Strain identifier

BacDive ID: 460

Type strain: Yes

Species: Marinobacterium halophilum

Strain Designation: mano11, 30.101

Strain history: <- J.W. Bae, KRIBB

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7073

BacDive-ID: 460

DSM-Number: 17586

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

description: Marinobacterium halophilum mano11 is an aerobe, halophilic, mesophilic bacterium that forms circular colonies and was isolated from tidal flat area of Dae-Chun.

NCBI tax id

NCBI tax idMatching level
1122199strain
267374species

strain history

@refhistory
7073<- J.-W. Bae, Korea Res. Inst. of Biosci. and Biotechnol. (KRIBB); mano11
67771<- J.W. Bae, KRIBB

doi: 10.13145/bacdive460.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Marinobacterium
  • species: Marinobacterium halophilum
  • full scientific name: Marinobacterium halophilum Chang et al. 2007

@ref: 7073

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacterium

species: Marinobacterium halophilum

full scientific name: Marinobacterium halophilum Chang et al. 2007

strain designation: mano11, 30.101

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23293negative2.1-3.0 µm0.5-0.7 µmrod-shapedyesmonotrichous, polar
67771negative
69480yes97.45
69480negative100

colony morphology

  • @ref: 23293
  • colony size: 2-3 mm
  • colony color: pale orange to yellow
  • colony shape: circular
  • incubation period: 5 days
  • medium used: Luria-Bertani agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7073BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 40.0 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
23293LB (Luria-Bertani) MEDIUMyes

culture temp

@refgrowthtypetemperaturerange
7073positivegrowth28mesophilic
23293positivegrowth45thermophilic
67771positivegrowth25mesophilic

culture pH

  • @ref: 23293
  • ability: positive
  • type: growth
  • pH: 5.3-9.3
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.996

halophily

@refhalophily levelsaltgrowthtested relationconcentration
23293halophilicNaClpositivegrowth3-12 %
23293NaClnogrowth0 %
23293NaClnogrowth15 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2329322599arabinose-builds acid from
2329318333D-arabitol-builds acid from
2329365327D-xylose-builds acid from
2329316813galactitol-builds acid from
2329328260galactose-builds acid from
2329315443inulin-builds acid from
2329326546rhamnose-builds acid from
2329330911sorbitol-builds acid from
2329328757fructose+builds acid from
2329317234glucose+builds acid from
2329317754glycerol+builds acid from
2329317716lactose+builds acid from
2329317306maltose+builds acid from
2329329864mannitol+builds acid from
2329337684mannose+builds acid from
2329316634raffinose+builds acid from
2329333942ribose+builds acid from
2329317992sucrose+builds acid from
2329327082trehalose+builds acid from
23293casein+hydrolysis
2329328017starch+hydrolysis

enzymes

@refvalueactivityec
23293acid phosphatase+3.1.3.2
23293alkaline phosphatase+3.1.3.1
23293alpha-chymotrypsin-3.4.21.1
23293alpha-fucosidase-3.2.1.51
23293alpha-galactosidase-3.2.1.22
23293alpha-glucosidase-3.2.1.20
23293alpha-mannosidase-3.2.1.24
23293beta-galactosidase-3.2.1.23
23293beta-glucosidase-3.2.1.21
23293beta-glucuronidase-3.2.1.31
23293cystine arylamidase-3.4.11.3
23293esterase (C 4)+
23293esterase lipase (C 8)+
23293leucine arylamidase+3.4.11.1
23293lipase (C 14)-
23293N-acetyl-beta-glucosaminidase-3.2.1.52
23293naphthol-AS-BI-phosphohydrolase+
23293trypsin-3.4.21.4
23293valine arylamidase-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture temperatureisolation procedure
7073tidal flat area of Dae-ChunChung-Nam (36° 17' 45.2" N 126° 31' 9.5" E),Republic of KoreaKORAsia36.2959126.519
23293Marine agar (Difco)25dilution plating technique
67771From west seaRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Tidal flat

taxonmaps

  • @ref: 69479
  • File name: preview.99_13127.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_240;96_6773;97_8107;98_9942;99_13127&stattab=map
  • Last taxonomy: Marinobacterium halophilum subclade
  • 16S sequence: AY563030
  • Sequence Identity:
  • Total samples: 486
  • soil counts: 21
  • aquatic counts: 390
  • animal counts: 66
  • plant counts: 9

Safety information

risk assessment

  • @ref: 7073
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7073
  • description: Marinobacterium halophilum strain mano11 16S ribosomal RNA gene, partial sequence
  • accession: AY563030
  • length: 1400
  • database: ena
  • NCBI tax ID: 267374

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacterium halophilum DSM 17586GCA_003014615scaffoldncbi267374
66792Marinobacterium halophilum strain DSM 17586267374.3wgspatric267374
66792Marinobacterium halophilum DSM 175862728369480draftimg267374

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes94.489yes
gram-positiveno99.353yes
anaerobicno95.047yes
halophileyes76.261yes
spore-formingno94.855no
glucose-utilno51.517no
aerobicyes72.888yes
thermophileno98.69no
motileyes92.696yes
glucose-fermentno86.025no

External links

@ref: 7073

culture collection no.: DSM 17586, KCTC 12240

straininfo link

  • @ref: 70139
  • straininfo: 232780

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17220446Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow Sea.Chang HW, Nam YD, Kwon HY, Park JR, Lee JS, Yoon JH, An KG, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.64505-02007Alteromonadaceae/*classification/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNAGenetics
Phylogeny18175703Marinobacterium rhizophilum sp. nov., isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica.Kim YG, Jin YA, Hwang CY, Cho BCInt J Syst Evol Microbiol10.1099/ijs.0.65176-02008Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, DNA, Bacterial/analysis, Fatty Acids/analysis, Gammaproteobacteria/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny19643903Marinobacterium maritimum sp. nov., a marine bacterium isolated from Arctic sediment.Kim SJ, Park SJ, Yoon DN, Park BJ, Choi BR, Lee DH, Roh Y, Rhee SKInt J Syst Evol Microbiol10.1099/ijs.0.009134-02009Alteromonadaceae/*classification/genetics/*isolation & purification/metabolism, Arctic Regions, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7073Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17586)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17586
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
23293Ho-Won Chang, Young-Do Nam, Hyuk-Yong Kwon, Ja Ryeong Park, Jung-Sook Lee, Jung-Hoon Yoon, Kwang-Guk An and Jin-Woo Bae10.1099/ijs.0.64505-0Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow SeaIJSEM 57: 77-80 200717220446
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
70139Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID232780.1StrainInfo: A central database for resolving microbial strain identifiers