
74888Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID398875.1StrainInfo: A central database for resolving microbial strain identifiers