Strain identifier

BacDive ID: 137570

Type strain: Yes

Species: Marinomonas primoryensis

Strain history: CIP <- 2003, JCM <- 2002, M. Uchino <- KMM

NCBI tax ID(s): 178399 (species)

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General

@ref: 38253

BacDive-ID: 137570

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

description: Marinomonas primoryensis CIP 108051 is a psychrophilic, Gram-negative, rod-shaped bacterium of the family Oceanospirillaceae.

NCBI tax id

  • NCBI tax id: 178399
  • Matching level: species

strain history

@refhistory
67770M. Uchino <-- KMM 3633.
38253CIP <- 2003, JCM <- 2002, M. Uchino <- KMM

doi: 10.13145/bacdive137570.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Oceanospirillaceae
  • genus: Marinomonas
  • species: Marinomonas primoryensis
  • full scientific name: Marinomonas primoryensis Romanenko et al. 2003

@ref: 38253

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Oceanospirillaceae

genus: Marinomonas

species: Marinomonas primoryensis

type strain: yes

Morphology

cell morphology

  • @ref: 38253
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
38253Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
38253CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13
38253CIP Medium 186yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=186

culture temp

@refgrowthtypetemperature
38253positivegrowth20
67770positivegrowth30
38253positivegrowth5-30
38253nogrowth37
38253nogrowth41

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
38253NaClpositivegrowth0-6 %
38253NaClnogrowth8 %
38253NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3825316947citrate-carbon source
382534853esculin-hydrolysis
3825317632nitrate-reduction
3825316301nitrite-reduction

antibiotic resistance

  • @ref: 38253
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 38253
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
38253oxidase+
38253beta-galactosidase+3.2.1.23
38253alcohol dehydrogenase-1.1.1.1
38253gelatinase-
38253amylase-
38253caseinase-3.4.21.50
38253catalase+1.11.1.6
38253tween esterase-
38253lecithinase-
38253lipase-
38253lysine decarboxylase-4.1.1.18
38253ornithine decarboxylase-4.1.1.17
38253protease-
38253tryptophan deaminase-
38253urease-3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382beta-glucuronidase-3.2.1.31
68382valine arylamidase-
68382esterase lipase (C 8)+

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
38253++++-+----++---+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
38253-+-+---+--+-+--+-----+---------+-----------------++-------+-+-------------++--+++-+-----+--+-------

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample typegeographic location
38253JapanJPNAsia
67770RussiaRUSCoastal sea-ice in Amursky Bay of the Sea of Japannear Vladivostok
38253JapanJPNAsiaEnvironment, Coastal sea-ice in the Sea of Japan

taxonmaps

  • @ref: 69479
  • File name: preview.99_33604.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_113;96_407;97_13476;98_20443;99_33604&stattab=map
  • Last taxonomy: Marinomonas primoryensis subclade
  • 16S sequence: LC507445
  • Sequence Identity:
  • Total samples: 1732
  • soil counts: 61
  • aquatic counts: 1313
  • animal counts: 346
  • plant counts: 12

Safety information

risk assessment

  • @ref: 38253
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Marinomonas primoryensis gene for 16S ribosomal RNA, partial sequence, strain:KMM 3633AB0741931419nuccore178399
67770Marinomonas primoryensis JCM 11775 gene for 16S ribosomal RNA, partial sequenceLC5074451463nuccore178399
124043Marinomonas primoryensis gene for 16S rRNA, partial sequence, strain: NBRC 103029.AB6819091466nuccore178399

GC content

  • @ref: 67770
  • GC-content: 45.3-45.6
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 38253

culture collection no.: CIP 108051, JCM 11775, KMM 3633, NRIC 523, IAM 15010, NBRC 103029, NRIC 0523

straininfo link

  • @ref: 94431
  • straininfo: 88299

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12807208Marinomonas primoryensis sp. nov., a novel psychrophile isolated from coastal sea-ice in the Sea of Japan.Romanenko LA, Uchino M, Mikhailov VV, Zhukova NV, Uchimura TInt J Syst Evol Microbiol10.1099/ijs.0.02280-02003Bacterial Typing Techniques, DNA, Ribosomal/analysis, Fatty Acids/analysis, Gammaproteobacteria/chemistry/*classification/genetics/*isolation & purification/physiology, Genotype, *Ice, Japan, Molecular Sequence Data, Oceans and Seas, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny15653892Marinomonas ushuaiensis sp. nov., isolated from coastal sea water in Ushuaia, Argentina, sub-Antarctica.Prabagaran SR, Suresh K, Manorama R, Delille D, Shivaji SInt J Syst Evol Microbiol10.1099/ijs.0.63363-02005Antarctic Regions, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Oceanospirillaceae/chemistry/*classification/genetics/*isolation & purification, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny31380736Marinomonas flavescens sp. nov., isolated from seawater adjacent to Fildes Peninsula, Antarctica.Hu M, Zhai Y, Zhang Y, Han X, Fang W, Fang Z, Xiao YInt J Syst Evol Microbiol10.1099/ijsem.0.0036312019Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Marinomonas/*classification/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny32650591Porin from Marine Bacterium Marinomonas primoryensis KMM 3633(T): Isolation, Physico-Chemical Properties, and Functional Activity.Novikova OD, Khomenko VA, Kim NY, Likhatskaya GN, Romanenko LA, Aksenova EI, Kunda MS, Ryzhova NN, Portnyagina OY, Solov'eva TF, Voronina OLMolecules10.3390/molecules251431312020Aquatic Organisms/*chemistry, *Bacterial Proteins/chemistry/isolation & purification, Marinomonas/*chemistry, *Porins/chemistry/isolation & purificationEnzymology

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
38253Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108051Collection of Institut Pasteur (CIP 108051)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
94431Reimer, 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-ID88299.1
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy