About Schistosoma mansoni
The trematode Schistosoma mansoni is one of the three major infectious agents responsible for the chronic debilitating disease schistosomiasis found throughout Africa and South America. The intermediate host for the parasite is a freshwater snail from the genus Biomphlaria, and the definitive host is a human. Schistosomiasis is widely considered to be second only to malaria as a global health problem and an incalculable drain on the economic development of endemic countries.
Genome Assembly & Annotation
The reads from a variety of short and long-range paired end capillary libraries and short-range Illumina paired end libraries were mapped to assembly accession ASM23792v2 ( Protasio et al 2012 ) and these mapped reads were manually scrutinised in GAP5 and edits to the assembly were made as necessary. Further direction for assembly improvement came from inspection of optical map alignments, and the result was an intermediate improved assembly. This assembly was further improved following assimilation of PacBio data to create a highly complete and very accurate chromosome scale assembly. Manuscript in preparation.
Putative gene models from the annotation accompanying previous assembly ASM23792v2 ( Protasio et al 2012 ) and predictions using RNASeq data were resolved through manual curation over the course of several months, using Apollo as a platform. For unchanged gene models, previous gene identifiers have been preserved. Manuscript in preparation.
- Berriman M, Haas BJ, LoVerde PT, Wilson RA, Dillon GP, Cerqueira GC, Mashiyama ST, Al-Lazikani B, Andrade LF, Ashton PD, Aslett MA, Bartholomeu DC, Blandin G, Caffrey CR, Coghlan A, Coulson R, Day TA, Delcher A, DeMarco R, Djikeng A, Eyre T, Gamble JA, Ghedin E, Gu Y, Hertz-Fowler C, Hirai H, Hirai Y, Houston R, Ivens A, Johnston DA, Lacerda D, Macedo CD, McVeigh P, Ning Z, Oliveira G, Overington JP, Parkhill J, Pertea M, Pierce RJ, Protasio AV, Quail MA, Rajandream MA, Rogers J, Sajid M, Salzberg SL, Stanke M, Tivey AR, White O, Williams DL, Wortman J, Wu W, Zamanian M, Zerlotini A, Fraser-Liggett CM, Barrell BG, El-Sayed NM. The genome of the blood fluke Schistosoma mansoni. Nature, 2009;460(7253):352-358
- Protasio AV, Tsai IJ, Babbage A, Nichol S, Hunt M, Aslett MA, De Silva N, Velarde GS, Anderson TJ, Clark RC, Davidson C, Dillon GP, Holroyd NE, LoVerde PT, Lloyd C, McQuillan J, Oliveira G, Otto TD, Parker-Manuel SJ, Quail MA, Wilson RA, Zerlotini A, Dunne DW, Berriman M. A systematically improved high quality genome and transcriptome of the human blood fluke Schistosoma mansoni. PLoS Negl Trop Dis, 2012;6(1):e1455
|Data Source||Wellcome Sanger Institute|
This widget has been derived from the assembly-stats code developed by the Lepbase project at the University of Edinburgh