Details:

Personal Author:
Garvin, M. R. ; Masuda, M. M. ; Pella, Jerome ; Barry, P. D. ; Fuller, S. A. ; ... More +
Garvin, M. R. ; Masuda, M. M. ; Pella, Jerome ; Barry, P. D. ; Fuller, S. A. ; Riley, R. J. ; Wilmot, Richard L. ; Brykov, V. ; Gharrett, Anthony J. (Anthony John) ; Less -
Corporate Authors:
Alaska Fisheries Science Center (U.S.) ;
NOAA Program & Office:
NMFS (National Marine Fisheries Service) ; AFSC (Alaska Fisheries Science Center) ;
NMFS (National Marine Fisheries Service) ; AFSC (Alaska Fisheries Science Center) ; Less -
Description:
"The determination of the origin of individuals from a mixture composed of multiple populations is becoming a routine tool for the management and study of an increasing number of taxa. It is accomplished by applying statistical methods and a reference genetic baseline whose accuracy and precision must be evaluated to determine its utility. Earlier evaluation methods that used simulated mixtures from a baseline with standard maximum likelihood (ML) methods for mixed-stock analysis (MSA) provided optimistic evaluations of baselines. More recent methods address the optimism but are based solely on ML methods and either do not accommodate potentially informative haploid data or require larger datasets than are available or possible. We used data from a developing baseline for chum salmon (Oncorhynchus keta) that includes single nucleotide polymorphisms (SNPs) and microsatellites to produce a method that we call 'leave-ten-percent-out cross-validation' (LTO). This method avoids optimism in baseline evaluation, uses only observed multi-locus genotypes, accepts haploid and diploid data, applies Bayesian methods of MSA, and is less dependent on large baseline sample sizes. In order to further guide the development of genetic baselines, we also simulated increasing numbers of SNP loci and used LTO and logistic regression to estimate the number of informative SNP loci that would be necessary to achieve a specified rate of correct individual assignment."
Content Notes:
by M.R. Garvin, M.M. Masuda, J.J. Pella, P.D. Barry, S.A. Fuller, R.J. Riley, R.L. Wilmot, V. Brykov, and A.J. Gharrett. "November 2014." System requirements: Adobe Acrobat Reader. Includes bibliographical references (pages 19-25).
Keywords:
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Chum Salmon
Evaluation
Fisheries
Fish Stock Identification
Genetic Aspects
Genetics
Methodology
Research

Series:
NOAA technical memorandum NMFS-AFSC ; 283; NOAA technical memorandum NMFS ;
NOAA technical memorandum NMFS-AFSC ; 283; NOAA technical memorandum NMFS ; Less -
Document Type:
Technical Memorandum ;
Place as Subject:
Alaska ; Alaska, Gulf of ;
Alaska ; Alaska, Gulf of ; Less -
Rights Information:
Public Domain
Compliance:
Library
Main Document Checksum:
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urn:sha256:42fccef480c2430ca0a699728968025597d78dc2c0ee3469573d22d9bfa63005
File Type:

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