Strain identifier

BacDive ID: 138182

Type strain: Yes

Species: Myroides odoratimimus

Strain Designation: CL 229/67

Strain history: CIP <- 1997, J.F. Bernardet, INRA, Jouy-en-Josas, France <- LMG <- NCTC <- M.P. Jevons: strain CL 229/67

NCBI tax ID(s): 76832 (species)

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General

@ref: 67539

BacDive-ID: 138182

DSM-Number: 112291

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

description: Myroides odoratimimus CL 229/67 is an aerobe, mesophilic, Gram-negative bacterium of the family Flavobacteriaceae.

NCBI tax id

  • NCBI tax id: 76832
  • Matching level: species

strain history

@refhistory
67539<- CCUG; CCUG 39352 <- D. Janssens, BCCM; LMG 4029
67770H. Oyaizu KS 0432 <-- NCTC 11180 <-- M. P. Jevons.
39213CIP <- 1997, J.F. Bernardet, INRA, Jouy-en-Josas, France <- LMG <- NCTC <- M.P. Jevons: strain CL 229/67

doi: 10.13145/bacdive138182.20230509.8.1

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 odoratimimus
  • full scientific name: Myroides odoratimimus Vancanneyt et al. 1996

@ref: 67539

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Myroides

species: Myroides odoratimimus subsp. odoratimimus

full scientific name: Myroides odoratimimus subsp. odoratimimus (Vancanneyt et al. 1996) García-López et al. 2020

strain designation: CL 229/67

type strain: yes

Morphology

cell morphology

  • @ref: 39213
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 39213
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39213MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
67539COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693
67539TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yesName: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/92
39213CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
39213positivegrowth30mesophilic
54757positivegrowth37mesophilic
67539positivegrowth37mesophilic
67770positivegrowth30mesophilic
39213positivegrowth5-37
39213nogrowth41thermophilic
39213nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
54757aerobe
39213obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
39213NaClpositivegrowth0-6 %
39213NaClnogrowth8 %
39213NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin+hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
3921316947citrate-carbon source
392134853esculin-hydrolysis
39213606565hippurate-hydrolysis
3921317632nitrate-builds gas from
3921317632nitrate-reduction
3921316301nitrite-builds gas from
3921316301nitrite+reduction
3921315792malonate-assimilation
3921317234glucose-degradation

antibiotic resistance

  • @ref: 39213
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
3921335581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
3921315688acetoin-
3921317234glucose-

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
39213oxidase+
39213beta-galactosidase-3.2.1.23
39213alcohol dehydrogenase-1.1.1.1
39213gelatinase+
39213amylase-
39213DNase+
39213caseinase+3.4.21.50
39213catalase+1.11.1.6
39213tween esterase-
39213gamma-glutamyltransferase+2.3.2.2
39213lecithinase-
39213lipase-
39213lysine decarboxylase-4.1.1.18
39213ornithine decarboxylase-4.1.1.17
39213phenylalanine ammonia-lyase-4.3.1.24
39213tryptophan deaminase-
39213urease+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
    54757C12:00.212
    54757C14:00.814
    54757C15:02.615
    54757C16:00.816
    54757C12:1 at 11-120.311.925
    54757C13:0 iso9.212.612
    54757C13:1 at 12-132.912.931
    54757C14:0 ISO0.713.618
    54757C14:1 ISO E0.413.388
    54757C15:0 3OH0.716.504
    54757C15:0 ANTEISO0.614.711
    54757C15:0 ISO46.914.621
    54757C15:0 ISO 3OH316.135
    54757C15:1 ISO F0.314.414
    54757C15:1 ω6c0.314.856
    54757C16:0 3OH217.52
    54757C16:0 iso0.915.626
    54757C16:0 iso 3OH0.617.145
    54757C16:1 ISO H0.215.461
    54757C16:1 ω7c2.415.819
    54757C16:1 ω7c/C15:0 ISO 2OH3.915.85
    54757C17:0 iso 3OH2.918.161
    54757C17:1 ω9c ISO7.616.416
    54757C18:1 ω5c0.217.919
    54757C18:2 ω6,9c/C18:0 ANTE0.517.724
    54757Unidentified0.312.552
    54757Unidentified0.315.952
    54757unknown 11.5412.211.541
    54757unknown 13.5665.813.566
    54757unknown 16.5800.416.58
  • 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
39213-+++-+----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
67539------+-------------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
39213-------------------------------------------------------------------------------++--------+++-------

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typeisolation date
39213LondonUnited KingdomGBREurope
54757United KingdomGBREuropeHuman wound
67539United KingdomGBREuropehuman wound
67770United KingdomGBREuropeWound swab
39213LondonUnited KingdomGBREuropeWound1967

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Other#Wound

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
675392Risk group (German classification)
392131Risk group (French classification)

Sequence information

16S sequences

  • @ref: 54757
  • description: Myroides odoratimimus partial 16S rRNA gene, type strain CCUG 39352T
  • accession: AJ854059
  • length: 1484
  • database: ena
  • NCBI tax ID: 76832

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Myroides odoratimimus NCTC11180GCA_900453765contigncbi76832
66792Myroides odoratimimus CCUG 39352GCA_001485415contigncbi76832
66792Myroides odoratimimus strain CCUG 3935276832.8wgspatric76832
66792Myroides odoratimimus strain NCTC1118076832.15wgspatric76832
66792Myroides odoratimimus NCTC 111802838958572draftimg76832
66792Myroides odoratimimus CCUG 393522713896912draftimg76832

GC content

  • @ref: 67770
  • GC-content: 31.9
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno89.886no
flagellatedno93.225no
gram-positiveno98.122no
anaerobicno99.365yes
halophileno85.224no
spore-formingno94.354no
glucose-utilyes70.518no
aerobicyes84.417yes
thermophileno99.814no
glucose-fermentno90.791yes

External links

@ref: 67539

culture collection no.: CIP 105170, NCTC 11180, LMG 4029, CCUG 39352, DSM 112291, JCM 7460, ATCC BAA 634, CCM 3298, CGMCC 1.10437

straininfo link

  • @ref: 94964
  • straininfo: 2830

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
Phylogeny18684121Myroides profundi sp. nov., isolated from deep-sea sediment of the southern Okinawa Trough.Zhang XY, Zhang YJ, Chen XL, Qin QL, Zhao DL, Li TG, Dang HY, Zhang YZFEMS Microbiol Lett10.1111/j.1574-6968.2008.01299.x2008DNA, Bacterial/genetics, Flavobacteriaceae/chemistry/*classification/genetics/*isolation & purification, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Species SpecificityGenetics
Phylogeny20495024Myroides marinus sp. nov., a member of the family Flavobacteriaceae, isolated from seawater.Cho SH, Chae SH, Im WT, Kim SBInt J Syst Evol Microbiol10.1099/ijs.0.024067-02010Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Locomotion, Molecular Sequence Data, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analysisGenetics
Phylogeny21571938Myroides phaeus sp. nov., isolated from human saliva, and emended descriptions of the genus Myroides and the species Myroides profundi Zhang et al. 2009 and Myroides marinus Cho et al. 2011.Yan S, Zhao N, Zhang XHInt J Syst Evol Microbiol10.1099/ijs.0.029215-02011Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Humans, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Saliva/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryPathogenicity
Phylogeny24158950Myroides xuanwuensis sp. nov., a mineral-weathering bacterium isolated from forest soil.Zhang ZD, He LY, Huang Z, Sheng XFInt J Syst Evol Microbiol10.1099/ijs.0.056739-02013China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26276159Myroides indicus sp. nov., isolated from garden soil.Ram H, Kumar A, Thomas L, Dastager SG, Mawlankar R, Singh VPInt J Syst Evol Microbiol10.1099/ijsem.0.0005302015Bacteria, Aerobic/genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, *Gardens, India, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
39213Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105170Collection of Institut Pasteur (CIP 105170)
54757Curators of the CCUGhttps://www.ccug.se/strain?id=39352Culture Collection University of Gothenburg (CCUG) (CCUG 39352)
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
67539Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-112291Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 112291)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
94964Reimer, 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-ID2830.1