Computational and Expression Analysis of Anthocyanin Biosynthesis Genes in Tomato (Solanum lycopersicum L.)
KrishiKosh
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Title |
Computational and Expression Analysis of Anthocyanin Biosynthesis Genes in Tomato (Solanum lycopersicum L.)
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Creator |
DINABANDHU BEHERA
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Contributor |
T. R. Sharma
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Subject |
genes, anthocyanins, vegetables, planting, fruits, aromatic compounds, enzymes, proteins, genomes, pcr
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Description |
T-8585
Anthocyanins provide diverse kinds of functions in plants and offer huge human health benefits. The latest tomato genome draft sequence version release 2.40 was used to analyze anthocyanin genes, annotate gene structures and to determine their exact physical locations in different chromosomes. The position of 5′ UTR, 3′ UTR, length of ORF and upstream basal promoters were detected for seven anthocyanin pathway genes viz. CHS, CHI, F3H, F3′5′H, DFR, ANS, and UF3GT. The genes F3H, DFR, ANS, and UF3GT were of single copy each whereas CHS, CHI, and F3′5′H were having two copies each. Physically the genes CHI, F3H, F3′5′H, DFR, ANS, and UF3GT were located in chromosomes 5, 2, 11, 2, 8 and 10, respectively. The two genes CHS1 and CHS2 have been identified in chromosomes 5 and 8 respectively. Except CHI, all the genes were present on long arm of chromosomes. The 1kb upstream region was analyzed by PLACE database to find cis regulatory elements (CRE) motifs. Out of 145 types of CREs found in the seven genes, 93 have been annotated to involve in plant stress responses and 16 in binding sites for MYB and bHLH transcription factors regulating the expression of seven genes for anthocyanin production. Expression analysis of these genes carried out by both RT- PCR and RT-qPCR showed that CHI, DFR and ANS might be the rate limiting enzymes for non-production of anthocyanin in the cultivated tomatoes. Comparative analysis of six common anthocyanin pathway genes between different species of solanaceae and poaceae showed that the downstream enzymes evolve more rapidly than the upstream enzymes and CHI might have undergone ancient duplication and subsequent divergence during evolution. Predicted protein structures between tomato and maize revealed that CHS was highly conserved whereas CHI was highly variable. Expression analyses of anthocyanin biosynthesis genes of Indian tomato cultivars in present investigation will act as important basis for understanding of the development of anthocyanin enriched tomatoes since the fruit is consumed as a favorite dish. |
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Date |
2016-12-15T10:58:26Z
2016-12-15T10:58:26Z 2012 |
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Type |
Thesis
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Identifier |
http://krishikosh.egranth.ac.in/handle/1/90267
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Format |
application/pdf
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Publisher |
IARI, DIVISION OF MOLECULAR BIOLOGY AND BIOTECHNOLOGY
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