title: Identification of microRNAs and their targets in Finger millet by high throughput sequencing.
abstract: MicroRNAs are short non-coding RNAs which play an important role in regulating gene expression by mRNA cleavage or by translational repression. The majority of identified miRNAs were evolutionarily conserved; however, others expressed in a species-specific manner. Finger millet is an important cereal crop; nonetheless, no practical information is available on microRNAs to date. In this study, we have identified 95 conserved microRNAs belonging to 39 families and 3 novel microRNAs by high throughput sequencing. For the identified conserved and novel miRNAs a total of 507 targets were predicted. 11 miRNAs were validated and tissue specificity was determined by stem loop RT-qPCR, Northern blot. GO analyses revealed targets of miRNA were involved in wide range of regulatory functions. This study implies large number of known and novel miRNAs found in Finger millet which may play important role in growth and development.
authors.affiliation: Post Graduate Department of Biochemistry, Maharani's Science College for Women, Bangalore 560001, India; Centre for Bioinformatics, Faculty of Biological Engineering, Shobhit University, Meerut, 250110 India.
authors.forename: S
authors.initials: S
authors.lastname: Usha
authors.affiliation: Post Graduate Department of Biochemistry, Maharani's Science College for Women, Bangalore 560001, India; Centre for Bioinformatics, Faculty of Biological Engineering, Shobhit University, Meerut, 250110 India.
authors.forename: M N
authors.initials: MN
authors.lastname: Jyothi
authors.affiliation: Department of Biochemistry, Indian Institute of Science, Bangalore 560012 India.
authors.forename: N
authors.initials: N
authors.lastname: Sharadamma
authors.affiliation: Centre for Bioinformatics, Faculty of Biological Engineering, Shobhit University, Meerut, 250110 India.
authors.forename: Rekha
authors.initials: R
authors.lastname: Dixit
authors.affiliation: Department of Biochemistry, Central College Campus, Bangalore University, Bangalore 560001 India.
authors.forename: V R
authors.initials: VR
authors.lastname: Devaraj
authors.affiliation: Post Graduate Department of Biochemistry, Maharani's Science College for Women, Bangalore 560001, India. Electronic address: nageshbabur@gmail.com.
authors.forename: R
authors.initials: R
authors.lastname: Nagesh Babu
mesh_terms: D001483:Base Sequence; D031748:Eleusine / Q000235:genetics*; D018506:Gene Expression Regulation, Plant; D059014:High-Throughput Nucleotide Sequencing; D035683:MicroRNAs / Q000235:genetics*; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D018749:RNA, Plant / Q000235:genetics*; D017423:Sequence Analysis, RNA
chemical_list: D035683:MicroRNAs; D018749:RNA, Plant
keywords: GO analysis; RISC; RT-qPCR; TFBs; TSS; cis-regulatory motifs