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- Title
A systematically improved high quality genome and transcriptome of the human blood fluke Schistosoma mansoni.
- Authors
Protasio, Anna V; Tsai, Isheng J; Babbage, Anne; Nichol, Sarah; Hunt, Martin; Aslett, Martin A; De Silva, Nishadi; Velarde, Giles S; Anderson, Tim J C; Clark, Richard C; Davidson, Claire; Dillon, Gary P; Holroyd, Nancy E; LoVerde, Philip T; Lloyd, Christine; McQuillan, Jacquelline; Oliveira, Guilherme; Otto, Thomas D; Parker-Manuel, Sophia J; Quail, Michael A; Wilson, R Alan; Zerlotini, Adhemar; Dunne, David W; Berriman, Matthew
- Abstract
Schistosomiasis is one of the most prevalent parasitic diseases, affecting millions of people in developing countries. Amongst the human-infective species, Schistosoma mansoni is also the most commonly used in the laboratory and here we present the systematic improvement of its draft genome. We used Sanger capillary and deep-coverage Illumina sequencing from clonal worms to upgrade the highly fragmented draft 380 Mb genome to one with only 885 scaffolds and more than 81% of the bases organised into chromosomes. We have also used transcriptome sequencing (RNA-seq) from four time points in the parasite's life cycle to refine gene predictions and profile their expression. More than 45% of predicted genes have been extensively modified and the total number has been reduced from 11,807 to 10,852. Using the new version of the genome, we identified trans-splicing events occurring in at least 11% of genes and identified clear cases where it is used to resolve polycistronic transcripts. We have produced a high-resolution map of temporal changes in expression for 9,535 genes, covering an unprecedented dynamic range for this organism. All of these data have been consolidated into a searchable format within the GeneDB (www.genedb.org) and SchistoDB (www.schistodb.net) databases. With further transcriptional profiling and genome sequencing increasingly accessible, the upgraded genome will form a fundamental dataset to underpin further advances in schistosome research.
- Publication
PLoS neglected tropical diseases, 2012, Vol 6, Issue 1, pe1455
- ISSN
1935-2735
- Publication type
Journal Article
- DOI
10.1371/journal.pntd.0001455