Strain identifier

BacDive ID: 5052

Type strain: Yes

Species: Photorhabdus tasmaniensis

Strain Designation: T327

Strain history: CIP <- 2009, P. Tailliez, EMIP-UMII INRA, Montpellier Univ., Montpellier, France: strain T327

NCBI tax ID(s): 1004159 (species)

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General

@ref: 16253

BacDive-ID: 5052

DSM-Number: 22387

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile, animal pathogen

description: Photorhabdus tasmaniensis T327 is a facultative anaerobe, mesophilic, motile animal pathogen that was isolated from nematode Heterorhabditis zealandica.

NCBI tax id

  • NCBI tax id: 1004159
  • Matching level: species

strain history

@refhistory
16253<- P. Tailliez, INRA, Univ. Montpellier, France; T327 <- N. E. Boemare <- R. J. Akhurst
123433CIP <- 2009, P. Tailliez, EMIP-UMII INRA, Montpellier Univ., Montpellier, France: strain T327

doi: 10.13145/bacdive5052.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Morganellaceae
  • genus: Photorhabdus
  • species: Photorhabdus tasmaniensis
  • full scientific name: Photorhabdus tasmaniensis (Tailliez et al. 2010) Machado et al. 2018

  • synonyms

    • @ref: 20215
    • synonym: Photorhabdus temperata subsp. tasmaniensis

@ref: 16253

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Morganellaceae

genus: Photorhabdus

species: Photorhabdus tasmaniensis

full scientific name: Photorhabdus tasmaniensis (Tailliez et al. 2010) Machado et al. 2018

strain designation: T327

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.964
6948099.887negative
123433yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16253NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Agar 15.0 g/l NaCl 5.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
37890MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123433CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
16253positivegrowth28mesophilic
37890positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123433
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.211

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12343317632nitrate-reduction
12343316301nitrite-reduction

metabolite production

  • @ref: 123433
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
123433oxidase-
123433catalase+1.11.1.6
123433urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123433-+---+-----------+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
16253nematode Heterorhabditis zealandicaHeterorhabditis zealandicaNicholls Rivulet, TasmaniaAustraliaAUSAustralia and Oceania
123433Animal, Nematode, Heterorhabditis zealandicaTasmaniaAustraliaAUSAustralia and Oceania1988

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_15786.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_1046;97_1261;98_11906;99_15786&stattab=map
  • Last taxonomy: Photorhabdus
  • 16S sequence: EU930339
  • Sequence Identity:
  • Total samples: 2
  • aquatic counts: 1
  • plant counts: 1

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
16253yes1Risk group (German classification)
1234331Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16253
  • description: Photorhabdus temperata strain T327 16S ribosomal RNA gene, partial sequence
  • accession: EU930339
  • length: 1379
  • database: ena
  • NCBI tax ID: 1004159

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Photorhabdus tasmaniensis T327GCA_011189505scaffoldncbi1004159
66792Photorhabdus temperata strain DSM 22387574560.14wgspatric574560
66792Photorhabdus temperata DSM 223872784132062draftimg574560
66792Photorhabdus tasmaniensis T3272897700691draftimg1004159

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes88.823no
flagellatedyes59.3no
gram-positiveno98.44no
anaerobicno98.278no
aerobicyes85.536no
halophileno85.084no
spore-formingno94.076no
thermophileno98.212yes
glucose-utilyes91.793no
glucose-fermentyes84.292no

External links

@ref: 16253

culture collection no.: DSM 22387, CIP 109948, ATU 327

straininfo link

  • @ref: 74547
  • straininfo: 370407

Reference

@idauthorscataloguedoi/urltitle
16253Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22387)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22387
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
37890Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7749
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
74547Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370407.1StrainInfo: A central database for resolving microbial strain identifiers
123433Curators of the CIPCollection of Institut Pasteur (CIP 109948)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109948