Strain identifier

BacDive ID: 13095

Type strain: Yes

Species: Pseudomonas proteolytica

Strain history: CIP <- 2004, S. Shivaji, CCMB, Hyderabad, India: strain CMS64

NCBI tax ID(s): 219574 (species)

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

@ref: 5843

BacDive-ID: 13095

DSM-Number: 15321

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

description: Pseudomonas proteolytica DSM 15321 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from cyanobacterial mat samples.

NCBI tax id

  • NCBI tax id: 219574
  • Matching level: species

strain history

@refhistory
5843<- S. Shivaji; CMS 64
420062004, S. Shivaji, CCMB, Hyderabad, India: strain CMS64
121968CIP <- 2004, S. Shivaji, CCMB, Hyderabad, India: strain CMS64

doi: 10.13145/bacdive13095.20230509.8.1

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 proteolytica
  • full scientific name: Pseudomonas proteolytica Reddy et al. 2004

@ref: 5843

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas proteolytica

full scientific name: Pseudomonas proteolytica Reddy et al. 2004 emend. van den Beld et al. 2016

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
30011negativerod-shapedyes
121968negativerod-shapedyes

pigmentation

@refproductionname
30011no
121968noPyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5843CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
42006MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121968CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5843positivegrowth28mesophilic
30011positivegrowth04-30
30011positiveoptimum33mesophilic
42006positivegrowth25mesophilic
59225positivegrowth30mesophilic
121968positivegrowth5-30
121968nogrowth37mesophilic
121968nogrowth41thermophilic

culture pH

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

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30011aerobe
59225aerobe
121968obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
30011NaClpositivegrowth0-3 %
121968NaClpositivegrowth0-10 %

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
300115291gelatin+carbon source
3001117234glucose+carbon source
3001129987glutamate+carbon source
3001117754glycerol+carbon source
3001124996lactate+carbon source
3001129864mannitol+carbon source
3001137684mannose+carbon source
3001117268myo-inositol+carbon source
3001128044phenylalanine+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
12196816947citrate+carbon source
1219684853esculin-hydrolysis
12196817632nitrate+reduction
12196816301nitrite+reduction
12196817632nitrate+respiration

antibiotic resistance

  • @ref: 121968
  • 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
12196835581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
30011catalase+1.11.1.6
30011gelatinase+
30011cytochrome oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6
121968oxidase-
121968beta-galactosidase-3.2.1.23
121968alcohol dehydrogenase+1.1.1.1
121968gelatinase+/-
121968amylase-
121968DNase+
121968caseinase+3.4.21.50
121968catalase+1.11.1.6
121968tween esterase+
121968lecithinase+
121968lipase+
121968lysine decarboxylase-4.1.1.18
121968ornithine decarboxylase-4.1.1.17
121968protease+
121968tryptophan deaminase-
121968urease-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
121968--+++++-+-++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
5843+--+--+-+-+++-+++++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121968+++++--------------+---+--++---+++---+--+---++--+++--+--+-+++-+++--+---+++-++++++++++-+-+++++++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentcountryorigin.country
5843cyanobacterial mat samplesMcMurdoAustralia and Oceania
59225Cyanobacterial mat sampleAustralia and OceaniaAntarcticaATA
121968Cyanobacterial materialsAntarcticaAntarcticaATA

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_199.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_199&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: AJ537603
  • Sequence Identity:
  • Total samples: 8172
  • soil counts: 874
  • aquatic counts: 1631
  • animal counts: 3216
  • plant counts: 2451

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
58431Risk group (German classification)
1219681Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5843
  • description: Pseudomonas proteolytica partial 16S rRNA gene, strain CMS 64T
  • accession: AJ537603
  • length: 1512
  • database: ena
  • NCBI tax ID: 219574

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas proteolytica DSM 15321GCA_007858275contigncbi219574
66792Pseudomonas proteolytica strain DSM 15321219574.6wgspatric219574

GC content

@refGC-content
584357
3001158.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes89.422yes
gram-positiveno98.182yes
anaerobicno98.306yes
aerobicyes90.239yes
halophileno92.399no
spore-formingno95.095no
glucose-utilyes93.979yes
flagellatedyes85.736no
thermophileno99.924yes
glucose-fermentno89.073no

External links

@ref: 5843

culture collection no.: DSM 15321, CCM 7690, CCUG 51515, CMS 64, CIP 108464, MTCC 4994

straininfo link

  • @ref: 82305
  • straininfo: 132026

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
Phylogeny27259517Possible misidentification of species in the Pseudomonas fluorescens lineage as Burkholderia pseudomallei and Francisella tularensis, and emended descriptions of Pseudomonas brenneri,Pseudomonas gessardii and Pseudomonas proteolytica.van den Beld MJC, Reinders E, Notermans DW, Reubsaet FAGInt J Syst Evol Microbiol10.1099/ijsem.0.0012062016Bacterial Typing Techniques, Burkholderia pseudomallei/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Francisella tularensis/*classification/isolation & purification, Netherlands, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, *Water Microbiology, Water SupplyEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5843Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15321)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15321
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
42006Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6089
59225Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51515)https://www.ccug.se/strain?id=51515
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)
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
82305Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132026.1StrainInfo: A central database for resolving microbial strain identifiers
121968Curators of the CIPCollection of Institut Pasteur (CIP 108464)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108464