Please use this identifier to cite or link to this item:
https://hdl.handle.net/2440/98801
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Type: | Journal article |
Title: | Major improvements to the Heliconius melpomene genome assembly used to confirm 10 chromosome fusion events in 6 million years of butterfly evolution |
Author: | Davey, J. Chouteau, M. Barker, S. Maroja, L. Baxter, S. Simpson, F. Merrill, R. Joron, M. Mallet, J. Dasmahapatra, K. Jiggins, C. |
Citation: | G3: Genes, Genomes, Genetics, 2016; 6(3):695-708 |
Publisher: | Genetics Society of America |
Issue Date: | 2016 |
ISSN: | 2160-1836 2160-1836 |
Statement of Responsibility: | John W. Davey, Mathieu Chouteau, Sarah L. Barker, Luana Maroja, Simon W. Baxter, Fraser Simpson, Richard M. Merrill, Mathieu Joron, James Mallet, Kanchon K. Dasmahapatra and Chris D. Jiggins |
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. |
Keywords: | Heliconius genome assembly linkage mapping chromosome fusions Eueides |
Rights: | © 2016 Davey et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
DOI: | 10.1534/g3.115.023655 |
Published version: | http://dx.doi.org/10.1534/g3.115.023655 |
Appears in Collections: | Aurora harvest 3 Genetics publications |
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hdl_98801.pdf | Published version | 2.55 MB | Adobe PDF | View/Open |
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