Strain identifier

BacDive ID: 5721

Type strain: Yes

Species: Lutibacter maritimus

Strain Designation: S7-2

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 593133 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 17679

BacDive-ID: 5721

DSM-Number: 24450

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

description: Lutibacter maritimus S7-2 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from tidal flat sediment.

NCBI tax id

  • NCBI tax id: 593133
  • Matching level: species

strain history

@refhistory
17679<- CCUG <- J.-H. Yoon <- S. Park, KRIBB
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive5721.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Lutibacter
  • species: Lutibacter maritimus
  • full scientific name: Lutibacter maritimus Park et al. 2010

@ref: 17679

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Lutibacter

species: Lutibacter maritimus

full scientific name: Lutibacter maritimus Park et al. 2010

strain designation: S7-2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29402negative3 µm0.55 µmrod-shapedno
67771negative
69480negative99.989

pigmentation

  • @ref: 29402
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17679
  • name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514c
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c) Composition: NaCl 19.45 g/l Agar 18.0 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 Na2CO3 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
17679positivegrowth28mesophilic
29402positivegrowth04-37
29402positiveoptimum27.5mesophilic
61358positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepH
29402positivegrowth05-08
29402positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29402aerobe
61358aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.978

halophily

@refsaltgrowthtested relationconcentration
29402NaClpositivegrowth0.5-5 %
29402NaClpositiveoptimum2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2940217057cellobiose+carbon source
2940228260galactose+carbon source
2940217234glucose+carbon source
2940217306maltose+carbon source

enzymes

  • @ref: 29402
  • value: acid phosphatase
  • activity: +
  • ec: 3.1.3.2

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
17679tidal flat sedimentSaemankumRepublic of KoreaKORAsia
61358Tidal flat sedimentSaemankumRepublic of KoreaKORAsia2006-01-01
67771From tidelandSaemangeumRepublic of KoreaKORAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_114480.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_333;96_2985;97_58389;98_77487;99_114480&stattab=map
  • Last taxonomy: Lutibacter maritimus subclade
  • 16S sequence: FJ598048
  • Sequence Identity:
  • Total samples: 144
  • soil counts: 8
  • aquatic counts: 129
  • animal counts: 1
  • plant counts: 6

Safety information

risk assessment

  • @ref: 17679
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17679
  • description: Lutibacter maritimus strain S7-2 16S ribosomal RNA gene, partial sequence
  • accession: FJ598048
  • length: 1436
  • database: ena
  • NCBI tax ID: 593133

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lutibacter maritimus DSM 24450GCA_900116115scaffoldncbi593133
66792Lutibacter maritimus strain DSM 24450593133.4wgspatric593133
66792Lutibacter maritimus DSM 244502622736611draftimg593133

GC content

@refGC-contentmethod
1767934.6high performance liquid chromatography (HPLC)
2940234.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.807yes
flagellatedno96.998yes
gram-positiveno98.676yes
anaerobicno97.164no
aerobicyes80.064yes
halophileno86.466no
spore-formingno96.769no
glucose-fermentno89.057no
thermophileno94.231yes
glucose-utilyes83.564yes

External links

@ref: 17679

culture collection no.: DSM 24450, CCUG 57524, KCTC 22635

straininfo link

  • @ref: 75201
  • straininfo: 397176

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19654353Lutibacter maritimus sp. nov., isolated from a tidal flat sediment.Park S, Kang SJ, Oh TK, Yoon JHInt J Syst Evol Microbiol10.1099/ijs.0.012401-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Flavobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism
Phylogeny21460139Lutibacter aestuarii sp. nov., isolated from a tidal flat sediment, and emended description of the genus Lutibacter Choi and Cho 2006.Lee SY, Lee MH, Oh TK, Yoon JHInt J Syst Evol Microbiol10.1099/ijs.0.030320-02011Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Flavobacteriaceae/chemistry/*classification/genetics/*isolation & purification, Genes, rRNA, Geologic Sediments/*microbiology, Lipids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17679Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24450)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24450
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
29402Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2580928776041
61358Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57524)https://www.ccug.se/strain?id=57524
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
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
75201Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397176.1StrainInfo: A central database for resolving microbial strain identifiers