Strain identifier

BacDive ID: 134341

Type strain: Yes

Species: Muricauda lutimaris

Strain Designation: SMK-108

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 475082 (species)

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General

@ref: 32541

BacDive-ID: 134341

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-negative, rod-shaped

description: Muricauda lutimaris SMK-108 is a facultative anaerobe, Gram-negative, rod-shaped bacterium that was isolated from tidal flat.

NCBI tax id

  • NCBI tax id: 475082
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- JH Yoon, KRIBB

doi: 10.13145/bacdive134341.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Muricauda
  • species: Muricauda lutimaris
  • full scientific name: Muricauda lutimaris Yoon et al. 2008

  • synonyms

    • @ref: 20215
    • synonym: Allomuricauda lutimaris

@ref: 32541

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Muricauda

species: Muricauda lutimaris

strain designation: SMK-108

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32541negative0.8-10 µm0.2-0.4 µmrod-shapedno
67771rod-shapedno
67771negative
69480negative99.969

colony morphology

  • @ref: 60526
  • incubation period: 2 days

pigmentation

  • @ref: 32541
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
32541positivegrowth10-38
32541positiveoptimum30mesophilic
60526positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepH
32541positivegrowth05-08
32541positiveoptimum07-08

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32541facultative anaerobe
60526aerobe
67771aerobe

spore formation

@refspore formationconfidence
32541no
69481no100
69480no99.996

halophily

@refsaltgrowthtested relationconcentration
32541NaClpositivegrowth0-10 %
32541NaClpositiveoptimum0-10 %

observation

@refobservation
32541aggregates in chains
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3254122599arabinose+carbon source
3254117306maltose+carbon source
3254117814salicin+carbon source
3254127082trehalose+carbon source

enzymes

  • @ref: 32541
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinent
32541tidal flat
60526Tidal flat sediment2005Saemankum,Yellow SeaRepublic of KoreaKORAsia
67771From tidelandSaemankumRepublic of KoreaKORAsia

isolation source categories

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

Sequence information

16S sequences

  • @ref: 32541
  • description: Muricauda lutimaris strain SMK-108 16S ribosomal RNA gene, partial sequence
  • accession: EU156065
  • length: 1481
  • database: nuccore
  • NCBI tax ID: 475082

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Allomuricauda lutimaris KCTC 22173GCA_003581615scaffoldncbi475082
66792Muricauda lutimaris strain KCTC 22173475082.4wgspatric475082
66792Muricauda lutimaris KCTC 221732840458382draftimg475082

GC content

  • @ref: 67771
  • GC-content: 41.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.979yes
flagellatedno96.88no
gram-positiveno97.967yes
anaerobicno97.933no
aerobicyes76.197no
halophileno79.908no
spore-formingno96.854yes
thermophileno98.004yes
glucose-utilyes84.703no
glucose-fermentno87.833no

External links

@ref: 32541

culture collection no.: KCTC 22173, CCUG 55324

straininfo link

  • @ref: 91904
  • straininfo: 408672

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18599702Muricauda lutimaris sp. nov., isolated from a tidal flat of the Yellow Sea.Yoon JH, Kang SJ, Jung YT, Oh TKInt J Syst Evol Microbiol10.1099/ijs.0.65659-02008Fatty Acids/metabolism, Flavobacteriaceae/chemistry/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Oceans and Seas, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Species SpecificityGenetics
Phylogeny23291883Muricauda taeanensis sp. nov., isolated from a marine tidal flat.Kim JM, Jin HM, Jeon COInt J Syst Evol Microbiol10.1099/ijs.0.047647-02013Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny23543499Muricauda antarctica sp. nov., a marine member of the Flavobacteriaceae isolated from Antarctic seawater.Wu YH, Yu PS, Zhou YD, Xu L, Wang CS, Wu M, Oren A, Xu XWInt J Syst Evol Microbiol10.1099/ijs.0.048355-02013Antarctic Regions, Bacterial Typing Techniques, Base Composition, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Xanthophylls/analysis, ZeaxanthinsGenetics
Phylogeny32496184Muricauda oceani sp. nov., isolated from the East Pacific Ocean.Dong B, Zhu S, Chen T, Ren N, Chen X, Chen Y, Xue Z, Shen X, Huang Y, Yang J, Chen JInt J Syst Evol Microbiol10.1099/ijsem.0.0042412020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Pacific Ocean, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny33095696Muricauda maritima sp. nov., Muricauda aequoris sp. nov. and Muricauda oceanensis sp. nov., three marine bacteria isolated from seawater.Guo LL, Wu D, Sun C, Cheng H, Xu XW, Wu M, Wu YHInt J Syst Evol Microbiol10.1099/ijsem.0.0045222020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, Nucleic Acid Hybridization, Pacific Ocean, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35103584Muricauda aurea sp. nov. and Muricauda profundi sp. nov., two marine bacteria isolated from deep sea sediment of Pacific Ocean.Zhao S, Liu R, Lai Q, Shao ZInt J Syst Evol Microbiol10.1099/ijsem.0.0052172022Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Pacific Ocean, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Seawater/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35984503Muricauda lutisoli sp. nov., isolated from mudflat.Jeong J, Weerawongwiwat V, Kim JH, Sukhoom A, Kim K, Kim WArch Microbiol10.1007/s00203-022-03185-12022Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, *Fatty Acids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, *Seawater/microbiology, Sequence Analysis, DNA, Vitamin K 2/analysisTranscriptome

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
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
32541Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172875928776041
60526Curators of the CCUGhttps://www.ccug.se/strain?id=55324Culture Collection University of Gothenburg (CCUG) (CCUG 55324)
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
91904Reimer, 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-ID408672.1