ICRISAT Archival Report 2006 - The seedlings of success in the ...

Table 7. SSR primers used in the study with information on their repeat units, quality index, number of alleles
and PIC values.
No. of
Accessions
Primer Repeat Unit Quality Index Genotyped No. of Alleles PIC Values
CCB1 (CA)10 0.26 1000 20 0.46
CCB9 (CT)22 0.46 951 18 0.53
PGM3 (GAA)5G(GAA)5 0.42 976 11 0.50
PGM101 (AC)7 0.14 984 8 0.43
CCB7 (CT)16 0.24 1000 17 0.47
PGM106 (AAG)13 0.31 1000 11 0.33
PGM109 (CTT)8 0.18 1000 5 0.44
CCB8 (CT)30 0.27 961 24 0.47
PKS21 (CT)6TT(CT)2 0.23 997 8 0.13
PGM5 (GAA)6 0.23 948 8 0.13
PGM10 (AGA)5 0.22 986 7 0.09
PGM16 (TC)8 0.26 962 7 0.17
PGM82 (AC)6AAG(CTAA)3 0.30 995 7 0.32
PKS18 (GGT)4 0.11 999 2 0.02
PKS25 (TTAT)4 0.40 967 10 0.50
PKS26 (TTA)4 0.17 931 7 0.07
CCB10 (CA)15 0.32 898 14 0.59
Principal co-ordinate analysis on 1000 accessions and 20 SSR markers was carried out using DARwin 5.0
Structure program to determine the population structure of the composite collection. The software removes all
those accessions/markers that have high missing values and finally 970 accessions were considered for the
analysis. Principal co-ordinate analysis grouped the accessions into two distinct clusters separating the
cultivated accessions from the wild one’s (Fig.5).
Fig. 5. Factorial analysis of 970 accessions with 17 SSR markers.
HD Upadhyaya, R Bhattacharjee, RK Varshney,
DA Hoisington, CLL Gowda, and S Chandra
Milestone C.3.1.16: Data sets for groundnut and pigeonpea composite set made available globally via Internet
(JB/HDU/RKV/DH/RB/CLLG/SC/KBS, 2010)
Milestone C.3.1.17: Diversity and population structure of finger millet and foxtail millet composite collections
analyzed and reference sets (300 accessions finger millet, 200 foxtail millet) established (HDU/CTH/
RKV/SS/DH/CLLG/SC/JB, 2009)
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