The following columns are shared by "microsatellite data.csv" and "microsatellite genotypes.csv"
Plate = ABI capillary sequencer plate
Pop = Population ID, see Appendix S1
Mom = Maternal plant sampled in nature
ID = Unique identifier for an offspring from maternal family

microsatellite data.csv:
The remaining columns are paired to denote an allele (fragment size) and its prevalence (peak area) in fragment analysis. For example, for the blue120 locus, there are 8 columns, since 4 distinct alleles are possible in a tetraploid. These columns are denoted by ".1", ".2", ".3", and ".4". When viewing a particular plant, the OH119-11-2 individual has a single allele at the blue120 locus which had a fragment size of "184", and this allele had a peak area of "373420". You will also see that our alleles are reported as integer values. These integer bins were attained following analysis in TANDEM2 (Matschiner and Salzburger 2009). The file "microsatellite data.csv" contains allelic information for all individuals and is used by the R script "MACPR" to infer tetraploid genotypes (Esselink et al. 2004), which are reported in "microsatellite genotypes.csv". 

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Locus decoder for data in .csv and MLTET files

1) In .csv files, our names for each locus are shorthand for specific loci in Appendix S2 of the manuscript:

.csv name	locus name in Appendix S2
Blue120 = 	12035
Green528 = 	52802
Yellow723 = 	72306
Yellow885 = 	88509
Blue568 = 	56849
Green139 =	139206
Red158 = 	158730

2) In MLTET files the loci below are read from left to right in .DAT files
Blue120,Green528,Yellow723,Yellow885,Blue568,Green139,Red158

If you would like to amplify these microsats, please use the primers and PCR conditions for each of these loci reported in Appendix S2.


microsatellite genotypes.csv:
This file reports genotypes at a locus in a four column format (e.g. blue120.1, blue120.2, blue120.3, blue120.4). Unlike the dataset above, there is no longer information on an allele's peak area, since that was used to infer the genotype in this file (Esselink et al. 2004). For example, the OH119-11-2 plant would have a "184" reported in each of the four columns given his/her homozygosity. The R script "MLTET formatter" reformats these data into a format required by MLTET. For examples of MLTET files, see the .DAT files for our 23 populations.

