Strain identifier

BacDive ID: 131080

Type strain: Yes

Species: Pseudoalteromonas distincta

Strain Designation: 40MC

Strain history: CIP <- 1997, E. Ivanova, Sci. Acad., Vladivostok, Russia <- V.V. Mikhailov: strain 40MC

NCBI tax ID(s): 77608 (species)

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General

@ref: 22372

BacDive-ID: 131080

DSM-Number: 12747

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

description: Pseudoalteromonas distincta 40MC is an aerobe, psychrophilic, Gram-negative plant pathogen that was isolated from mussel .

NCBI tax id

  • NCBI tax id: 77608
  • Matching level: species

strain history

@refhistory
22372<- L. A. Romanenko, Inst. Marine Biol. FEB RAS, Vladivostok; KMM 162 <- V. V. Mikhailov, Inst. Marine Biol. FEB RAS, Vladivostok
119021CIP <- 1997, E. Ivanova, Sci. Acad., Vladivostok, Russia <- V.V. Mikhailov: strain 40MC

doi: 10.13145/bacdive131080.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Pseudoalteromonadaceae
  • genus: Pseudoalteromonas
  • species: Pseudoalteromonas distincta
  • full scientific name: Pseudoalteromonas distincta (Romanenko et al. 1995) Ivanova et al. 2000

  • synonyms

    @refsynonym
    20215Pseudoalteromonas elyakovii
    20215Alteromonas elyakovii
    20215Alteromonas distincta
    20215Pseudoalteromonas paragorgicola

@ref: 22372

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Pseudoalteromonadaceae

genus: Pseudoalteromonas

species: Pseudoalteromonas elyakovii

full scientific name: Pseudoalteromonas elyakovii (Ivanova et al. 1997) Sawabe et al. 2000

strain designation: 40MC

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
125438yes90.743
125438100negative
12543996.9negative
119021yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22372BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
42036Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119021CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperature
22372positivegrowth20
42036positivegrowth25
56346positivegrowth30
119021positivegrowth5-30
119021nogrowth37
119021nogrowth41

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
56346aerobe
125439obligate aerobe97.8

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 96.5

halophily

@refsaltgrowthtested relationconcentration
119021NaClpositivegrowth2-8 %
119021NaClnogrowth0 %
119021NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1190214853esculin+hydrolysis
11902117632nitrate-reduction
11902116301nitrite-reduction

metabolite production

  • @ref: 119021
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-glucosidase-3.2.1.20
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382lipase (C 14)-
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
119021oxidase+
119021beta-galactosidase+3.2.1.23
119021alcohol dehydrogenase-1.1.1.1
119021gelatinase-
119021amylase+
119021caseinase+3.4.21.50
119021catalase+1.11.1.6
119021tween esterase+
119021lecithinase+
119021lipase+
119021lysine decarboxylase-4.1.1.18
119021ornithine decarboxylase-4.1.1.17
119021tryptophan deaminase-
119021urease-3.5.1.5
68382alpha-galactosidase-3.2.1.22

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    56346C12:01.512
    56346C13:00.613
    56346C14:00.414
    56346C15:06.515
    56346C16:013.516
    56346C17:06.117
    56346C18:00.618
    56346C10:0 3OH0.511.423
    56346C11:0 3OH112.441
    56346C12:0 3OH3.313.455
    56346C12:0 ISO 3OH0.613.098
    56346C13:0 3OH/C15:1 i I/H114.469
    56346C13:0 ISO 2OH0.613.814
    56346C14:0 ISO 3OH0.515.117
    56346C15:0 ISO 3OH2.416.135
    56346C15:1 ω6c1.514.856
    56346C15:1 ω8c614.792
    56346C16:0 iso1.215.626
    56346C16:1 ω7c23.715.819
    56346C16:1 ω7c/C15:0 ISO 2OH6.615.85
    56346C16:1 ω9c0.815.774
    56346C17:0 anteiso0.516.722
    56346C17:0 iso0.716.629
    56346C17:1 ω7c3.416.818
    56346C17:1 ω8c1116.792
    56346C18:1 ω7c /12t/9t2.417.824
    56346C18:1 ω9c0.417.769
    56346Unidentified0.812.78
    56346Unidentified1.416.299
    56346unknown 11.7980.611.798
  • 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
119021-+-+-+----++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119021---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
22372mussel (Crenomytilus grayanus)Crenomytilus grayanusPeter the Great BayRussiaRUSAsia
56346Far-East mussel,Crenomytilus grayanusTroitsa Bay (Peter the Great Bay)RussiaRUSAsia
119021Mussel, Crenomytilus grayanusSea of Japan1985

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_1002.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_57;96_122;97_129;98_145;99_1002&stattab=map
  • Last taxonomy: Pseudoalteromonas
  • 16S sequence: AF082562
  • Sequence Identity:
  • Total samples: 3222
  • soil counts: 24
  • aquatic counts: 2792
  • animal counts: 384
  • plant counts: 22

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
22372yes1Risk group (German classification)
1190211Risk group (French classification)

Sequence information

16S sequences

  • @ref: 22372
  • description: Alteromonas elyakovii 16S ribosomal RNA gene, partial sequence
  • accession: AF082562
  • length: 1494
  • database: nuccore
  • NCBI tax ID: 81037

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudoalteromonas elyakovii ATCC 70051981037.3wgspatric81037
66792Pseudoalteromonas elyakovii ATCC 7005192627853893draftimg81037

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno100no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.061yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes71.802yes
125438spore-formingspore-formingAbility to form endo- or exosporesno87.998no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99.435yes
125438motile2+flagellatedAbility to perform flagellated movementyes90.743no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno96.5
125439BacteriaNetmotilityAbility to perform movementyes73.2
125439BacteriaNetgram_stainReaction to gram-stainingnegative96.9
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe97.8

External links

@ref: 22372

culture collection no.: DSM 12747, ATCC 700519, VKPM B 3905, CCUG 44496, KMM 162, CIP 105338, VKPM B3905

straininfo link

  • @ref: 89543
  • straininfo: 10038

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10826813Assignment of Alteromonas elyakovii KMM 162T and five strains isolated from spot-wounded fronds of Laminaria japonica to Pseudoalteromonas elyakovii comb. nov. and the extended description of the species.Sawabe T, Tanaka R, Iqbal MM, Tajima K, Ezura Y, Ivanova EP, Christen RInt J Syst Evol Microbiol10.1099/00207713-50-1-2652000Alteromonas/*classification/cytology/genetics/physiology, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Gammaproteobacteria/*classification/cytology/genetics/physiology, Laminaria/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water MicrobiologyGenetics
Phylogeny18768597Pseudoalteromonas arctica sp. nov., an aerobic, psychrotolerant, marine bacterium isolated from Spitzbergen.Al Khudary R, Stosser NI, Qoura F, Antranikian GInt J Syst Evol Microbiol10.1099/ijs.0.64963-02008Anaerobiosis, Arctic Regions, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, Carboxylic Acids/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flagella, Genes, rRNA, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pseudoalteromonas/*classification/genetics/*isolation & purification/physiology, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, TemperatureMetabolism

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
22372Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-12747Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12747)
42036Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17347
56346Curators of the CCUGhttps://www.ccug.se/strain?id=44496Culture Collection University of Gothenburg (CCUG) (CCUG 44496)
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
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/
89543Reimer, 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-ID10038.1
119021Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105338Collection of Institut Pasteur (CIP 105338)
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG