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Authors
Affiliations
1 Department of Bioinformatics, University Institute of Engineering and Technology, Chhatrapati Shahuji Maharaj University, Kanpur (U.P.), IN
Source
Asian Journal of Bio Science, Vol 5, No 2 (2010), Pagination: 200-205
Abstract
Several duplicated genes are present in populus genome and have multiple roles in transporting metabolite and synthesis of lignin and cellulose. Duplicated chs genes in Populus genome have been identified to be involved in defense mechanism due to production of flavonoid derived compound with pathogens interaction and sequences of the genes are available in the databases. In this work, one unknown gene (Accession No. EF148325,GI:118488982), expressed due to continuous feeding byMalacosoma disstriaHubner (forest tent caterpillar) in Populus trichocarpa x Populus deltoids, was analyzed by pattern searching and sequence comparison methods. Regulatory sequence analysis tool was used to identify regulatory site using sequence motifs of Arabidopsis thaliana and Zea maize. Using pattern matching approach the consensus pattern was predicted in Populus hybrid, to characterize the function of gene. DNA pattern search program was used to predict the patterns CNGTTR, CANNTG, AC like element, GCCTACC, GCCTACC, ACCTACA, ACCTAAC in upstream sequences of 7 chs genes of P. trichocarpa and one gene (EF148325) of P. Trichocarpa x P. deltoides. CNGTTR, CANNTG, known as b HLH pattern flanked by AC like element, have been predicted in the gene EF14325, which is the promoter for MYB134 regulatory protein which regulate phenylpropanoid metabolism and is involved in activating defenses in herbaceous plants. The gene sequence is compared with chs gene sequences of Populus trichocarpa, β-ketoacylcoa synthase from Populus trichocarpa; Acyltransferase from Ricinus communis; fiddlehead-like protein from Pisum sativum, were close homologs which share 97%, 83%, 77% identity, respectively with protein encoded by target gene and share same product binding site for coumaryl-CoA and malonyl-CoA, a critical step of flavonoid biosynthesis pathway.
Keywords
Populus trichocarpa, P. trichocarpa x P.deltoides, Proanthocyanidine, Chalcone Synthase, Flavonoid, Malacosoma disstria, EF148325.
