Strain identifier

BacDive ID: 13093

Type strain: Yes

Species: Pseudomonas antarctica

Strain history: CIP <- 2004, S. Shivaji, CCMB, Hyderabad, India: strain CMS 35

NCBI tax ID(s): 219572 (species)

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General

@ref: 5841

BacDive-ID: 13093

DSM-Number: 15318

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

description: Pseudomonas antarctica DSM 15318 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from cyanobacterial mat samples.

NCBI tax id

  • NCBI tax id: 219572
  • Matching level: species

strain history

@refhistory
5841<- S. Shivaji; CMS 35
400042004, S. Shivaji, CCMB, Hyderabad, India: strain CMS 35
116401CIP <- 2004, S. Shivaji, CCMB, Hyderabad, India: strain CMS 35

doi: 10.13145/bacdive13093.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Pseudomonadaceae
  • genus: Pseudomonas
  • species: Pseudomonas antarctica
  • full scientific name: Pseudomonas antarctica Reddy et al. 2004

@ref: 5841

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas antarctica

full scientific name: Pseudomonas antarctica Reddy et al. 2004

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
30011negativerod-shapedyes
116401negativerod-shapedyes

colony morphology

  • @ref: 58636
  • incubation period: 2 days

pigmentation

@refproductionname
30011no
116401noFlexirubin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5841REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)yeshttps://mediadive.dsmz.de/medium/220aName: REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a) Composition: Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
40004MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116401CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5841positivegrowth28mesophilic
30011positivegrowth04-30
30011positiveoptimum22psychrophilic
40004positivegrowth25mesophilic
58636positivegrowth20-30
116401positivegrowth5-30
116401nogrowth37mesophilic
116401nogrowth41thermophilic

culture pH

  • @ref: 30011
  • ability: positive
  • type: optimum
  • pH: 7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30011aerobe
58636aerobe
116401obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
30011NaClpositivegrowth0-3 %
116401NaClpositivegrowth0-6 %
116401NaClnogrowth8 %
116401NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3001130089acetate+carbon source
3001115963ribitol+carbon source
3001116449alanine+carbon source
3001129016arginine+carbon source
3001116947citrate+carbon source
3001128757fructose+carbon source
3001128260galactose+carbon source
3001117234glucose+carbon source
3001129987glutamate+carbon source
3001117754glycerol+carbon source
3001124996lactate+carbon source
3001129864mannitol+carbon source
3001137684mannose+carbon source
3001117268myo-inositol+carbon source
3001115361pyruvate+carbon source
3001133942ribose+carbon source
3001117822serine+carbon source
3001130911sorbitol+carbon source
3001127082trehalose+carbon source
3001116296D-tryptophan+carbon source
3001117632nitrate+reduction
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
11640116947citrate-carbon source
1164014853esculin-hydrolysis
11640117632nitrate+reduction
11640116301nitrite-reduction
11640117632nitrate-respiration

antibiotic resistance

  • @ref: 116401
  • 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
11640135581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
30011acid phosphatase+3.1.3.2
30011alkaline phosphatase+3.1.3.1
30011catalase+1.11.1.6
30011cytochrome oxidase+1.9.3.1
30011urease+3.5.1.5
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6
116401oxidase+
116401beta-galactosidase-3.2.1.23
116401alcohol dehydrogenase+1.1.1.1
116401gelatinase-
116401amylase-
116401DNase-
116401caseinase-3.4.21.50
116401catalase+1.11.1.6
116401tween esterase-
116401lecithinase-
116401lipase-
116401lysine decarboxylase-4.1.1.18
116401ornithine decarboxylase-4.1.1.17
116401protease-
116401tryptophan deaminase+
116401urease+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
116401--++-+----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
5841---+----+++++-++-++-+
5841---+----+++++-++-++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116401+++++--------------++-----+++--+++--++-++--++--+++++-+++++-++-+++------+++++++-++++++-+-+++++++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentcountryorigin.country
5841cyanobacterial mat samplesMcMurdoAustralia and Oceania
58636Cyanobacterial mat samplesAustralia and OceaniaAntarcticaATA
116401Cyanobacterial materialsAntarcticaAntarcticaATA

isolation source categories

Cat1Cat2Cat3
#Environmental#Microbial community#Microbial mat
#Host#Microbial#Bacteria

taxonmaps

  • @ref: 69479
  • File name: preview.99_168.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_168&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: AJ537601
  • Sequence Identity:
  • Total samples: 5463
  • soil counts: 555
  • aquatic counts: 976
  • animal counts: 2173
  • plant counts: 1759

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
58411Risk group (German classification)
1164011Risk group (French classification)

Sequence information

16S sequences

  • @ref: 30011
  • description: Pseudomonas antarctica 16S rRNA gene, strain CMS 35T
  • accession: AJ537601
  • length: 1511
  • database: nuccore
  • NCBI tax ID: 219572

GC content

@refGC-content
584156
3001160.7

External links

@ref: 5841

culture collection no.: DSM 15318, CCUG 49625, CIP 108466, CMS 35, MTCC 4992

straininfo link

  • @ref: 82303
  • straininfo: 131539

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15143013Psychrophilic pseudomonads from Antarctica: Pseudomonas antarctica sp. nov., Pseudomonas meridiana sp. nov. and Pseudomonas proteolytica sp. nov.Reddy GSN, Matsumoto GI, Schumann P, Stackebrandt E, Shivaji SInt J Syst Evol Microbiol10.1099/ijs.0.02827-02004Antarctic Regions, Carbon/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fresh Water/microbiology, Molecular Sequence Data, Phenotype, Phylogeny, Pseudomonas/*classification/genetics/*isolation & purification/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species SpecificityMetabolism
Phylogeny32228807Pseudomonas kitaguniensis sp. nov., a pathogen causing bacterial rot of Welsh onion in Japan.Sawada H, Fujikawa T, Nishiwaki Y, Horita HInt J Syst Evol Microbiol10.1099/ijsem.0.0041232020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Japan, Multilocus Sequence Typing, Nucleic Acid Hybridization, Onions/*microbiology, *Phylogeny, Plant Diseases/*microbiology, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny33650945Pseudomonas cyclaminis sp. nov., a pathogen causing bacterial bud blight of cyclamen in Japan.Sawada H, Fujikawa T, Osada S, Satou MInt J Syst Evol Microbiol10.1099/ijsem.0.0047232021
Phylogeny35695838Pseudomonas petroselini sp. nov., a pathogen causing bacterial rot of parsley in Japan.Sawada H, Fujikawa T, Osada S, Satou MInt J Syst Evol Microbiol10.1099/ijsem.0.0054242022Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Genes, Bacterial, Japan, *Petroselinum/genetics, Phylogeny, Pseudomonas, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5841Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15318)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15318
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
30011Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2637528776041
40004Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6091
58636Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 49625)https://www.ccug.se/strain?id=49625
68369Automatically annotated from API 20NE
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
82303Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID131539.1StrainInfo: A central database for resolving microbial strain identifiers
116401Curators of the CIPCollection of Institut Pasteur (CIP 108466)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108466