population history

Heidel AJ, Ramos-Onsins AJ, Wang W-K, Chiang T-Y & Mitchell-Olds T 2010 Population history in Arabidopsis halleri using multilocus analysis. Mol Ecol 19:3364-3379.

• given the difficulties in accurately obtaining both alleles from each individual, we have only used one to ensure high-quality data
• as we are interested in the levels and patterns for the entire population, it is valid to take only one allele per individual
• using one allele, we determined the estimates for total, silent, synonymous, nonsynonymous and noncoding polymorphisms, as well as haplotype diversity and the nucleotide divergence