title: Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps.
abstract: Advances in sequencing technology allow genomes to be sequenced at vastly decreased costs. However, the assembled data frequently are highly fragmented with many gaps. We present a practical approach that uses Illumina sequences to improve draft genome assemblies by aligning sequences against contig ends and performing local assemblies to produce gap-spanning contigs. The continuity of a draft genome can thus be substantially improved, often without the need to generate new data.
authors.affiliation: Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK. jit@sanger.ac.uk
authors.forename: Isheng J
authors.initials: IJ
authors.lastname: Tsai
authors.forename: Thomas D
authors.initials: TD
authors.lastname: Otto
authors.forename: Matthew
authors.initials: M
authors.lastname: Berriman
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D020451:Contig Mapping; D023281:Genomics / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*
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