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

Holt, C., Campbell, M., Keays, D. A., Edelman, N., Kapusta, A., Maclary, E., Domyan, E. T., Suh, A., Warren, W. C., Yandell, M., Gilbert, M. T. P., Shapiro, M. D. (May 2018) Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia). G3-Genes Genomes Genetics, 8 (5). pp. 1391-1398. ISSN 2160-1836

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.

Item Type:	Paper
Uncontrolled Keywords:	Columba livia rock pigeon HiRise assembly MAKER annotation Genome Report de-novo eukaryotic genomes sequence database evolution dna alignment elements linkage birds tool Genetics & Heredity
Subjects:	bioinformatics bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > DNA expression bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification bioinformatics > genomics and proteomics > genetics & nucleic acid processing bioinformatics > genomics and proteomics organism description > animal organism description > animal > bird bioinformatics > genomics and proteomics > genetics & nucleic acid processing > transcriptomes bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > DNA expression > transposable elements
CSHL Authors:	Campbell, Michael
Communities:	CSHL labs > Ware lab
Depositing User:	Matt Covey
Date:	4 May 2018
Date Deposited:	01 Jun 2018 18:59
Last Modified:	20 Feb 2024 20:28
PMCID:	PMC5940132
Related URLs:	Publisher
URI:	https://repository.cshl.edu/id/eprint/36716

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