Strain identifier

BacDive ID: 463

Type strain: Yes

Species: Marinobacterium lutimaris

Strain Designation: AN9

Strain history: <- C. O. Jeon, Chung-Ang Univ., Seoul, Republic of Korea; AN9

NCBI tax ID(s): 568106 (species)

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General

@ref: 16101

BacDive-ID: 463

DSM-Number: 22012

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

description: Marinobacterium lutimaris AN9 is a mesophilic, Gram-negative, motile bacterium that was isolated from tidal flat sediment.

NCBI tax id

  • NCBI tax id: 568106
  • Matching level: species

strain history

  • @ref: 16101
  • history: <- C. O. Jeon, Chung-Ang Univ., Seoul, Republic of Korea; AN9

doi: 10.13145/bacdive463.20230509.8.1

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 lutimaris
  • full scientific name: Marinobacterium lutimaris Kim et al. 2010

@ref: 16101

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacterium

species: Marinobacterium lutimaris

full scientific name: Marinobacterium lutimaris Kim et al. 2010

strain designation: AN9

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29578negative1.3 µm0.7 µmrod-shapedyes
69480yes97.437
69480negative99.997

Culture and growth conditions

culture medium

  • @ref: 16101
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
16101positivegrowth28mesophilic
29578positivegrowth15-40
29578positiveoptimum27.5mesophilic

culture pH

@refabilitytypepH
29578positivegrowth06-08
29578positiveoptimum7

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.991

halophily

  • @ref: 29578
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2957830089acetate+carbon source
2957821217L-alaninamide+carbon source
2957816449alanine+carbon source
2957822653asparagine+carbon source
2957835391aspartate+carbon source
2957816947citrate+carbon source
2957815740formate+carbon source
2957829987glutamate+carbon source
2957828087glycogen+carbon source
2957824996lactate+carbon source
2957815792malonate+carbon source
2957826271proline+carbon source
2957817272propionate+carbon source
2957817148putrescine+carbon source
2957851850methyl pyruvate+carbon source
2957826490quinate+carbon source
2957817822serine+carbon source
2957830031succinate+carbon source
2957853423tween 40+carbon source
2957853426tween 80+carbon source

enzymes

@refvalueactivityec
29578acid phosphatase+3.1.3.2
29578alkaline phosphatase+3.1.3.1
29578catalase+1.11.1.6
29578cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 16101
  • sample type: tidal flat sediment
  • geographic location: Taean coast
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Tidal flat
#Environmental#Terrestrial#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_37891.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_240;96_16586;97_22145;98_27833;99_37891&stattab=map
  • Last taxonomy: Marinobacterium lutimaris
  • 16S sequence: FJ230839
  • Sequence Identity:
  • Total samples: 80
  • soil counts: 1
  • aquatic counts: 79

Safety information

risk assessment

  • @ref: 16101
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16101
  • description: Marinobacterium lutimaris strain AN9 16S ribosomal RNA gene, partial sequence
  • accession: FJ230839
  • length: 1427
  • database: ena
  • NCBI tax ID: 568106

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacterium lutimaris DSM 22012GCA_900108065scaffoldncbi568106
66792Marinobacterium lutimaris strain DSM 22012568106.5wgspatric568106
66792Marinobacterium lutimaris DSM 220122693429862draftimg568106

GC content

@refGC-contentmethod
1610158.0high performance liquid chromatography (HPLC)
2957858

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentno81.995no
motileyes92.707yes
flagellatedyes90.428no
gram-positiveno99.072no
anaerobicno97.757no
aerobicyes69.898no
halophileyes84.231yes
spore-formingno95.967no
thermophileno99.708yes
glucose-utilyes84.998no

External links

@ref: 16101

culture collection no.: DSM 22012, KACC 13703

straininfo link

  • @ref: 70142
  • straininfo: 400163

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19767363Marinobacterium lutimaris sp. nov., isolated from a tidal flat.Kim JM, Lee SH, Jung JY, Jeon COInt J Syst Evol Microbiol10.1099/ijs.0.016246-02009Alteromonadaceae/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism
Phylogeny25217624Marinobacterium mangrovicola sp. nov., a marine nitrogen-fixing bacterium isolated from mangrove roots of Rhizophora mangle.Alfaro-Espinoza G, Ullrich MSInt J Syst Evol Microbiol10.1099/ijs.0.067462-02014Alteromonadaceae/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Rhizophoraceae/*microbiology, Seawater, Sequence Analysis, DNA, Ubiquinone/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
16101Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22012)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22012
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
29578Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2597128776041
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
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
70142Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400163.1StrainInfo: A central database for resolving microbial strain identifiers