Strain identifier

BacDive ID: 13168

Type strain: Yes

Species: Pseudomonas ficuserectae

Strain Designation: L7

Strain history: M. Goto strain L7.

NCBI tax ID(s): 53410 (species)

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General

@ref: 2910

BacDive-ID: 13168

DSM-Number: 6929

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen

description: Pseudomonas ficuserectae L7 is a mesophilic plant pathogen that was isolated from Ficus erectae.

NCBI tax id

  • NCBI tax id: 53410
  • Matching level: species

strain history

@refhistory
2910<- ATCC <- M. Goto; L7
67770M. Goto strain L7.

doi: 10.13145/bacdive13168.20230509.8.1

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 ficuserectae
  • full scientific name: Pseudomonas ficuserectae Goto 1983

@ref: 2910

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas ficuserectae

full scientific name: Pseudomonas ficuserectae Goto 1983

strain designation: L7

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 2910
  • name: REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/220a
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
2910positivegrowth28mesophilic
51178positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
68369cytochrome oxidase-1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
2910--------+-+---++-+---

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinent
2910Ficus erectaeFicus erectaeJapanJPNAsia
51178Ficus erectaJapanJPNAsia
67770Ficus erecta Thunb.Ficus erecta

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Tree

Safety information

risk assessment

  • @ref: 2910
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudomonas ficuserectae gene for 16S rRNA, strain: JCM 2400AB0213781513ena53410
20218P.ficuserectae 16S rRNA geneZ766611493ena53410

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas ficuserectae strain ICMP784853410.3wgspatric53410
66792Pseudomonas ficuserectae ICMP 78482671180595draftimg53410
67770Pseudomonas ficuserectae ICMP 7848GCA_001400815scaffoldncbi53410

GC content

  • @ref: 2910
  • GC-content: 59.0
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.19no
anaerobicno98.349no
halophileno93.985no
spore-formingno95.262no
glucose-utilyes96.247yes
thermophileno99.697no
motileyes90.547no
flagellatedyes70.337no
aerobicyes95.434no
glucose-fermentno90.034yes

External links

@ref: 2910

culture collection no.: ICMP 7848, DSM 6929, ATCC 35104, CCUG 32779, CFBP 3224, JCM 2400, LMG 5694, PDDCC 7848, CGMCC 1.1791, NCPPB 3693

straininfo link

  • @ref: 82376
  • straininfo: 265423

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27283223Pseudomonas cerasi sp. nov. (non Griffin, 1911) isolated from diseased tissue of cherry.Kaluzna M, Willems A, Pothier JF, Ruinelli M, Sobiczewski P, Pulawska JSyst Appl Microbiol10.1016/j.syapm.2016.05.0052016*Bacterial Typing Techniques, Base Composition, Base Sequence, DNA Gyrase/genetics, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/analysis, Genes, Essential/genetics, Nucleic Acid Hybridization, Phylogeny, Prunus avium/*microbiology, Pseudomonas/*classification/*genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization/methodsTranscriptome
Phylogeny33999789Pseudomonas quercus sp. nov, associated with leaf spot disease of Quercus mongolica.Li Y, Wang S, Bian D, Sun S, Ma TInt J Syst Evol Microbiol10.1099/ijsem.0.0048002021Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Diseases/*microbiology, Pseudomonas/*classification/isolation & purification, Quercus/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2910Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6929)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6929
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
51178Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32779)https://www.ccug.se/strain?id=32779
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
82376Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID265423.1StrainInfo: A central database for resolving microbial strain identifiers