Pathogenicity, Phylogenetic relationship and NGS based identification and assembly of tumorigenic Agrobacterium radiabacter plasmidic and chromosomic reads isolated from Prunus duclcis

• Published in: Genomics (San Diego, Calif.) Vol. 111; no. 6; pp. 1423 - 1430
• Main Authors: Nabi, Nesrine, Ben Hafsa, Ahmed, Zellama, Mohammed Salem, Chaouachi, Maher
• Format: Journal Article
• Language: English
• Published: United States Elsevier Inc 01.12.2019
• Subjects: Agrobacterium; Agrobacterium - genetics; Agrobacterium - pathogenicity; Bacterial Proteins - genetics; Bacterial Proteins - metabolism; Chromosome; Chromosomes, Bacterial; DNA, Bacterial; Genome; Genome, Bacterial; Next-generation sequencing; Phylogeny; Plant Diseases - microbiology; Plasmids - genetics; Prunus - microbiology; Ti plasmid; Virulence - genetics; Virulence Factors; Whole Genome Sequencing; Chromosome; Agrobacterium; Next-generation sequencing; Phylogeny; Genome; Ti plasmid
• ISSN: 0888-7543; 1089-8646
• DOI: 10.1016/j.ygeno.2018.09.015

Although many Agrobacterium radiobacter strains have already been identified, only a few genomes of strains belonging to genomovar G4 have been sequenced so far. In this study, we report the first virulent genome sequence of Agrobacterium radiobacter strain tun 183, which is highly virulent to almond specie. The genome size was estimated to be 5.53 Mb, with 57.9%GC content. In total, 6486 genes encoding proteins and 61 genes encoding RNAs were identified in this genome. Comparisons with the available sequenced genomes of genomovar G4 as well as with other A. sp. were conducted, revealing a hexapartite genome containing circular and linear chromosomes in addition to two accessory plasmids and a tumor inducing plasmid (pTi) in strain tun 183. The phylogenetic analysis of recA gene clearly showed the clustering of tun 183 strain within genomovar G4, supporting the monophyly within this genomovar.