Strain identifier

BacDive ID: 134199

Type strain: Yes

Species: Myroides pelagicus

Strain Designation: SM1

Strain history: CIP <- 2006, IAM

NCBI tax ID(s): 270914 (species)

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

@ref: 31808

BacDive-ID: 134199

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

description: Myroides pelagicus SM1 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Seawater.

NCBI tax id

  • NCBI tax id: 270914
  • Matching level: species

strain history

@refhistory
332922006, IAM
67770IAM 15337 <-- F. Kawai SM1.
67771<- A Yokota, IAM <- F. Kawai, Okayama Univ.
121650CIP <- 2006, IAM

doi: 10.13145/bacdive134199.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Myroides
  • species: Myroides pelagicus
  • full scientific name: Myroides pelagicus Yoon et al. 2006

@ref: 31808

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Myroides

species: Myroides pelagicus

strain designation: SM1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31808negative0.5-1 µm0.2-0.3 µmrod-shapedno
67771rod-shapedno
67771negative
121650negativerod-shapedno

pigmentation

  • @ref: 31808
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
33292MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121650CIP Medium 368yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=368
121650CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
31808positivegrowth10-37
31808positiveoptimum30-37mesophilic
33292positivegrowth30mesophilic
60612positivegrowth30mesophilic
67770positivegrowth25mesophilic
67771positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
31808positivegrowth05-09alkaliphile
31808positiveoptimum07-08

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31808aerobe
60612aerobe
67771aerobe
121650obligate aerobe

spore formation

  • @ref: 31808
  • spore formation: no

halophily

  • @ref: 31808
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-9 %

observation

@refobservation
31808aggregates in chains
67770quinones: MK-6
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3180830089acetate+carbon source
3180816449alanine+carbon source
3180822653asparagine+carbon source
3180835391aspartate+carbon source
3180829987glutamate+carbon source
3180828087glycogen+carbon source
3180824996lactate+carbon source
3180825017leucine+carbon source
3180851850methyl pyruvate+carbon source
3180818257ornithine+carbon source
3180826271proline+carbon source
3180817822serine+carbon source
3180830031succinate+carbon source
3180826986threonine+carbon source
3180816704uridine+carbon source
12165017632nitrate-reduction
12165016301nitrite+reduction

metabolite production

  • @ref: 121650
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31808alkaline phosphatase+3.1.3.1
31808catalase+1.11.1.6
31808gelatinase+
31808cytochrome oxidase+1.9.3.1
121650oxidase+
121650catalase+1.11.1.6
121650urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    60612C15:00.515
    60612C16:00.416
    60612C13:0 iso7.512.612
    60612C15:0 ANTEISO0.714.711
    60612C15:0 ISO57.714.621
    60612C15:0 ISO 3OH4.216.135
    60612C16:0 3OH0.917.52
    60612C16:0 iso0.815.626
    60612C16:1 ω7c0.915.819
    60612C17:0 iso 3OH7.318.161
    60612C17:1 ω9c ISO14.116.416
    60612C18:2 ω6,9c/C18:0 ANTE0.417.724
    60612Unidentified0.511.554
    60612Unidentified0.412.944
    60612unknown 13.5663.113.566
    60612unknown 16.5800.816.58
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121650-+++-+----++--------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
60612SeawaterThailandTHAAsia
67770Seawater, off the coast of ThailandThailandTHAAsia
67771From seawaterThailandTHAAsiaoff the coast of Thiland
121650Environment, SeawaterThailandTHAAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_53994.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_195;96_674;97_30179;98_38602;99_53994&stattab=map
  • Last taxonomy: Myroides pelagicus
  • 16S sequence: AB176662
  • Sequence Identity:
  • Total samples: 615
  • soil counts: 98
  • aquatic counts: 148
  • animal counts: 352
  • plant counts: 17

Safety information

risk assessment

  • @ref: 121650
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31808
  • description: Myroides pelagicus gene for 16S rRNA
  • accession: AB176662
  • length: 1486
  • database: nuccore
  • NCBI tax ID: 270914

GC content

@refGC-contentmethod
3180833.6
6777133.6high performance liquid chromatography (HPLC)

External links

@ref: 31808

culture collection no.: IAM 15337, KCTC 12661, CCUG 55494, CIP 109324, JCM 21782, NBRC 102469

straininfo link

  • @ref: 91794
  • straininfo: 297255

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16902031Myroides pelagicus sp. nov., isolated from seawater in Thailand.Yoon J, Maneerat S, Kawai F, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.64336-02006Bacteroidetes/chemistry/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Oceans and Seas, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Thailand, Vitamin K 2/analogs & derivatives/analysis, *Water MicrobiologyGenetics
Phylogeny25515411Myroides injenensis sp. nov., a new member isolated from human urine.Paek J, Shin JH, Shin Y, Park IS, Jin TE, Kook JK, Wie SH, Cho HG, Park SJ, Chang YHAntonie Van Leeuwenhoek10.1007/s10482-014-0317-y2014Bacterial Typing Techniques, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Flavobacteriaceae Infections/*microbiology, Humans, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Urine/*microbiologyPathogenicity

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
31808Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172807728776041
33292Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7053
60612Curators of the CCUGhttps://www.ccug.se/strain?id=55494Culture Collection University of Gothenburg (CCUG) (CCUG 55494)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68382Automatically annotated from API zym
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/
91794Reimer, 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-ID297255.1
121650Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109324Collection of Institut Pasteur (CIP 109324)