Reconstruction of unknown donor genome from chimeric pearl sac tissue and host genotypes in pinctada maxima

Khatkar, M.S., Jones, D.B., Toole, P.B., Raadsma, H.W., Jerry, D.R., and Zenger, K.R. (2017) Reconstruction of unknown donor genome from chimeric pearl sac tissue and host genotypes in pinctada maxima. In: Proceedings of the Association for the Advancement of Animal Breeding and Genetics. pp. 445-448. From: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, 2-5 July 2017, Townsville, QLD, Australia.

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Abstract

Commercial pearl production involves two oysters, the seeded individual (host), and a sacrificed oyster (donor) from which a piece of tissue is utilised during the seeding process. During commercial seeding, it is often difficult to keep track of individual pairing information of host and donor oysters. Here we describe a method for reconstructing donor genotypes from host genotypes and allele frequencies generated from chimeric pearl sac tissue (a mixture of host and donor tissues) at pearl harvest. Using simulation of expected genotype frequencies and genotypes from true samples, we demonstrate that donor genotypes can be constructed with high accuracy. Best results were observed when the error rate of allele frequencies is low, SNPs have a high minor allelic frequency, and when the proportion of the donor tissue in the pearl sac tissue is greater than 20 percent.

Item ID: 49826
Item Type: Conference Item (Research - E1)
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Date Deposited: 21 Aug 2017 00:22
FoR Codes: 07 AGRICULTURAL AND VETERINARY SCIENCES > 0704 Fisheries Sciences > 070401 Aquaculture @ 100%
SEO Codes: 83 ANIMAL PRODUCTION AND ANIMAL PRIMARY PRODUCTS > 8301 Fisheries - Aquaculture > 830104 Aquaculture Oysters @ 100%
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