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Highly contiguous assemblies of 101 drosophilid genomes.
dc.creator | Kim, Bernard Y | |
dc.creator | Wang, Jeremy R | |
dc.creator | Miller, Danny E | |
dc.creator | Barmina, Olga | |
dc.creator | Delaney, Emily | |
dc.creator | Thompson, Ammon | |
dc.creator | Comeault, Aaron A | |
dc.creator | Peede, David | |
dc.creator | D'Agostino, Emmanuel RR | |
dc.creator | Pelaez, Julianne | |
dc.creator | Aguilar, Jessica M | |
dc.creator | Haji, Diler | |
dc.creator | Matsunaga, Teruyuki | |
dc.creator | Armstrong, Ellie E | |
dc.creator | Zych, Molly | |
dc.creator | Ogawa, Yoshitaka | |
dc.creator | Stamenković-Radak, Marina | |
dc.creator | Jelić, Mihailo | |
dc.creator | Savić Veselinović, Marija | |
dc.creator | Tanasković, Marija | |
dc.creator | Erić, Pavle | |
dc.creator | Gao, Jian-Jun | |
dc.creator | Katoh, Takehiro K | |
dc.creator | Toda, Masanori J | |
dc.creator | Watabe, Hideaki | |
dc.creator | Watada, Masayoshi | |
dc.creator | Davis, Jeremy S | |
dc.creator | Moyle, Leonie C | |
dc.creator | Manoli, Giulia | |
dc.creator | Bertolini, Enrico | |
dc.creator | Košťál, Vladimír | |
dc.creator | Hawley, R Scott | |
dc.creator | Takahashi, Aya | |
dc.creator | Jones, Corbin D | |
dc.creator | Price, Donald K | |
dc.creator | Whiteman, Noah | |
dc.creator | Kopp, Artyom | |
dc.creator | Matute, Daniel R | |
dc.creator | Petrov, Dmitri A | |
dc.date.accessioned | 2021-10-06T10:21:58Z | |
dc.date.available | 2021-10-06T10:21:58Z | |
dc.date.issued | 2021 | |
dc.identifier.issn | 2050-084X | |
dc.identifier.uri | https://elifesciences.org/articles/66405 | |
dc.identifier.uri | http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC8337076 | |
dc.identifier.uri | https://radar.ibiss.bg.ac.rs/handle/123456789/4457 | |
dc.description.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. | |
dc.publisher | Cambridge: eLife Sciences Publications Ltd | |
dc.relation | United States Department of Health & Human Services National Institutes of Health (NIH) - USA NIH National Institute of Diabetes & Digestive & Kidney Diseases (NIDDK) | |
dc.relation | United States Department of Health & Human Services National Institutes of Health (NIH) - USA NIH National Institute of General Medical Sciences (NIGMS) | |
dc.relation | info:eu-repo/grantAgreement/MESTD/inst-2020/200007/RS// | |
dc.relation | info:eu-repo/grantAgreement/MESTD/inst-2020/200178/RS// | |
dc.rights | openAccess | |
dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ | |
dc.source | eLife | |
dc.subject | D. melanogaster | |
dc.subject | Drosophila | |
dc.subject | Drosophilidae | |
dc.subject | Comparative genomics | |
dc.subject | Evolutionary biology | |
dc.subject | Genetics | |
dc.subject | Genome assembly | |
dc.subject | Genomics | |
dc.subject | Long reads | |
dc.subject | Nanopore | |
dc.title | Highly contiguous assemblies of 101 drosophilid genomes. | |
dc.type | article | en |
dc.rights.license | BY | |
dcterms.abstract | Wатабе, Хидеаки; Стаменковић-Радак, Марина; Јелић, Михаило; Савић Веселиновић, Марија; Танасковић, Марија; Ерић, Павле; Д'Aгостино, Еммануел РР; Пелаез, Јулианне; Aгуилар, Јессица М; Хаји, Дилер; Матсунага, Теруyуки; Aрмстронг, Еллие Е; Ким, Бернард Y; Wанг, Јеремy Р; Миллер, Даннy Е; Бармина, Олга; Деланеy, Емилy; Тхомпсон, Aммон; Цомеаулт, Aарон A; Пееде, Давид; Зyцх, Моллy; Огаwа, Yосхитака; Гао, Јиан-Јун; Катох, Такехиро К; Тода, Масанори Ј; Wатада, Масаyосхи; Давис, Јеремy С; Моyле, Леоние Ц; Маноли, Гиулиа; Бертолини, Енрицо; Кошťáл, Владимíр; Хаwлеy, Р Сцотт; Такахасхи, Ayа; Јонес, Цорбин Д; Прице, Доналд К; Wхитеман, Ноах; Копп, Aртyом; Матуте, Даниел Р; Петров, Дмитри A; | |
dc.rights.holder | © 2021 Kim et al. | |
dc.citation.volume | 10 | |
dc.identifier.doi | 10.7554/eLife.66405 | |
dc.identifier.pmid | 34279216 | |
dc.identifier.scopus | 2-s2.0-85111414191 | |
dc.identifier.wos | 000683432200001 | |
dc.citation.apa | Kim, B. Y., Wang, J. R., Miller, D. E., Barmina, O., Delaney, E., Thompson, A., et al. (2021). Highly contiguous assemblies of 101 drosophilid genomes. ELife, 10, e66405. | |
dc.citation.vancouver | Kim BY, Wang JR, Miller DE, Barmina O, Delaney E, Thompson A, Comeault AA, Peede D, D’Agostino ER, Pelaez J, Aguilar JM, Haji D, Matsunaga T, Armstrong EE, Zych M, Ogawa Y, Stamenković-Radak M, Jelić M, Veselinović MS, Tanasković M, Erić P, Gao J-J, Katoh TK, Toda MJ, Watabe H, Watada M, Davis JS, Moyle LC, Manoli G, Bertolini E, Košťál V, Hawley RS, Takahashi A, Jones CD, Price DK, Whiteman N, Kopp A, Matute DR, Petrov DA. Highly contiguous assemblies of 101 drosophilid genomes. Elife. 2021;10:e66405. | |
dc.citation.spage | e66405 | |
dc.type.version | publishedVersion | |
dc.identifier.fulltext | https://radar.ibiss.bg.ac.rs/bitstream/id/9226/elife-66405-v2.pdf | |
dc.citation.rank | aM21 |