Sample size requirements for genetic studies on yellowfin tuna

In population genetics, the amount of information for an analytical task is governed by the number of individuals sampled and the amount of genetic information measured on each of those individuals. In this work, we assessed the numbers of individual yellowfin tuna (Thunnus albacares) and genetic ma...

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Autores principales: Scott D. Foster, Pierre Feutry, Peter Grewe, Campbell Davies
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Publicado: Public Library of Science (PLoS) 2021
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Acceso en línea:https://doaj.org/article/ed0f3a5f3cb54872a1e2147e2e7f6d9f
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spelling oai:doaj.org-article:ed0f3a5f3cb54872a1e2147e2e7f6d9f2021-11-11T07:14:40ZSample size requirements for genetic studies on yellowfin tuna1932-6203https://doaj.org/article/ed0f3a5f3cb54872a1e2147e2e7f6d9f2021-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC8568148/?tool=EBIhttps://doaj.org/toc/1932-6203In population genetics, the amount of information for an analytical task is governed by the number of individuals sampled and the amount of genetic information measured on each of those individuals. In this work, we assessed the numbers of individual yellowfin tuna (Thunnus albacares) and genetic markers required for ocean-basin scale inferences. We assessed this for three distinct data analysis tasks that are often employed: testing for differences between genetic profiles; stock delineation, and; assignment of individuals to stocks. For all analytical tasks, we used real (not simulated) data from four sampling locations that span the tropical Pacific Ocean. Whilst spatially separated, the genetic differences between the sampling sites were not substantial, a maximum of approximately Fst = 0.02, which is quite typical of large pelagic fish. We repeatedly sub-sampled the data, mimicking a new survey, and performed the analyses. False positive rates were also assessed by re-sampling and randomly assigning fish to groups. Varying the sample sizes indicated that some analytical tasks, namely profile testing, required relatively few individuals per sampling location (n ≳ 10) and single nucleotide polymorphisms (SNPs, m ≳ 256). Stock delineation required more individuals per sampling location (n ≳ 25). Assignment of fish to sampling locations required substantially more individuals, more in fact than we had available (n > 50), although this sample size could be reduced to n ≳ 30 when individual fish were assumed to belong to one of the groups sampled. With these results, designers of molecular ecological surveys for yellowfin tuna, and users of information from them, can assess whether the information content is adequate for the required inferential task.Scott D. FosterPierre FeutryPeter GreweCampbell DaviesPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 11 (2021)
institution DOAJ
collection DOAJ
language EN
topic Medicine
R
Science
Q
spellingShingle Medicine
R
Science
Q
Scott D. Foster
Pierre Feutry
Peter Grewe
Campbell Davies
Sample size requirements for genetic studies on yellowfin tuna
description In population genetics, the amount of information for an analytical task is governed by the number of individuals sampled and the amount of genetic information measured on each of those individuals. In this work, we assessed the numbers of individual yellowfin tuna (Thunnus albacares) and genetic markers required for ocean-basin scale inferences. We assessed this for three distinct data analysis tasks that are often employed: testing for differences between genetic profiles; stock delineation, and; assignment of individuals to stocks. For all analytical tasks, we used real (not simulated) data from four sampling locations that span the tropical Pacific Ocean. Whilst spatially separated, the genetic differences between the sampling sites were not substantial, a maximum of approximately Fst = 0.02, which is quite typical of large pelagic fish. We repeatedly sub-sampled the data, mimicking a new survey, and performed the analyses. False positive rates were also assessed by re-sampling and randomly assigning fish to groups. Varying the sample sizes indicated that some analytical tasks, namely profile testing, required relatively few individuals per sampling location (n ≳ 10) and single nucleotide polymorphisms (SNPs, m ≳ 256). Stock delineation required more individuals per sampling location (n ≳ 25). Assignment of fish to sampling locations required substantially more individuals, more in fact than we had available (n > 50), although this sample size could be reduced to n ≳ 30 when individual fish were assumed to belong to one of the groups sampled. With these results, designers of molecular ecological surveys for yellowfin tuna, and users of information from them, can assess whether the information content is adequate for the required inferential task.
format article
author Scott D. Foster
Pierre Feutry
Peter Grewe
Campbell Davies
author_facet Scott D. Foster
Pierre Feutry
Peter Grewe
Campbell Davies
author_sort Scott D. Foster
title Sample size requirements for genetic studies on yellowfin tuna
title_short Sample size requirements for genetic studies on yellowfin tuna
title_full Sample size requirements for genetic studies on yellowfin tuna
title_fullStr Sample size requirements for genetic studies on yellowfin tuna
title_full_unstemmed Sample size requirements for genetic studies on yellowfin tuna
title_sort sample size requirements for genetic studies on yellowfin tuna
publisher Public Library of Science (PLoS)
publishDate 2021
url https://doaj.org/article/ed0f3a5f3cb54872a1e2147e2e7f6d9f
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