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Journal of Agriculture Food and Development

Journal of Current Plant Science Research - Volume 1

In Silico Analysis of cis-Regulatory Elements of Hexokinase Genes in Tomato (Solanum lycopersicum)

Published on: 09 October 2015

Pages: 1-10

Péter Poór, Gábor Patyi and Irma Tari Karamanos2 and Kiriakos Ktenidis1

Department of Plant Biology, University of Szeged, H-6726 Szeged, Közép Fasor 52, Hungary

Abstract: The upstream promoter sequences of hexokinase genes of tomato (SlHXK) were analyzed in silico to identify their cis-regulatory elements (CREs). The DNA sequences of the SlHXK genes were mined from Sol Genomics Network (SGN) database. The upstream 1.5-kb region of the SlHXK genes was analyzed using SIGNALSCAN program available in Plant Cis-acting Regulatory DNA Elements (PLACE). 106 CREs were found in the upstream promoter region of the four SlHXK genes and 30 CREs were common. The most abundant CRE was GT1CONSENSUS with 45 duplications, which play a role in the regulation of many light-dependent genes. It was followed by ROOTMOTIFTAPOX1, DOFCOREZM, GATABOX and CACTFTPPCA1 with 41, 40, 36 and 32 duplications, respectively, in all four-tomato HXK genes. These CREs may be involved in the regulation of cell-specific tomato HXKs expression. Unknown novel CREs in the promoter sequences of tomato HXKS were also detected using MEME Suite Web Server Tool and motifs were analyzed using TOMTOM Motif Comparison Tool. The first is cytosine and TC enrichment, the second is enrichment in GA and the third in CT. These putative CREs are likely targets of transcriptional factors regulating SlHXK genes, but experimental validation required to verify the results.

Keywords: Cis-regulatory elements, Hexokinase, Promoter, Tomato.

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