Project name: Xanthomonas citri pv. malvacearum str. GSPB1386

Description: Bacterial blight of cotton is an important and potentially destructive bacterial disease caused by Xanthomonas axonopodis pv. malvacearum (Xam), whereas its genome is so far less known. Novel, high-throughput technologies are impacting genomic research, e.g. for strain comparisons, genetic mapping, transcriptome and ChIP analyses. Here, we present high-quality draft sequences of a HVS strain (GSPB2388) and a strain of race 18 (GSPB1386) of Xam that was obtained by Illumina/Solexa Paired-end Solexa sequencing, resulting in ~300mb of DNA sequence of genomic DNA to 60-fold coverage. The short sequence reads were assembled to 61 scaffolds for GSPB2388 (N50 of 164 kb) and 127 scaffolds for GSPB1386 (N50 of 100 kb) at ~5 Mb draft version with the Velvet assembler. The total lengths of the scaffolds were 516,888bp (2388) and 4,976,343bp (1386), which were predicted to contain 4665 and 4520 genes respectively. Comparison with genomes of other xanthomonads showed that Xam is highly related to Xanthomonas axonopodis pv. citris. Furthermore, a series of new genes putatively involved in pathogenicity were identified. Our study shows that de novo assembly of genomes from short sequence reads is feasible for gene identification, gene functional prediction and classification, and genome comparative studies of bacterial biology.

Data type: Genome sequencing and assembly

Sample scope: Monoisolate

Relevance: Agricultural

Release date: 2012-11-05

Last updated: 2011-11-27