A high-quality genome assembly and annotation of the dark-eyed junco Junco hyemalis, a recently diversified songbird
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The dark-eyed junco (Junco hyemalis) is one of the most common passerines of North America, and has served as a model organism in studies related to ecophysiology, behavior, and evolutionary biology for over a century. It is composed of at least 6 distinct, geographically structured forms of recent evolutionary origin, presenting remarkable variation in phenotypic traits, migratory behavior, and habitat. Here, we report a high-quality genome assembly and annotation of the dark-eyed junco generated using a combination of shotgun libraries and proximity ligation Chicago and Dovetail Hi-C libraries. The final assembly is ~1.03 Gb in size, with 98.3% of the sequence located in 30 full or nearly full chromosome scaffolds, and with a N50/L50 of 71.3 Mb/5 scaffolds. We identified 19,026 functional genes combining gene prediction and similarity approaches, of which 15,967 were associated to GO terms. The genome assembly and the set of annotated genes yielded 95.4% and 96.2% completeness scores, respectively when compared with the BUSCO avian dataset. This new assembly for J. hyemalis provides a valuable resource for genome evolution analysis, and for identifying functional genes involved in adaptive processes and speciation.
Originalsprog | Engelsk |
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Artikelnummer | jkac083 |
Tidsskrift | G3: Genes, Genomes, Genetics |
Vol/bind | 12 |
Udgave nummer | 6 |
Antal sider | 6 |
ISSN | 2160-1836 |
DOI | |
Status | Udgivet - 2022 |
Bibliografisk note
Funding Information:
Funding was provided by grant CGL-2011-25866 from the Spanish Ministerio de Ciencia e Innovación to BM and by multiple awards from the National Science Foundation to EK.
Publisher Copyright:
© The Author(s) 2022. Published by Oxford University Press on behalf of Genetics Society of America
ID: 343211890