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 short and long-range paired end capillary libraries and short-range Illumina paired end libraries were mapped to assembly accession GCA_000237925.2 (Protasio et al 2012; version 5.2). Mapped reads were scrutinised in GAP5 and manual edits to the assembly were made as necessary. Inspection of optical map alignments and integration of PacBio reads led to version 7, as presented here (GCA_000237925.3). This assembly has been further improved following assimilation of Oxford Nanopore, PacBio, and HiC data to create a complete telomere-to-telomere chromosome scale assembly (expected in an upcoming release, version 8). All improvements leading to versions 7 and 8 are described in Buddenborg et al, in prep.
Putative gene models from the annotation accompanying previous assembly GCA_000237925.2 ( Protasio et al 2012 ) and predictions using RNASeq data were resolved through manual curation using Apollo as a platform. For unchanged gene models, previous gene identifiers have been preserved (Buddenborg et al, in prep).
- 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