Dissertation/Thesis Abstract

Sequence Capture Baits for Genetic Analysis in Anatidae
by Jones, Melissa, M.S., University of California, Davis, 2019, 45; 13419913
Abstract (Summary)

This project aims to develop a panel of sequence capture baits to use for SNP genotyping for pedigree analysis in Wood Ducks (Aix sponsa ) as well as for general population genetic analysis within species in the family Anatidae. SbfI RAD libraries were prepared with samples comprising five duck species (N = 96). Sequenced libraries were aligned to the Mallard (Anas platyrhynchos) reference genome and screened for 120bp regions proximal to the SbfI cutsite that contained SNPs conserved collectively in each species. A series of screenings identified regions which were used to produce 2,508 custom sequence capture baits. These baits were tested in novel individuals from the same species used to design the baits as well as novel species representing different taxonomic ingroup and outgroup levels within Aves. These baits delineate species at various taxonomic scales, even above the taxonomic level that was originally targeted and will prove useful for analyses of population and comparative genetics for species of Anatidae and perhaps more broadly.

Indexing (document details)
Advisor: Eadie, John M.
Commitee: Hull, Joshua M., Miller, Michael R.
School: University of California, Davis
Department: Avian Sciences
School Location: United States -- California
Source: MAI 58/04M(E), Masters Abstracts International
Subjects: Ecology, Genetics, Conservation biology
Keywords: Genetics, RADseq, SNP, Waterfowl
Publication Number: 13419913
ISBN: 978-0-438-93107-7
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