tailieunhanh - Báo cáo y học: "A haplome alignment and reference sequence of the highly polymorphic Ciona savignyi genome"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Minireview cung cấp cho các bạn kiến thức về ngành y đề tài: A haplome alignment and reference sequence of the highly polymorphic Ciona savignyi genome. | Open Access Method A haplome alignment and reference sequence of the highly polymorphic Ciona savignyi genome Kerrin S Small Michael Brudno Matthew M Hill and Arend Sidow Addresses Departments of Pathology and of Genetics Stanford University Medical Center 300 Pasteur Drive Stanford California 943055324 USA. Department of Computer Science Banting and Best Department of Medical Research University of Toronto Toronto 6 King s College Rd Ontario M5S 3G4 Canada. Correspondence Arend Sidow. Email arend@ Published 20 March 2007 Genome Biology 2007 8 R41 doi gb-2007-8-3-r41 The electronic version of this article is the complete one and can be found online at http 2007 8 3 R41 Received 21 September 2006 Revised 15 February 2007 Accepted 20 March 2007 2007 Small et al. licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License http licenses by which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. Abstract The sequence of Ciona savignyi was determined using a whole-genome shotgun strategy but a high degree of polymorphism resulted in a fractured assembly wherein allelic sequences from the same genomic region assembled separately. We designed a multistep strategy to generate a nonredundant reference sequence from the original assembly by reconstructing and aligning the two haplomes haploid genomes . In the resultant 174 megabase reference sequence each locus is represented once misassemblies are corrected and contiguity and continuity are dramatically improved. Background We describe the generation of the reference sequence for the Ciona savignyi genome. C. savignyi is among the species of sessile marine invertebrates commonly known as sea squirts. It is an important model organism 1 that is amenable to a variety of molecular genetic experiments 2 . As a urochor-date it .