Strain identifier
BacDive ID: 17605
Type strain: 
Species: Xanthomonas bromi
Strain history: <- CFBP <- LMG <- L. Vauterin, Ghent <- R. Samson
NCBI tax ID(s): 56449 (species)
version 9.1 (current version)
General
@ref: 7638
BacDive-ID: 17605
DSM-Number: 18804
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative, plant pathogen
description: Xanthomonas bromi DSM 18804 is a Gram-negative plant pathogen that was isolated from Bromus carinatus.
NCBI tax id
- NCBI tax id: 56449
- Matching level: species
strain history
- @ref: 7638
- history: <- CFBP <- LMG <- L. Vauterin, Ghent <- R. Samson
doi: 10.13145/bacdive17605.20240916.9.1
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 bromi
- full scientific name: Xanthomonas bromi Vauterin et al. 1995
@ref: 7638
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas bromi
full scientific name: Xanthomonas bromi Vauterin et al. 1995
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98.25
Culture and growth conditions
culture medium
- @ref: 7638
- name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1a
- composition: Name: 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
culture temp
- @ref: 7638
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 7638
- sample type: Bromus carinatus
- host species: Bromus carinatus
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
taxonmaps
- @ref: 69479
- File name: preview.99_92.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_73;97_76;98_83;99_92&stattab=map
- Last taxonomy: Xanthomonas
- 16S sequence: Y10764
- Sequence Identity:
- Total samples: 52152
- soil counts: 10026
- aquatic counts: 6826
- animal counts: 28252
- plant counts: 7048
Safety information
risk assessment
- @ref: 7638
- pathogenicity plant: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Xanthomonas bromi strain LMG947 16S-23S ribosomal RNA intergenic spacer, complete sequence | AF209754 | 510 | nuccore | 56449 |
| 20218 | Xanthomonas bromi clone K0907 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence | HM181911 | 559 | nuccore | 56449 |
| 7638 | X.bromi 16S rRNA gene | Y10764 | 1502 | nuccore | 56449 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Xanthomonas bromi LMG947 | GCA_900092025 | contig | ncbi | 56449 |
| 66792 | Xanthomonas bromi CFBP1976 | GCA_002939755 | contig | ncbi | 56449 |
| 66792 | Xanthomonas bromi strain CFBP1976 | 56449.4 | wgs | patric | 56449 |
| 66792 | Xanthomonas bromi strain LMG947 | 56449.3 | wgs | patric | 56449 |
| 66792 | Xanthomonas bromi LMG 947 | 2772190764 | draft | img | 56449 |
| 66792 | Xanthomonas bromi CFBP1976 | 2878134011 | draft | img | 56449 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98.25 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.684 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 87.923 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 86.042 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 99 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 73.973 | no |
External links
@ref: 7638
culture collection no.: DSM 18804, CFBP 1976, ICMP 12545, LMG 947
straininfo link
- @ref: 86598
- straininfo: 5172
literature
- topic: Genetics
- Pubmed-ID: 27609927
- title: Draft Genome Sequence of the Xanthomonas bromi Type Strain LMG 947.
- authors: Hersemann L, Wibberg D, Blom J, Widmer F, Kolliker R
- journal: Genome Announc
- DOI: 10.1128/genomeA.00961-16
- year: 2016
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7638 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18804) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18804 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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 | |||
| 86598 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID5172.1 | StrainInfo: A central database for resolving microbial strain identifiers |