TY - GEN
T1 - Identifying microRNAs in plant genomes
AU - Maher, Christopher
AU - Timmermans, Marja
AU - Stein, Lincoln
AU - Ware, Doreen
PY - 2004/12/1
Y1 - 2004/12/1
N2 - The ability to control gene expression during development in plants could be used for improving crop yields, resistance to disease, and environmental adaptability. It has been suggested that microRNAs, or miRNAs, control developmental processes such as meristem cell identity, organ polarity, and developmental timing by interfering with the expression of mRNAs. Our preliminary analysis focuses on the miR166 family since it has been shown to mediate repression of rolled-leaf1 (rd11) in maize. Based on maize sequences derived from degenerate primers, we computationally identified miR166b, miR166c, miR166d, and four more closely related putative maize precursors. Patscan, a pattern-matching program that allows RNA basepairing and mismatches, was used to identify functional elements in the putative hairpins. Each hairpin was further supported by their stable secondary structures determined with Mfold. Using this pattern matching approach we expanded the analysis for 19 Arabidopsis miRNA families in rice and maize.
AB - The ability to control gene expression during development in plants could be used for improving crop yields, resistance to disease, and environmental adaptability. It has been suggested that microRNAs, or miRNAs, control developmental processes such as meristem cell identity, organ polarity, and developmental timing by interfering with the expression of mRNAs. Our preliminary analysis focuses on the miR166 family since it has been shown to mediate repression of rolled-leaf1 (rd11) in maize. Based on maize sequences derived from degenerate primers, we computationally identified miR166b, miR166c, miR166d, and four more closely related putative maize precursors. Patscan, a pattern-matching program that allows RNA basepairing and mismatches, was used to identify functional elements in the putative hairpins. Each hairpin was further supported by their stable secondary structures determined with Mfold. Using this pattern matching approach we expanded the analysis for 19 Arabidopsis miRNA families in rice and maize.
UR - http://www.scopus.com/inward/record.url?scp=14044272157&partnerID=8YFLogxK
M3 - Conference contribution
AN - SCOPUS:14044272157
SN - 0769521940
SN - 9780769521947
T3 - Proceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004
SP - 718
EP - 723
BT - Proceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004
T2 - Proceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004
Y2 - 16 August 2004 through 19 August 2004
ER -