Davey, John W., Chouteau, Mathieu, Barker, Sarah L. et al. (8 more authors) (2016) Major improvements to the Heliconius melpomene genome assembly used to confirm 10 chromosome fusion events in 6 million years of butterfly evolution. G3: Genes, Genomes, Genetics. pp. 695-708.
Abstract
The Heliconius butterflies are a widely studied adaptive radiation of 46 species spread across Central and South America, several of which are known to hybridize in the wild. Here, we present a substantially improved assembly of the Heliconius melpomene genome, developed using novel methods that should be applicable to improving other genome assemblies produced using short read sequencing. First, we whole-genome-sequenced a pedigree to produce a linkage map incorporating 99% of the genome. Second, we incorporated haplotype scaffolds extensively to produce a more complete haploid version of the draft genome. Third, we incorporated ~20x coverage of Pacific Biosciences sequencing, and scaffolded the haploid genome using an assembly of this long-read sequence. These improvements result in a genome of 795 scaffolds, 275 Mb in length, with an N50 length of 2.1 Mb, an N50 number of 34, and with 99% of the genome placed, and 84% anchored on chromosomes. We use the new genome assembly to confirm that the Heliconius genome underwent 10 chromosome fusions since the split with its sister genus Eueides, over a period of about 6 million yr.
Metadata
Item Type: | Article |
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Authors/Creators: |
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Copyright, Publisher and Additional Information: | © 2016 Authors |
Keywords: | Chromosome fusions,Eueides,Genome assembly,Heliconius,Linkage mapping |
Dates: |
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Institution: | The University of York |
Academic Units: | The University of York |
Depositing User: | Pure (York) |
Date Deposited: | 20 Apr 2016 08:00 |
Last Modified: | 23 Jan 2025 00:07 |
Published Version: | https://doi.org/10.1534/g3.115.023655 |
Status: | Published |
Refereed: | Yes |
Identification Number: | 10.1534/g3.115.023655 |
Related URLs: | |
Open Archives Initiative ID (OAI ID): | oai:eprints.whiterose.ac.uk:98871 |