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Genomic characterization of phenylalanine ammonia lyase gene in buckwheat

TitleGenomic characterization of phenylalanine ammonia lyase gene in buckwheat
Publication TypeArticolo su Rivista peer-reviewed
Year of Publication2016
AuthorsThiyagarajan, K., Vitali F., Tolaini Valentina, Galeffi Patrizia, Cantale Cristina, Vikram P., Singh S., De Rossi P., Nobili Chiara, Procacci Silvia, Del Fiore Antonella, Antonini A., Presenti Ombretta, and Brunori Andrea
JournalPLoS ONE
Volume11
ISSN19326203
Keywordsallele, Amino Acid, article, buckwheat, enzymology, Fagopyrum, Fagopyrum dibotrys, Fagopyrum tataricum, gene sequence, Genetic variability, genetics, Genome, indel mutation, nonhuman, phenylalanine ammonia lyase, phenylalanine ammonia lyase gene, Phenylalanine Ammonia-Lyase, phylogenetic tree, Phylogeny, Plant, plant genome, plant protein, Plant Proteins, Polymorphism, Sequence Analysis, Single Nucleotide, single nucleotide polymorphism, zygosity
Abstract

Phenylalanine Ammonia Lyase (PAL) gene which plays a key role in bio-synthesis of medicinally important compounds, Rutin/quercetin was sequence characterized for its efficient genomics application. These compounds possessing anti-diabetic and anti-cancer properties and are predominantly produced by Fagopyrum spp. In the present study, PAL gene was sequenced from three Fagopyrum spp. (F. tataricum, F. esculentum and F. dibotrys) and showed the presence of three SNPs and four insertion/deletions at intra and inter specific level. Among them, the potential SNP (position 949th bp G>C) with Parsimony Informative Site was selected and successfully utilised to individuate the zygosity/allelic variation of 16 F. tataricum varieties. Insertion mutations were identified in coding region, which resulted the change of a stretch of 39 amino acids on the putative protein. Our Study revealed that autogamous species (F. tataricum) has lower frequency of observed SNPs as compared to allogamous species (F. dibotrys and F. esculentum). The identified SNPs in F. tataricum didn't result to amino acid change, while in other two species it caused both conservative and non-conservative variations. Consistent pattern of SNPs across the species revealed their phylogenetic importance. We found two groups of F. tataricum and one of them was closely related with F. dibotrys. Sequence characterization information of PAL gene reported in present investigation can be utilized in genetic improvement of buckwheat in reference to its medicinal value. © 2016 Thiyagarajan et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in anymedium, provided the original author and source are credited.

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URLhttps://www.scopus.com/inward/record.uri?eid=2-s2.0-84962140785&doi=10.1371%2fjournal.pone.0151187&partnerID=40&md5=972168b1352e72d82c810d37c9c18ce9
DOI10.1371/journal.pone.0151187
Citation KeyThiyagarajan2016