Document Type
Article
Publication Date
7-19-2021
Publication Title
eLife
Volume
10
First page number:
1
Last page number:
32
Abstract
Over 100 years of studies in Drosophila melanogaster and related species in the genus Drosophila have facilitated key discoveries in genetics, genomics, and evolution. While high-quality genome assemblies exist for several species in this group, they only encompass a small fraction of the genus. Recent advances in long-read sequencing allow high-quality genome assemblies for tens or even hundreds of species to be efficiently generated. Here, we utilize Oxford Nanopore sequencing to build an open community resource of genome assemblies for 101 lines of 93 drosophilid species encompassing 14 species groups and 35 sub-groups. The genomes are highly contiguous and complete, with an average contig N50 of 10.5 Mb and greater than 97% BUSCO completeness in 97/101 assemblies. We show that Nanopore-based assemblies are highly accurate in coding regions, particularly with respect to coding insertions and deletions. These assemblies, along with a detailed laboratory protocol and assembly pipelines, are released as a public resource and will serve as a starting point for addressing broad questions of genetics, ecology, and evolution at the scale of hundreds of species.
Keywords
Comparative genomics; Drosophila; Genome assembly; Long reads; Nanopore
Disciplines
Genetics and Genomics | Life Sciences
File Format
File Size
3536 KB
Language
English
Rights
IN COPYRIGHT. For more information about this rights statement, please visit http://rightsstatements.org/vocab/InC/1.0/
Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 License.
Repository Citation
Kim, B. Y.,
Wang, J. R.,
Miller, D. E.,
Barmina, O.,
Delaney, E.,
Thompson, A.,
Comeault, A. A.,
Peede, D.,
D’agostino, E. R.,
Pelaez, J.,
Aguilar, J. M.,
Haji, D.,
Matsunaga, T.,
Armstrong, E. E.,
Zych, M.,
Ogawa, Y.,
Stamenković-Radak, M.,
Jelić, M.,
Veselinović, M.,
Tanasković, M.,
Erić, P.,
Gao, J.,
Katoh, T. K.,
Toda, M. J.,
Watabe, H.,
Watada, M.,
Davis, J. S.,
Moyle, L. C.,
Manoli, G.,
Bertolini, E.,
Košťál, V.,
Hawley, R. S.,
Takahashi, A.,
Jones, C. D.,
Price, D. K.,
Whiteman, N.,
Kopp, A.,
Matute, D. R.,
Petrov, D. A.
(2021).
Highly Contiguous Assemblies of 101 Drosophilid Genomes.
eLife, 10
1-32.
http://dx.doi.org/10.7554/eLife.66405