Pangenomic type III effector database of the plant pathogenic Ralstonia spp.
Cyrus Raja Rubenstein SabbaghSébastien CarrereFabien LonjonFabienne VailleauAlberto P MachoStephane GeninNemo PeetersPublished in: PeerJ (2019)
We curated the T3E repertoires of 12 plant pathogenic Ralstonia strains, representing a total of 12 strains spread over the different groups of the species complex. This generated a pangenome repertoire of 102 T3E genes and 16 hypothetical T3E genes. Using this database, we scanned for the presence of T3Es in the 155 available genomes representing 140 distinct plant pathogenic Ralstonia strains isolated from different host plants in different areas of the globe. All this information is presented in a searchable database. A presence/absence analysis, modulated by a strain sequence/gene annotation quality score, enabled us to redefine core and accessory T3E repertoires.
Keyphrases
- type iii
- genome wide
- genome wide identification
- adverse drug
- escherichia coli
- genome wide analysis
- healthcare
- bioinformatics analysis
- transcription factor
- regulatory t cells
- emergency department
- dendritic cells
- quality improvement
- health information
- electronic health record
- social media
- plant growth
- high throughput sequencing