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Research on the Expressed Sequence Tag of Olives Essay

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Introduction Olive, or scientific name Olea europaea L which belongs to Oleacea family is a valuable plant species where it can produce oil and table olives. Gene at certain tissue in species will be expressed where cDNA are sequenced to produce expressed sequence tag (EST) library. EST database is beneficial as it allows new gene discovery, marker discovery, gene mapping, and functional studies to be carried out. This research has contributed EST library of 2304 clone sequences from the young olive leaf and 1536 clone sequences from the immature olive fruit for Turkish olive cultivar Gemlik. Good quality ESTs are used to further analysed by using Phred-Phrap and Contig Assembly Program 3 (CAP3) software. They were then submitted to…show more content…
EST sequences with vector sequence were edited using Phrap “cross-match” application. Contig Assembly Program 3 (Cap3) was used to assemble the sequences obtained from sequencing for analysis while Consed/Autofinish software was used to control the sequence assembly. All sequences were assembled separately into contigs. BLAST of sequences was conducted to determine the gene homology in order to connect their functions. Unique sequences were analysed for biological characteristics as well as functional annotation using program BLAST2GO. New genes can then be identified eventually. Results Two cDNA libraries were established from olive leaf and fruit, with 2304 clones and 1536 clones respectively. A total of 3840 EST sequences was generated from the two cDNA libraries. 106 low-quality EST sequences were removed by using Phred software. 3734 EST sequences with vector sequence were edited using Phrap “cross-match” application. EST sequences and 1506 high quality fruit EST sequences were assembled using Contig Assembly Program 3 (Cap3) to assemble the sequences separately into contigs. Consequently, homolog genes which were consensus EST sequences in GenBank can then be obtained. 2228 leaf EST sequences were assembled into 205 contigs, length ranged from 514 bases to 1924 bases. 1506 fruit EST sequences were assembled into 69 contigs, length ranged from 461 bases to 1909 bases. The two libraries were then assembled to obtain 299
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