Strain identifier

BacDive ID: 133324

Type strain: Yes

Species: Colwellia mytili

Strain Designation: RA2-7

NCBI tax ID(s): 1888913 (species)

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General

@ref: 25144

BacDive-ID: 133324

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

description: Colwellia mytili RA2-7 is an aerobe, psychrophilic, Gram-negative bacterium that forms circular colonies and was isolated from mussel .

NCBI tax id

  • NCBI tax id: 1888913
  • Matching level: species

doi: 10.13145/bacdive133324.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Colwelliaceae
  • genus: Colwellia
  • species: Colwellia mytili
  • full scientific name: Colwellia mytili Kim et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Cognaticolwellia mytili

@ref: 25144

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Colwelliaceae

genus: Colwellia

species: Colwellia mytili

strain designation: RA2-7

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
25144negative0.5-8.0 µm0.3-0.7 µmrod-shapedyesmonotrichous, polar
69480yes97.902
69480negative99.991

colony morphology

  • @ref: 25144
  • colony size: 0.8-1.5 mm
  • colony color: greyish-yellow
  • colony shape: circular
  • incubation period: 5 days
  • medium used: marine agar (MA)

Culture and growth conditions

culture medium

  • @ref: 25144
  • name: marine agar (MA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
25144positiveoptimum20psychrophilic
25144positivegrowth4psychrophilic
25144nogrowth28mesophilic

culture pH

@refabilitytypepH
25144positiveoptimum7.0-8.0
25144positivegrowth6
25144nogrowth5.5

Physiology and metabolism

oxygen tolerance

  • @ref: 25144
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
25144no
69481no100
69480no99.967

halophily

@refsalttested relationconcentrationgrowth
25144NaCloptimum2.0-3.0 %(w/v)
25144NaClgrowth1.5-4.0 %(w/v)positive

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
251444853esculin-hydrolysis
251445291gelatin-hydrolysis
2514417368hypoxanthine-hydrolysis
2514417895L-tyrosine-hydrolysis
2514417632nitrate-reduction
2514416199urea-hydrolysis
2514415318xanthine-hydrolysis
25144casein+hydrolysis
2514428017starch+hydrolysis
2514453426tween 80+hydrolysis

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
2514428971ampicillinyesyes10 µg (disc)
251443393carbenicillinyesyes100 µg (disc)
25144124991cefalotinyesyes30 µg (disc)
2514417698chloramphenicolyesyes100 µg (disc)
2514417833gentamicinyesyes30 µg (disc)
2514428368novobiocinyesyes5 µg (disc)
2514416869oleandomycinyesyes15 µg (disc)
2514418208penicillin gyesyes20 Unit
251448309polymyxin byesyes100 Unit
2514417076streptomycinyesyes50 µg (disc)
251446104kanamycinyesno30 µg (disc)
251446472lincomycinyesno15 µg (disc)
251447507neomycinyesno30 µg (disc)
2514427902tetracyclineyesno30 µg (disc)

enzymes

@refvalueactivityec
25144acid phosphatase+3.1.3.2
25144alkaline phosphatase+3.1.3.1
25144alpha-chymotrypsin-3.4.21.1
25144alpha-fucosidase-3.2.1.51
25144alpha-galactosidase-3.2.1.22
25144alpha-glucosidase-3.2.1.20
25144alpha-mannosidase-3.2.1.24
25144beta-galactosidase-3.2.1.23
25144beta-glucosidase-3.2.1.21
25144beta-glucuronidase-3.2.1.31
25144catalase+1.11.1.6
25144cystine arylamidase-3.4.11.3
25144cytochrome oxidase+1.9.3.1
25144esterase (C 4)+
25144esterase Lipase (C 8)+
25144leucine arylamidase+3.4.11.1
25144lipase (C 14)-
25144N-acetyl-beta-glucosaminidase-3.2.1.52
25144naphthol-AS-BI-phosphohydrolase+
25144trypsin-3.4.21.4
25144valine arylamidase-

fatty acid profile

  • @reffatty acidpercentage
    25144C10:01.7
    25144C11:0 3OH2.5
    25144C12:01.6
    25144C12:0 3OH7.1
    25144C14:03.5
    25144C15:1ω8c6.7
    25144C16:020.3
    25144C16:1ω7c / C16:1ω6c31.1
    25144C16:1ω9c8.2
    25144C17:01.6
    25144C17:1ω8c5.2
    25144C18:1ω7c4.3
  • type of FA analysis: whole cell analysis
  • incubation medium: Marine Agar (MA)
  • agar/liquid: agar
  • incubation temperature: 20
  • incubation time: 3
  • software version: Sherlock 6.2B
  • library/peak naming table: TSBA 6
  • system: MIS MIDI
  • cutoff value:
  • @reffatty acidpercentage
    25144C10:02
    25144C10:0 3OH1.1
    25144C11:0 3OH2.5
    25144C12:01.3
    25144C12:0 3OH8.2
    25144C14:05.4
    25144C15:1ω8c5.8
    25144C16:017.6
    25144C16:1ω7c / C16:1ω6c32.1
    25144C16:1ω9c9
    25144C17:01.1
    25144C17:1ω8c4.3
    25144C18:1ω7c3.7
  • type of FA analysis: whole cell analysis
  • incubation medium: Marine Agar (MA)
  • agar/liquid: agar
  • incubation temperature: 20
  • incubation time: 5
  • software version: Sherlock 6.2B
  • library/peak naming table: TSBA 6
  • system: MIS MIDI
  • cutoff value:
  • @reffatty acidpercentage
    25144C10:02.4
    25144C10:0 3OH1.2
    25144C11:0 3OH3
    25144C12:01.5
    25144C12:0 3OH9.2
    25144C14:04.6
    25144C15:1ω8c5.4
    25144C16:018.1
    25144C16:1ω7c / C16:1ω6c28.8
    25144C16:1ω9c8.2
    25144C17:01.6
    25144C17:1ω8c5.3
    25144C18:1ω7c4.2
  • type of FA analysis: whole cell analysis
  • incubation medium: Marine Agar (MA)
  • agar/liquid: agar
  • incubation temperature: 20
  • incubation time: 7
  • software version: Sherlock 6.2B
  • library/peak naming table: TSBA 6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 25144
  • sample type: mussel (Mytilus edulis)
  • geographic location: Cheongsan island in the South Sea
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia
  • enrichment culture: R2A agar (BD Difco) and marine agar 2216 (MA; BD Difco
  • enrichment culture composition: mixture (1:1, v/v)
  • enrichment culture temperature: 20
  • isolation procedure: standard dilution plating technique

isolation source categories

  • Cat1: #Host
  • Cat2: #Invertebrates (Other)
  • Cat3: #Mollusca

taxonmaps

  • @ref: 69479
  • File name: preview.99_6867.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_82;96_438;97_1201;98_5056;99_6867&stattab=map
  • Last taxonomy: Colwellia mytili
  • 16S sequence: KX450475
  • Sequence Identity:
  • Total samples: 263
  • soil counts: 1
  • aquatic counts: 259
  • animal counts: 3

Sequence information

16S sequences

  • @ref: 25144
  • description: Colwellia sp. RA2-7 16S ribosomal RNA gene, partial sequence
  • accession: KX450475
  • length: 1463
  • database: nuccore
  • NCBI tax ID: 1888913

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cognaticolwellia mytili KCTC 52417GCA_002104475scaffoldncbi1888913
66792Colwellia mytili strain KCTC 524171888913.3wgspatric1888913
66792Colwellia mytili KCTC 524172838787323draftimg1888913

GC content

  • @ref: 25144
  • GC-content: 38.96-40.04
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes88.652yes
gram-positiveno99.174no
anaerobicno97.306yes
aerobicyes67.472no
halophileyes59.152no
spore-formingno95.651no
thermophileno98.832yes
glucose-utilyes85.904no
motileyes89.435no
glucose-fermentno75.494no

External links

@ref: 25144

culture collection no.: KCTC 52417, NBRC 112381

literature

  • topic: Phylogeny
  • Pubmed-ID: 27902189
  • title: Colwellia mytili sp. nov., isolated from mussel Mytilus edulis.
  • authors: Kim YO, Park IS, Park S, Nam BH, Jung YT, Kim DG, Yoon JH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001564
  • year: 2017
  • mesh: Alteromonadaceae/*classification/genetics/isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Mytilus edulis/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
25144Y. O. P. Kim, I. S.,Park, S.,Nam, B. H.,Jung, Y. T.,Kim, D. G.,Yoon, J. H.Colwellia mytili sp. nov., isolated from mussel Mytilus edulis10.1099/ijsem.0.001564IJSEM 67: 31-36 201727902189
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
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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