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G3 (Bethesda). 2018 May 4;8(5):1391-1398. doi: 10.1534/g3.117.300443.

Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia).

Author information

1
Department of Human Genetics, University of Utah, Salt Lake City, UT, USA.
2
USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT, USA.
3
Research Institute of Molecular Pathology, Vienna, Austria.
4
Department of Biology, University of Utah, Salt Lake City, UT, USA.
5
Department of Biology, Utah Valley University, Orem, UT, USA.
6
Department of Evolutionary Biology (EBC), University of Uppsala, Uppsala, Sweden.
7
Genome Institute at Washington University, St. Louis, MO, USA.
8
Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark.
9
Norwegian University of Science and Technology, University Museum, 7491 Trondheim, Norway.
10
Department of Biology, University of Utah, Salt Lake City, UT, USA shapiro@biology.utah.edu.

Abstract

The domestic rock pigeon (Columba livia) is among the most widely distributed and phenotypically diverse avian species. C. livia is broadly studied in ecology, genetics, physiology, behavior, and evolutionary biology, and has recently emerged as a model for understanding the molecular basis of anatomical diversity, the magnetic sense, and other key aspects of avian biology. Here we report an update to the C. livia genome reference assembly and gene annotation dataset. Greatly increased scaffold lengths in the updated reference assembly, along with an updated annotation set, provide improved tools for evolutionary and functional genetic studies of the pigeon, and for comparative avian genomics in general.

KEYWORDS:

Columba livia; Genome Report; HiRise assembly; MAKER annotation; rock pigeon

PMID:
29519939
PMCID:
PMC5940132
DOI:
10.1534/g3.117.300443
[Indexed for MEDLINE]
Free PMC Article

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