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| Here is a typical autorad (from OSU) with a co-run sequence ladder. The ladder to the right in this image is a di-deoxy sequence of Bluescripttm showing, in this instance, the G/A (repectively) reaction. The ladder helps us to identify single base differences between any two given samples. Alleles were numbered starting with the shortest sequence. In this example you will note that the lowest band (allele) is #1 and the highest is #6, with alleles 2-5 lying in between these points. When the autorads were scored, genotypes were scored as +/- for each allele. The table below is for the scoring of this particular autorad. The +/- data were then converted to 1/0 and used for cluser analysis of genetic similarity. Due to the independent scoring of alleles in the two sets of genotypes at the two labs, we present two data sets. The presence of the three common genotypes should be of assistance in identifying polymorphisms between other genotypes that were not in common. Feel free to develop your own method of scoring these data sets in conjunction with the autorads! (See Z. Liu, et al; 1996; Development of simple sequence repeat DNA markers and their integration into a barley linkage map. TAG 93:869-876.) |
