Studying molecular evolution using tools of bioinformatics: an example from maize starch biosynthetic pathway
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Type
Article
Date
2011-03
Journal Title
NBU Journal of Plant Sciences
Journal Editor
Sen, Arnab
Journal ISSN
Volume Title
Publisher
University of North Bengal
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Ghatak, V., & Ghosh, P. (2011). Studying molecular evolution using tools of bioinformatics: an example from maize starch biosynthetic pathway. NBU Journal of Plant Sciences, 5(1), 1–5. https://ir.nbu.ac.in/handle/123456789/4435
Authors
Ghatak, V
Ghosh, PD
Advisor
Editor
Abstract
Various tools and techniques of bioinformatics are used to reveal the evolutionary pattern and chronology of different phylogenetic events in the evolutionary history of an organism. n maize, shrunken, brittle, waxy and sugary mutants all results from anomalies in the starch biosynthetic pathway. The genes responsible are shl, bt2,wxl and sul respectively. The present article explores and depicts an outline of computer application based methods adopted in a standard molecular phylogenetic analysis using sequence data of these gene products controlling different steps of maize starch biosynthetic pathway. Several such methods namely MSA, PSI-BLAST, Maximum Likelihood analysis and UPGMA analysis reveals that shrunkenl, waxyl and sugaryl have evolutionary rates ranging in between 0.001-0.003 substitutions per Site. Non-synonymous substitution (as polymorphism is analysed using protein sequences) substitution rate is much slower in brittle2 (0.0006). The divergence times between the ancestors of Sorghum and Maize teosinte lineage has been calculated from these non-synonymous substitution rates. MEME analyses and distribution of motifs in these sequences and their homologues suggest changes (duplication and rearrangements) in the genetic material after Sorghum-maize split.
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Edition
Volume
ISBN No
Volume Number
5
Issue Number
1
ISSN No
0974-6927
eISSN No
Pages
Pages
1 - 5