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G'day Everyone,
I wasn't sure where to post this question; my apologies if I'm in the wrong spot.
I recently read this paper "Estimates of Genetic Differentiation Measured by FST Do Not Necessarily Require Large Sample Sizes When Using Many SNP Markers" by Willing et al (found here: http://www.plosone.org/article/info%...l.pone.0042649). The paper uses a simulation to determine whether it is necessary to include large numbers of individuals per population to get a good estimate of Fst. It concludes that an increase in the number of SNPs reduces the need for included large numbers of individuals (although confidence continues to increase). I hope I got that right.
I am currently involved in a project which intends to develop SNP libraries for 30 individuals per population for 20 populations. I would really like to decrease the number of individuals per population and increase the total number of populations I use, so that I have better coverage of my study species range. The above paper would support such a move, however, we would like to find examples of this with real data before dropping the number of individuals we include per pop.
Does anyone know of a real data set that looks at this issue? Does anyone have an opinion about the number of individuals that are needed to accurately predict population Fst when you have 1000's of SNPs?
Any comments or thoughts would be greatly appreciated. Thanks in advance.
Kind regards,
Adam Cardilini
Student
I wasn't sure where to post this question; my apologies if I'm in the wrong spot.
I recently read this paper "Estimates of Genetic Differentiation Measured by FST Do Not Necessarily Require Large Sample Sizes When Using Many SNP Markers" by Willing et al (found here: http://www.plosone.org/article/info%...l.pone.0042649). The paper uses a simulation to determine whether it is necessary to include large numbers of individuals per population to get a good estimate of Fst. It concludes that an increase in the number of SNPs reduces the need for included large numbers of individuals (although confidence continues to increase). I hope I got that right.
I am currently involved in a project which intends to develop SNP libraries for 30 individuals per population for 20 populations. I would really like to decrease the number of individuals per population and increase the total number of populations I use, so that I have better coverage of my study species range. The above paper would support such a move, however, we would like to find examples of this with real data before dropping the number of individuals we include per pop.
Does anyone know of a real data set that looks at this issue? Does anyone have an opinion about the number of individuals that are needed to accurately predict population Fst when you have 1000's of SNPs?
Any comments or thoughts would be greatly appreciated. Thanks in advance.
Kind regards,
Adam Cardilini
Student