Strain identifier

BacDive ID: 17612

Type strain: Yes

Species: Xanthomonas translucens

Strain Designation: VdM 130

Strain history: <- NCPPB <- ICPB <- C. Reddy

NCBI tax ID(s): 343 (species)

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General

@ref: 7807

BacDive-ID: 17612

DSM-Number: 18974

keywords: genome sequence, 16S sequence, Bacteria, Gram-negative, plant pathogen

description: Xanthomonas translucens VdM 130 is a Gram-negative plant pathogen that was isolated from Hordeum vulgare.

NCBI tax id

  • NCBI tax id: 343
  • Matching level: species

strain history

  • @ref: 7807
  • history: <- NCPPB <- ICPB <- C. Reddy

doi: 10.13145/bacdive17612.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Xanthomonas
  • species: Xanthomonas translucens
  • full scientific name: Xanthomonas translucens (ex Jones et al. 1917) Vauterin et al. 1995

@ref: 7807

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Xanthomonas

species: Xanthomonas translucens

full scientific name: Xanthomonas translucens (ex Jones et al. 1917) Vauterin et al. 1995

strain designation: VdM 130

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.244

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7807NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
39206MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)

culture temp

@refgrowthtypetemperature
7807positivegrowth28
39206positivegrowth30

Physiology and metabolism

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 99

Isolation, sampling and environmental information

isolation

  • @ref: 7807
  • sample type: Hordeum vulgare
  • host species: Hordeum vulgare
  • geographic location: Minnesota
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_399.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_73;97_76;98_333;99_399&stattab=map
  • Last taxonomy: Xanthomonas
  • 16S sequence: X99299
  • Sequence Identity:
  • Total samples: 20017
  • soil counts: 5101
  • aquatic counts: 3769
  • animal counts: 5827
  • plant counts: 5320

Safety information

risk assessment

  • @ref: 7807
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
7807X.campestris 16S rRNA gene, strain LMG 876X992991500nuccore339
124043Xanthomonas translucens strain LMG876 16S-23S ribosomal RNA intergenic spacer, complete sequence.AF209764540nuccore343

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Xanthomonas translucens pv. translucens DSM 18974 peng1GCA_900094325completencbi1261556
66792Xanthomonas translucens pv. translucens DSM 18974GCA_000331775contigncbi1261556
66792Xanthomonas translucens pv. translucens DSM 189741261556.3wgspatric1261556
66792Xanthomonas translucens pv. translucens DSM 189741261556.5completepatric1261556
66792Xanthomonas translucens pv. translucens DSM 189742896739717completeimg1261556
66792Xanthomonas translucens pv. translucens DSM 189742529293066draftimg1261556
66792Xanthomonas translucens pv. translucens ATCC 19319GCA_020880735contigncbi134875

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno99no
69480gram-positivegram-positivePositive reaction to Gram-stainingno99.244no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.116no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes84.742no
69480spore-formingspore-formingAbility to form endo- or exosporesno89.579no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97.409yes
69480flagellatedmotile2+Ability to perform flagellated movementyes66.166no

External links

@ref: 7807

culture collection no.: DSM 18974, ATCC 19319, ICMP 5752, ICPB XT2, NCPPB 973, PDDCC 5752, CFBP 2054, LMG 876

straininfo link

  • @ref: 86605
  • straininfo: 5981

literature

topicPubmed-IDtitleauthorsjournalDOIyear
Genetics27908994Complete Genome Sequence of the Barley Pathogen Xanthomonas translucens pv. translucens DSM 18974T (ATCC 19319T).Jaenicke S, Bunk B, Wibberg D, Sproer C, Hersemann L, Blom J, Winkler A, Schatschneider S, Albaum SP, Kolliker R, Goesmann A, Puhler A, Overmann J, Vorholter FJGenome Announc10.1128/genomeA.01334-162016
33797975First report of bacterial leaf streak caused by Xanthomonas translucens pv. undulosa on cultivated wild rice (Zizania palustris) in Minnesota.Curland RD, Hallada KR, Ledman KE, Dill-Macky RPlant Dis10.1094/PDIS-02-21-0407-PDN2021
35310401Complete Genome Assemblies of All Xanthomonas translucens Pathotype Strains Reveal Three Genetically Distinct Clades.Goettelmann F, Roman-Reyna V, Cunnac S, Jacobs JM, Bragard C, Studer B, Koebnik R, Kolliker RFront Microbiol10.3389/fmicb.2021.8178152022

Reference

@idauthorscataloguedoi/urltitle
7807Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18974)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18974
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
39206Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17132
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)
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
86605Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID5981.1StrainInfo: A central database for resolving microbial strain identifiers
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy