Strain identifier

BacDive ID: 13092

Type strain: Yes

Species: Pseudomonas lurida

Strain Designation: P 513/18, P513/18

Strain history: CIP <- 2007, DSMZ <- U. Behrendt, ZALF, Müncheberg, Germany: strain P513/18

NCBI tax ID(s): 244566 (species)

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General

@ref: 6048

BacDive-ID: 13092

DSM-Number: 15835

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

description: Pseudomonas lurida P 513/18 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from phyllosphere of grasses.

NCBI tax id

  • NCBI tax id: 244566
  • Matching level: species

strain history

@refhistory
6048<- U. Behrendt, ZALF Müncheberg; P 513/18
120677CIP <- 2007, DSMZ <- U. Behrendt, ZALF, Müncheberg, Germany: strain P513/18

doi: 10.13145/bacdive13092.20230509.8.1

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 lurida
  • full scientific name: Pseudomonas lurida Behrendt et al. 2007

@ref: 6048

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas lurida

full scientific name: Pseudomonas lurida Behrendt et al. 2007

strain designation: P 513/18, P513/18

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
32005negativerod-shapedyes
120677negativerod-shapedyes

pigmentation

  • @ref: 32005
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6048REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
37793MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120677CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6048positivegrowth28mesophilic
32005positiveoptimum21psychrophilic
37793positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120677
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 32005
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3200516000ethanolamine+carbon source
3200530089acetate+carbon source
3200515963ribitol+carbon source
3200521217L-alaninamide+carbon source
3200516449alanine+carbon source
32005286442-oxopentanoate+carbon source
3200522599arabinose+carbon source
3200518403L-arabitol+carbon source
3200522653asparagine+carbon source
3200535391aspartate+carbon source
3200516947citrate+carbon source
3200515740formate+carbon source
3200528757fructose+carbon source
3200528260galactose+carbon source
3200524175galacturonate+carbon source
320055291gelatin+carbon source
3200524265gluconate+carbon source
3200517234glucose+carbon source
3200532323glucuronamide+carbon source
3200529987glutamate+carbon source
3200517754glycerol+carbon source
3200527570histidine+carbon source
32005182404-hydroxy-L-proline+carbon source
3200517596inosine+carbon source
3200517240itaconate+carbon source
3200524996lactate+carbon source
3200525017leucine+carbon source
3200515792malonate+carbon source
3200529864mannitol+carbon source
3200537684mannose+carbon source
3200551850methyl pyruvate+carbon source
3200517268myo-inositol+carbon source
32005506227N-acetylglucosamine+carbon source
3200518257ornithine+carbon source
3200526271proline+carbon source
3200517272propionate+carbon source
3200517148putrescine+carbon source
3200526546rhamnose+carbon source
3200517822serine+carbon source
3200530911sorbitol+carbon source
3200530031succinate+carbon source
3200526986threonine+carbon source
3200527082trehalose+carbon source
3200553425tween 60+carbon source
3200527248urocanic acid+carbon source
3200518222xylose+carbon source
12067717632nitrate-reduction
12067716301nitrite-reduction

metabolite production

  • @ref: 120677
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
32005catalase+1.11.1.6
32005gelatinase+
32005cytochrome oxidase+1.9.3.1
120677oxidase+
120677catalase+1.11.1.6
120677urease-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
120677-+++-+--+-++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6048phyllosphere of grassesPaulinenaueGermanyDEUEurope
120677Phyllosphere of grassesPaulinenaueGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Leaf (Phyllosphere)

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: AJ581999
  • 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
60481Risk group (German classification)
1206771Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6048
  • description: Pseudomonas lurida partial 16S rRNA gene, type strain DSM 15835T
  • accession: AJ581999
  • length: 1529
  • database: ena
  • NCBI tax ID: 244566

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas lurida LMG 21995GCA_002563895contigncbi244566
66792Pseudomonas lurida strain LMG 21995244566.18wgspatric244566
66792Pseudomonas lurida LMG 219952616644927draftimg244566

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes92.062yes
gram-positiveno98.385yes
anaerobicno98.267no
aerobicyes94.348no
halophileno88.993no
spore-formingno96.258yes
glucose-utilyes94.222yes
thermophileno99.887no
flagellatedyes82.483no
glucose-fermentno89.206no

External links

@ref: 6048

culture collection no.: DSM 15835, CIP 109623, LMG 21995

straininfo link

  • @ref: 82302
  • straininfo: 101141

literature

  • topic: Phylogeny
  • Pubmed-ID: 17473245
  • title: Pseudomonas lurida sp. nov., a fluorescent species associated with the phyllosphere of grasses.
  • authors: Behrendt U, Ulrich A, Schumann P, Meyer JM, Sproer C
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64793-0
  • year: 2007
  • mesh: Amino Acids/metabolism, Bacterial Typing Techniques, Cluster Analysis, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Poaceae/*microbiology, Pseudomonas/*classification/genetics/*isolation & purification/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6048Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15835)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15835
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
32005Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2825928776041
37793Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7387
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
82302Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID101141.1StrainInfo: A central database for resolving microbial strain identifiers
120677Curators of the CIPCollection of Institut Pasteur (CIP 109623)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109623