Genomic characterization of phenylalanine ammonia lyase gene in buckwheat
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.
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Public Library of Science
2016
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Subjects: | AGRICULTURAL SCIENCES AND BIOTECHNOLOGY, WHEAT, PHENYLALANINE AMMONIA LYASE, GENOMICS, SINGLE NUCLEOTIDE POLYMORPHISM, |
Online Access: | http://hdl.handle.net/10883/18141 |
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dig-cimmyt-10883-181412023-11-07T20:00:10Z Genomic characterization of phenylalanine ammonia lyase gene in buckwheat Thiyagarajan, K. Vitali, F. Tolaini, V. Galeffi, P. Cantale, C. Vikram, P. Sukhwinder-Singh De Rossi, P. Nobili, C. Procacci, S. Del Fiore, A. Antonini, A. Presenti, O. Brunori, A. AGRICULTURAL SCIENCES AND BIOTECHNOLOGY WHEAT PHENYLALANINE AMMONIA LYASE GENOMICS SINGLE NUCLEOTIDE POLYMORPHISM 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. 1-19 2017-03-14T22:41:21Z 2017-03-14T22:41:21Z 2016 Article http://hdl.handle.net/10883/18141 10.1371/journal.pone.0151187 English https://figshare.com/articles/dataset/Genomic_Characterization_of_Phenylalanine_Ammonia_Lyase_Gene_in_Buckwheat/3952932 CIMMYT manages Intellectual Assets as International Public Goods. The user is free to download, print, store and share this work. In case you want to translate or create any other derivative work and share or distribute such translation/derivative work, please contact CIMMYT-Knowledge-Center@cgiar.org indicating the work you want to use and the kind of use you intend; CIMMYT will contact you with the suitable license for that purpose. Open Access PDF San Francisco, USA Public Library of Science 3 11 e0151187 PLoS ONE |
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AGRICULTURAL SCIENCES AND BIOTECHNOLOGY WHEAT PHENYLALANINE AMMONIA LYASE GENOMICS SINGLE NUCLEOTIDE POLYMORPHISM AGRICULTURAL SCIENCES AND BIOTECHNOLOGY WHEAT PHENYLALANINE AMMONIA LYASE GENOMICS SINGLE NUCLEOTIDE POLYMORPHISM |
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AGRICULTURAL SCIENCES AND BIOTECHNOLOGY WHEAT PHENYLALANINE AMMONIA LYASE GENOMICS SINGLE NUCLEOTIDE POLYMORPHISM AGRICULTURAL SCIENCES AND BIOTECHNOLOGY WHEAT PHENYLALANINE AMMONIA LYASE GENOMICS SINGLE NUCLEOTIDE POLYMORPHISM Thiyagarajan, K. Vitali, F. Tolaini, V. Galeffi, P. Cantale, C. Vikram, P. Sukhwinder-Singh De Rossi, P. Nobili, C. Procacci, S. Del Fiore, A. Antonini, A. Presenti, O. Brunori, A. Genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
description |
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. |
format |
Article |
topic_facet |
AGRICULTURAL SCIENCES AND BIOTECHNOLOGY WHEAT PHENYLALANINE AMMONIA LYASE GENOMICS SINGLE NUCLEOTIDE POLYMORPHISM |
author |
Thiyagarajan, K. Vitali, F. Tolaini, V. Galeffi, P. Cantale, C. Vikram, P. Sukhwinder-Singh De Rossi, P. Nobili, C. Procacci, S. Del Fiore, A. Antonini, A. Presenti, O. Brunori, A. |
author_facet |
Thiyagarajan, K. Vitali, F. Tolaini, V. Galeffi, P. Cantale, C. Vikram, P. Sukhwinder-Singh De Rossi, P. Nobili, C. Procacci, S. Del Fiore, A. Antonini, A. Presenti, O. Brunori, A. |
author_sort |
Thiyagarajan, K. |
title |
Genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
title_short |
Genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
title_full |
Genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
title_fullStr |
Genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
title_full_unstemmed |
Genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
title_sort |
genomic characterization of phenylalanine ammonia lyase gene in buckwheat |
publisher |
Public Library of Science |
publishDate |
2016 |
url |
http://hdl.handle.net/10883/18141 |
work_keys_str_mv |
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