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Four Seasons of Learning and Engaging Smallholder Farmers - icrisat

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ASS6<br />

ASS64<br />

ASS110<br />

ASS56<br />

Figure 5-9: Examples <strong>of</strong> AS-PCR mapping results<br />

The identified SNPs from cowpea ESTs linked to important traits have been converted into genetic<br />

markers. The converted SNPs are covering several regions <strong>of</strong> the cowpea genetic map, LG 3 (0 ~<br />

1.3cM), LG 7 (13~17.8 cM), LG8 (0~1.3cM), LG9 (3.4~7.3cM), <strong>and</strong> LG10 (40.8~41.7cM), where<br />

genes for several important traits may be present. Allele specific PCR primers (AS-PCR) were designed<br />

<strong>and</strong> tested with a cowpea breeding population. Out <strong>of</strong> the 57 SNP targeted using mismatch approach,<br />

amplification for 10 SNP were found to give robust AS-PCR, which is a good success rate for the marker<br />

development. Allele specific amplification was observed for at least one <strong>of</strong> the two alternative alleles<br />

at these SNP sites. In this study we found AS-PCR to be an efficient, cost effective <strong>and</strong> reliable way for<br />

SNP validation. Earlier studies in barley also revealed efficient validation <strong>of</strong> SNPs by allele specific PCR.<br />

102<br />

<strong>Engaging</strong> <strong>Smallholder</strong> <strong>Farmers</strong> | Tropical Legumes II Project

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