Strain identifier
BacDive ID: 17612
Type strain:
Species: Xanthomonas translucens
Strain Designation: VdM 130
Strain history: <- NCPPB <- ICPB <- C. Reddy
NCBI tax ID(s): 343 (species)
General
@ref: 7807
BacDive-ID: 17612
DSM-Number: 18974
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile, plant pathogen
description: Xanthomonas translucens VdM 130 is a mesophilic, motile 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/bacdive17612.20230509.8.1
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 | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 92.241 | |
69480 | 99.996 | negative |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7807 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
39206 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7807 | positive | growth | 28 | mesophilic |
39206 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 99 |
69480 | no | 99.998 |
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
- @ref: 7807
- description: X.campestris 16S rRNA gene, strain LMG 876
- accession: X99299
- length: 1500
- database: ena
- NCBI tax ID: 339
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Xanthomonas translucens pv. translucens DSM 18974 peng1 | GCA_900094325 | complete | ncbi | 1261556 |
66792 | Xanthomonas translucens pv. translucens DSM 18974 | GCA_000331775 | contig | ncbi | 1261556 |
66792 | Xanthomonas translucens pv. translucens DSM 18974 | 1261556.3 | wgs | patric | 1261556 |
66792 | Xanthomonas translucens pv. translucens DSM 18974 | 1261556.5 | complete | patric | 1261556 |
66792 | Xanthomonas translucens pv. translucens DSM 18974 | 2896739717 | complete | img | 1261556 |
66792 | Xanthomonas translucens pv. translucens DSM 18974 | 2529293066 | draft | img | 1261556 |
66792 | Xanthomonas translucens pv. translucens ATCC 19319 | GCA_020880735 | contig | ncbi | 134875 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 99 | no |
motile | yes | 83.775 | no |
flagellated | no | 88.169 | no |
gram-positive | no | 98.535 | no |
anaerobic | no | 98.792 | no |
aerobic | yes | 95.234 | no |
halophile | no | 95.286 | no |
spore-forming | no | 95.94 | no |
glucose-ferment | no | 88.361 | no |
thermophile | no | 98.041 | no |
glucose-util | yes | 95.13 | no |
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
topic | Pubmed-ID | title | authors | journal | DOI | year |
---|---|---|---|---|---|---|
Genetics | 27908994 | Complete 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 FJ | Genome Announc | 10.1128/genomeA.01334-16 | 2016 |
33797975 | First 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 R | Plant Dis | 10.1094/PDIS-02-21-0407-PDN | 2021 | |
35310401 | Complete 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 R | Front Microbiol | 10.3389/fmicb.2021.817815 | 2022 |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
7807 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18974) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18974 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
39206 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17132 | ||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69479 | João 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 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
86605 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID5981.1 | StrainInfo: A central database for resolving microbial strain identifiers |