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Strain identifier

BacDive ID: 131175

Type strain: Yes

Species: Yoonia maritima

Strain history: NRIC 0919 <-- KMM 9530.

NCBI tax ID(s): 1435347 (species)

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

@ref: 22467

BacDive-ID: 131175

DSM-Number: 101533

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Yoonia maritima DSM 101533 is a mesophilic bacterium that was isolated from shallow sediment sample.

NCBI tax id

  • NCBI tax id: 1435347
  • Matching level: species

strain history

doi: 10.13145/bacdive131175.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Rhodobacteraceae
  • genus: Yoonia
  • species: Yoonia maritima
  • full scientific name: Yoonia maritima (Tanaka et al. 2014) Wirth and Whitman 2018
  • synonyms

    • @ref: 20215
    • synonym: Loktanella maritima

@ref: 22467

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Yoonia

species: Yoonia maritima

full scientific name: Yoonia maritima (Tanaka et al. 2014) Wirth and Whitman 2018

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.171

colony morphology

  • @ref: 22467
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 22467
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 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 NaHCO3 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
22467positivegrowth30mesophilic
67770positivegrowth25mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.844

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 92.526

observation

  • @ref: 67770
  • observation: quinones: Q-10

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

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
22467catalase+1.11.1.6
22467cytochrome-c oxidase+1.9.3.1
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
22467+/-++++/-+++/-+/-+/-+/-+/-+/-+/-+/-++++/-+/-

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
22467+/-----+++------------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22467shallow sediment samplePeter the Great Bay; Sea of JapanRussiaRUSAsia
67770Shallow sediment from Peter the Great BaySea of JapanRussiaRUS

isolation source categories

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

Safety information

risk assessment

  • @ref: 22467
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22467
  • description: Loktanella maritima gene for 16S ribosomal RNA, partial sequence
  • accession: AB894236
  • length: 1447
  • database: ena
  • NCBI tax ID: 1435347

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Yoonia maritima DSM 101533GCA_003003285scaffoldncbi1435347
66792Loktanella maritima strain DSM 1015331435347.4wgspatric1435347
66792Yoonia maritima DSM 1015332731639257draftimg1435347
66792Shigella flexneri K-304 K-304GCA_000213755contigpatric766149

External links

@ref: 22467

culture collection no.: DSM 101533, JCM 19807, NRIC 0919, KMM 9530, CCTCC AB 2016287

straininfo link

@refpassport
20218http://www.straininfo.net/strains/896931
20218http://www.straininfo.net/strains/896930

literature

  • topic: Phylogeny
  • Pubmed-ID: 24744019
  • title: Loktanella maritima sp. nov. isolated from shallow marine sediments.
  • authors: Tanaka N, Romanenko LA, Kurilenko VV, Svetashev VI, Kalinovskaya NI, Mikhailov VV
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.061747-0
  • year: 2014
  • mesh: DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Oceans and Seas, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Ubiquinone/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
22467Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101533Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101533)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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