Strain identifier
BacDive ID: 17607
Type strain: 
Species: Xanthomonas codiaei
Strain history: <- CFBP <- ICMP
NCBI tax ID(s): 56463 (species)
version 8.1 (current version)
General
@ref: 7712
BacDive-ID: 17607
DSM-Number: 18812
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile, plant pathogen
description: Xanthomonas codiaei DSM 18812 is a mesophilic, motile plant pathogen that was isolated from Codiacum variegatum.
NCBI tax id
- NCBI tax id: 56463
- Matching level: species
strain history
- @ref: 7712
- history: <- CFBP <- ICMP
doi: 10.13145/bacdive17607.20230509.8.1
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 codiaei
- full scientific name: Xanthomonas codiaei Vauterin et al. 1995
@ref: 7712
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Lysobacteraceae
genus: Xanthomonas
species: Xanthomonas codiaei
full scientific name: Xanthomonas codiaei Vauterin et al. 1995
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 98.117 | |
| 69480 | 99.992 | negative |
Culture and growth conditions
culture medium
- @ref: 7712
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: 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
culture temp
- @ref: 7712
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 96 |
| 69480 | no | 99.998 |
Isolation, sampling and environmental information
isolation
- @ref: 7712
- sample type: Codiacum variegatum
- host species: Codiacum variegatum
- geographic location: Florida
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Shrub (Scrub)
Safety information
risk assessment
- @ref: 7712
- 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 codiaei 16S ribosomal RNA gene, partial sequence and 16S-23S ribosomal RNA intergenic spacer, complete sequence | AF260971 | 578 | ena | 56463 |
| 20218 | Xanthomonas codiaei clone K0906 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence | HM181910 | 615 | ena | 56463 |
| 7712 | X.codiaei 16S rRNA gene | Y10765 | 1502 | ena | 56463 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Xanthomonas codiaei CFBP4690 | GCA_002939785 | contig | ncbi | 56463 |
| 66792 | Xanthomonas codiaei strain CFBP4690 | 56463.3 | wgs | patric | 56463 |
| 66792 | Xanthomonas codiaei CFBP4690 | 2880484841 | draft | img | 56463 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 96 | no |
| gram-positive | no | 98.303 | no |
| anaerobic | no | 99.08 | no |
| halophile | no | 95.338 | no |
| spore-forming | no | 95.915 | no |
| glucose-util | yes | 95.842 | no |
| thermophile | no | 99.345 | yes |
| flagellated | no | 85.421 | no |
| motile | yes | 79.825 | no |
| aerobic | yes | 96.072 | no |
| glucose-ferment | no | 89.95 | no |
External links
@ref: 7712
culture collection no.: DSM 18812, CFBP 4690, ICMP 9513, LMG 8678
straininfo link
- @ref: 86600
- straininfo: 5924
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7712 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18812) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18812 | |||
| 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) | |||
| 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 | |||
| 86600 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID5924.1 | StrainInfo: A central database for resolving microbial strain identifiers |