Random and Gene Specific Amplification as Tool for Phylogenetic Assessment: A Study of HIV Subjects From North India

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Author(s) A. K. Sharma | V. N. Sharma | N. R. Kalla | V. Sharma
Pages 384-390
Volume 1
Issue 7
Date July, 2012
Keywords Gene specific primers, AST, ALT, ALP, ALB, liver function, HIV/AIDS, RAPD-PCR, North India, molecular marker
Abstract

Genetic polymorphisms are frequent variations at a specific location in the genome. They arise from the mutation at a locus. This preliminary work is aimed to assess the application of random and gene specific amplification as tools for phylogenetic study in HIV +ve subjects from two North Indian states (Punjab and Rajasthan). DNA extracted from 44 samples of HIV +ve blood (22 samples from each location) was subjected to random amplified polymorphic DNA – polymerase chain reaction (RAPD-PCR) by using 12 different primers. These include RAPD as well as human gene specific primers for liver function parameters. The results were subjected to phylogenetic assessment as well as analysis of molecular variance (AMOVA) for estimating population differentiation. When combined primers were used, AMOVA indicated that, higher percentage of variation (84 %) was attributed to within the population variation than among the population variation (16 %) of region under study. Our results confirm the authenticity of molecular marker analysis as the cluster pattern generated by combined primer analysis seems to be an extended pattern of analysis based on different individual primer sets. A combination of all primer sets will therefore help to provide whole genome coverage and reduce the errors in genetic similarity estimation based on any one marker system alone. These results can be of significant importance in future studies on assessment of genetic polymorphisms by using RAPD as well as gene specific primers.

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