ANALYSIS OF CAROTENOIDS METABOLISMGENES LANDSCAPE IN POTATO AND CLONING OF ZEAXANTHIN EPOXIDASE GENE
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Authors
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Som Dutt
ICAR-CPRI, Shimla
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Kalpana Devi
-
Mamta Chauhan
-
Pinky Raigond
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Dharmendra Kumar
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Milan Kumar Lal
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Arvind Kumar Jaiswal
-
Bandana
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Devendra Kumar
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Satish Kumar Luthra
-
Dinesh Kumar
-
Brajesh Singh
Keywords:
Genome-wide, genome editing, introns, gene structure, genetic engineeringAbstract
Genome-wide identification of all the genes involved in carotenoids biosynthesis were carried out in silico
using potato genome sequence. Of the 12 genes analysed [geranylgeranyl pyrophosphate synthase (GGPS), phytoene synthase
(PSY), f-carotene desaturase (ZDS), carotenoid isomerise (CRTISO), lycopene ε-cyclase (LCY-ε), lycopene β-cyclase (LCY-β),
β-carotene hydroxylase (CHY-β), violaxanthin de-epoxidase (VDE), zeaxanthin epoxidase (ZEP), neoxanthin synthase (NXS),
carotenoid cleavage dioxygenase (CCD), 9-cisepoxycarotenoids dioxygenase (NCED)]; three genes namely ZDS, CRTISO
and LCY-ε was found as single gene, on chromosome 1, 10 and 12, respectively. GGPS (chromosomes 4 & 11), LCY-β
(chromosomes 4 & 10), CHY-β (chromosomes 3& 6) had two genes each. VDE (chromosome 4), NXS (chromosomes 2, 3 &
6) and NCED (chromosome 5, 7 & 8) showed presence of 3, 4 and 5 genes, respectively. CCD (chromosome 1 7 & 8) and
PSY (chromosomes 2, 3, 4, 8 & 12) had six genes each in potato genome. These carotenoid biosynthesis genes differed in
terms of number of introns, length of open reading frame, molecular weight and isoelectric points of deduced proteins,
secondary structure composition etc. This information generated about genes and proteins of carotenoids biosynthesis
pathway in potato may be very crucial and of vital utility for genome editing mediated interventions for enhancing total/
targeted carotenoids content in potato. Further, ZEP was cloned full length. The complete ORF of cloned ZEP was 2010
nucleotides long and encoding a protein having 669 amino acids (NCBI acc no. MK852682). It exhibited variations at 9 amino
acid positions when compared with the one available in potato genome sequence database. These variations at 9 amino
acids might provide some uniqueness to the cloned gene which might be involved in regulation of carotenoid biosynthesis
pathway especially beta-carotene, violaxanthin, zeaxanthin carotenoids etc.
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