Variations in intergenic spacer rpl20-rps12 of mango (Mangifera indica) chloroplast DNA: implications for cultivar identification and phylogenetic analysis

• DOI: 10.1007/s00606-011-0424-4
• Publication Date: 2011-02-25T04:36:22Z
• Authors: Ishtiaq A. Khan; M. Kamran Azim
• Keywords: Intergenic region; Mangifera

We characterized rpl20-rps12 and atp-rbcL intergenic spacers of chloroplast DNA from 19 mango cultivars to analyze suitability of these regions for assessing intraspecific variation. Analysis of the atp-rbcL region showed no variation, while rpl20-rps12 spacer sequences revealed both intravarietal and inter-subspecific polymorphisms. The intravarietal SNP was at position 360 of rpl20-rps12 spacer [SNP type C(G)]. The first inter-subspecific genotype detected was a C-A variation at position 755 in 16 out of 19 mango cultivars tested. The second inter-subspecific genotype was an insertion of C at position 714 of the rpl20-rps12 spacer, which was detected only in the ‘Langra’ cultivar. Phylogenetic tree construction based on the rpl20-rps12 region grouped ‘Shane-e-khuda,’ ‘Sonara,’ ‘Padri,’ ‘Neelum,’ ‘Gulab Khas,’ ‘Dusehri,’ ‘Chonsa,’ and ‘Cari Saloli’ cultivars together in one group; ‘Anwar Ratol,’ ‘Zafran,’ ‘Tota Pari,’ ‘Safada,’ ‘Kalapahar,’ and ‘Almas’ cultivars in a second group; and ‘Bangan Palli,’ ‘Lohatia,’ ‘Kesar,’ and ‘Bombay Alphonso’ cultivars in a third group. This study supports the applicability of the rpl20-rps12 intergenic region of cpDNA for mango cultivar identification and phylogenetics.