Assembly_of_highly_heterozygous_Heliconius_genomes_using_mother_father_offspring_trios-sc-3515
Assembly_of_highly_heterozygous_Heliconius_genomes_using_mother_father_offspring_trios
Heterozygosity generates substantial difficulties in genome assembly. To overcome these difficulties, we extended the SGA genome assembler to use trio pedigree data for phasing and error-correction during genome assembly. This approach results in substantial improvement in assembly contiguity when applied to simulated (yeast) data and to cichlid fish data, which both exhibit moderate levels of heterozygosity. However, we expect the approach to perform best when applied to assembly of highly heterozygous genomes. To demonstrate this we are sequencing three mother-father-offspring trios of the highly heterozygous Heliconius butterflies, in collaboration with Chris Jiggins' group in the Department of Zoology in Cambridge. The trios are as follows: a) H. melpomene trio; b) H. cydno trio; c) H. cydno mother, a H. melpomene father, and an F1 male offspring.   This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
Heterozygosity generates substantial difficulties in genome assembly. To overcome these difficulties, we extended the SGA genome assembler to use trio pedigree data for phasing and error-correction during genome assembly. This approach results in substantial improvement in assembly contiguity when applied to simulated (yeast) data and to cichlid fish data, which both exhibit moderate levels of heterozygosity. However, we expect the approach to perform best when applied to assembly of highly heterozygous genomes. To demonstrate this we are sequencing three mother-father-offspring trios of the highly heterozygous Heliconius butterflies, in collaboration with Chris Jiggins' group in the Department of Zoology in Cambridge. The trios are as follows: a) H. melpomene trio; b) H. cydno trio; c) H. cydno mother, a H. melpomene father, and an F1 male offspring.