期刊
G3-GENES GENOMES GENETICS
卷 6, 期 3, 页码 695-708出版社
GENETICS SOCIETY AMERICA
DOI: 10.1534/g3.115.023655
关键词
Heliconius; genome assembly; linkage mapping; chromosome fusions; Eueides
资金
- European Research Council (ERC) [339873]
- Wellcome Trust [098051]
- J.W.D.'s Herchel Smith funding
- Biotechnology and Biological Sciences Research Council [G006903/1]
- ERC
- Agence Nationale de la Recherche
- Higher Education Funding Council for England
- Science and Technology Facilities Council
- Herchel Smith Postdoctoral Research Fellowship
- BBSRC [BB/K020129/1, BB/K019945/1, BB/G008841/1, BB/G530425/1, BB/G006903/1] Funding Source: UKRI
- NERC [NE/K012886/1] Funding Source: UKRI
- Biotechnology and Biological Sciences Research Council [BB/G008841/1, BB/G530425/1, BB/G006903/1, BB/K020129/1, BB/K019945/1] Funding Source: researchfish
- Natural Environment Research Council [NE/K012886/1] Funding Source: researchfish
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 similar to 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.
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