Highly contiguous assemblies of 101 drosophilid genomes
Over 100 years of studies in <em>Drosophila melanogaster</em> and related species in the genus <em>Drosophila</em> 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.
Authors
- Yoshitaka Ogawa
- Aya Takahashi (ORCID: https://orcid.org/0000-0002-8391-7417)
- Jian‐Jun Gao (ORCID: https://orcid.org/0000-0003-4636-2130)
- Mihailo Jelić (ORCID: https://orcid.org/0000-0002-1637-0933)
- Ellie E. Armstrong (ORCID: https://orcid.org/0000-0001-7107-6318)
- Artyom Kopp (ORCID: https://orcid.org/0000-0001-5224-0741)
- Masayoshi Watada (ORCID: https://orcid.org/0000-0002-9917-7783)
- Ammon Thompson (ORCID: https://orcid.org/0000-0003-1825-4685)
- R. Scott Hawley (ORCID: https://orcid.org/0000-0002-6478-0494)
- Pavle Erić (ORCID: https://orcid.org/0000-0002-0053-1982)
- Marija Savić Veselinović (ORCID: https://orcid.org/0000-0001-8461-4373)
- Hideaki Watabe
- Enrico Bertolini (ORCID: https://orcid.org/0000-0002-7573-7467)
- Vladimı́r Košťál (ORCID: https://orcid.org/0000-0002-4994-5123)
- Masanori J. Toda (ORCID: https://orcid.org/0000-0003-0158-1858)
- Emily Delaney (ORCID: https://orcid.org/0000-0003-3609-5702)
- Molly Zych
- Bernard Kim (ORCID: https://orcid.org/0000-0002-5025-1292)
- Jeremy Wang (ORCID: https://orcid.org/0000-0002-0673-9418)
- Olga Barmina (ORCID: https://orcid.org/0000-0002-2297-4362)
- Giulia Manoli (ORCID: https://orcid.org/0000-0001-5954-5919)
- Emmanuel R. R. D’Agostino (ORCID: https://orcid.org/0000-0003-0829-6435)
- Teruyuki Matsunaga (ORCID: https://orcid.org/0000-0002-6433-622X)
- Takehiro K. Katoh (ORCID: https://orcid.org/0000-0003-4980-8265)
- Jeremy S. Davis (ORCID: https://orcid.org/0000-0002-5214-161X)
- Danny E. Miller (ORCID: https://orcid.org/0000-0001-6096-8601)
- Diler Haji (ORCID: https://orcid.org/0000-0002-3884-4466)
- Marina Stamenković‐Radak (ORCID: https://orcid.org/0000-0002-6937-7282)
- Aaron A. Comeault (ORCID: https://orcid.org/0000-0003-3954-2416)
- Noah K. Whiteman (ORCID: https://orcid.org/0000-0003-1448-4678)
- Leonie C. Moyle (ORCID: https://orcid.org/0000-0003-4960-8001)
- Julianne Peláez (ORCID: https://orcid.org/0000-0001-6110-1794)
- Marija Tanasković (ORCID: https://orcid.org/0000-0003-1440-2257)
- Donald K. Price (ORCID: https://orcid.org/0000-0003-2501-8373)
- Jessica M. Aguilar (ORCID: https://orcid.org/0000-0003-3614-413X)
- Dmitri A. Petrov (ORCID: https://orcid.org/0000-0002-3664-9130)
- Corbin D. Jones (ORCID: https://orcid.org/0000-0001-7281-7130)
- David Peede (ORCID: https://orcid.org/0000-0002-4826-0464)
- Daniel R. Matute (ORCID: https://orcid.org/0000-0002-8494-8012)
Institutions
- University of North Carolina at Chapel Hill (US)
Publication Details
- Journal
- UNC Libraries
- Published
- 2025-10-11
- DOI
- https://doi.org/10.17615/2d8d-v266
- Primary Topic
- Legume Nitrogen Fixing Symbiosis
- Type
- article
- Field-Weighted Citation Impact
- 0.00