Strain identifier

BacDive ID: 12693

Type strain: Yes

Species: Pseudoalteromonas agarivorans

Strain history: CIP <- 2004, DSMZ <- L.A. Romanenko, Russian Academy Sciences, Vladivostok, Russia

NCBI tax ID(s): 1312369 (strain), 176102 (species)

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General

@ref: 5394

BacDive-ID: 12693

DSM-Number: 14585

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile

description: Pseudoalteromonas agarivorans DSM 14585 is an obligate aerobe, mesophilic, motile bacterium that was isolated from ascidian Polysyncraton sp..

NCBI tax id

NCBI tax idMatching level
1312369strain
176102species

strain history

@refhistory
5394<- L. A. Romanenko
116153CIP <- 2004, DSMZ <- L.A. Romanenko, Russian Academy Sciences, Vladivostok, Russia

doi: 10.13145/bacdive12693.20230509.8.1

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 agarivorans
  • full scientific name: Pseudoalteromonas agarivorans Romanenko et al. 2003

@ref: 5394

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Pseudoalteromonadaceae

genus: Pseudoalteromonas

species: Pseudoalteromonas agarivorans

full scientific name: Pseudoalteromonas agarivorans Romanenko et al. 2003

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes97.99
6948099.997negative
116153yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5394BACTO 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
42047Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
116153CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
5394positivegrowth25mesophilic
42047positivegrowth25mesophilic
116153positivegrowth5-37
116153nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116153
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.989

halophily

@refsaltgrowthtested relationconcentration
116153NaClpositivegrowth2-10 %
116153NaClnogrowth0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1161534853esculin+hydrolysis
11615317632nitrate+reduction
11615316301nitrite-reduction
11615317632nitrate-respiration

metabolite production

  • @ref: 116153
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
116153oxidase+
116153beta-galactosidase+3.2.1.23
116153alcohol dehydrogenase-1.1.1.1
116153gelatinase+
116153amylase+
116153caseinase+3.4.21.50
116153catalase+1.11.1.6
116153tween esterase+
116153lecithinase-
116153lipase-
116153lysine decarboxylase-4.1.1.18
116153ornithine decarboxylase-4.1.1.17
116153protease+
116153tryptophan deaminase-
116153urease-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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116153-+++-++---++++-+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116153+++++-++-++++++-+-+------------+-+-------------------------------------------------------+++-++--+-

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
5394ascidian Polysyncraton sp.PolysyncratonIndian OceanRussiaRUSAsia
116153Ascidian Polysyncraton sp.

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Tunicata

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: AJ417594
  • Sequence Identity:
  • Total samples: 3222
  • soil counts: 24
  • aquatic counts: 2792
  • animal counts: 384
  • plant counts: 22

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
53941Risk group (German classification)
1161531Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Pseudoalteromonas agarovorans 16S rRNA gene, strain KMM 255
  • accession: AJ417594
  • length: 1505
  • database: ena
  • NCBI tax ID: 1312369

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudoalteromonas agarivorans DSM 14585GCA_002310855completencbi1312369
66792Pseudoalteromonas agarivorans DSM 145851312369.5completepatric1312369
66792Pseudoalteromonas agarivorans DSM 145852802429659completeimg1312369

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes85.474no
gram-positiveno99.011no
anaerobicno98.085no
aerobicyes91.048no
halophileyes62.673no
spore-formingno96.246no
glucose-utilyes92.321no
thermophileno99.121yes
motileyes90.989no
glucose-fermentno76.738no

External links

@ref: 5394

culture collection no.: DSM 14585, CIP 108357, KMM 255

straininfo link

  • @ref: 81905
  • straininfo: 88293

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12656163Pseudoalteromonas agarivorans sp. nov., a novel marine agarolytic bacterium.Romanenko LA, Zhukova NV, Rohde M, Lysenko AM, Mikhailov VV, Stackebrandt EInt J Syst Evol Microbiol10.1099/ijs.0.02234-02003Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Microscopy, Electron, Molecular Sequence Data, Phenotype, Phospholipids/analysis, Phylogeny, Pseudoalteromonas/*classification/genetics/isolation & purification/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Species SpecificityGenetics
Phylogeny25837832The Pathogen of the Great Barrier Reef Sponge Rhopaloeides odorabile Is a New Strain of Pseudoalteromonas agarivorans Containing Abundant and Diverse Virulence-Related Genes.Choudhury JD, Pramanik A, Webster NS, Llewellyn LE, Gachhui R, Mukherjee JMar Biotechnol (NY)10.1007/s10126-015-9627-y2015Animals, Bacterial Secretion Systems/genetics, Base Sequence, Cluster Analysis, Collagenases/genetics, Computational Biology, *Coral Reefs, DNA Gyrase/genetics, Metalloproteases/genetics, Microscopy, Electron, Transmission, Molecular Sequence Data, Multigene Family/genetics, Nucleic Acid Hybridization, Pacific Ocean, *Phenotype, Phylogeny, Porifera/*microbiology, Pseudoalteromonas/cytology/*genetics/*pathogenicity, Queensland, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Serine Proteases/genetics, Species Specificity, VirulenceGenetics
Enzymology26257375The O-specific polysaccharide from the marine bacterium Pseudoalteromonas agarivorans KMM 255(T).Komandrova NA, Kokoulin MS, Kalinovskiy AI, Tomshich SV, Romanenko LA, Vaskovsky VECarbohydr Res10.1016/j.carres.2015.07.0082015Carbohydrate Sequence, Magnetic Resonance Spectroscopy, O Antigens/*chemistry/isolation & purification, Pseudoalteromonas/*chemistryPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5394Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14585)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14585
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
42047Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5970
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
81905Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID88293.1StrainInfo: A central database for resolving microbial strain identifiers
116153Curators of the CIPCollection of Institut Pasteur (CIP 108357)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108357