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Computational Identification of Conserved MicroRNA and their Targets in Coffea canephora by EST Analysis

Shibin, Mohanan and Arun, Chandrashekar (2012) Computational Identification of Conserved MicroRNA and their Targets in Coffea canephora by EST Analysis. Dynamic Biochemistry, Process Biotechnology and Molecular Biology, 6 (2). pp. 70-76.

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Abstract

Comparative genomic tools have been successfully used to predict new miRNAs in different plant and animal species using express ed sequence tag (EST) and genome survey sequence (GSS) analysis. In the present study we identified conserved microRNAs in Coffea canephora identified by EST analysis using a new modified comparative genomics method. Use of this method eliminates false positives to a greater extent. Conserved microRNA belonging to 12 families was identified. All identified miRNA were used to search their potential target genes from the SGN (Solanaceace Genome Network) EST database and a total of 42 potential targets were identifi ed for miRNA families from C. canephora . Most of the miRNA targets were transcription factors which appeared to be involved in plant growth, development and stress responses according to the mRNA target in formation provided by NCBI. The newly identified microRNA can help in better understanding of growth and development Coffea . The improved method can be used for more accurate prediction of microRNA from other plant species with sufficient EST database.

Item Type: Article
Uncontrolled Keywords: Coffea canephora , computational identification, EST analysis, microrna
Subjects: 500 Natural Sciences and Mathematics > 07 Life Sciences > 03 Biochemistry & Molecular Biology
600 Technology > 07 Beverage Technology > 04 Coffee
Divisions: Plant Cell Biotechnology
Depositing User: Food Sci. & Technol. Information Services
Date Deposited: 23 Sep 2016 12:32
Last Modified: 23 Sep 2016 12:32
URI: http://ir.cftri.com/id/eprint/12332

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