Identification of Conserved and Novel MicroRNAs with their Targets in Garden Pea (Pisum sativum L.) Leaves by High-Throughput Sequencing

Abstract

MicroRNAs (miRNAs) are single-stranded, endogenous, non-coding RNAs of 20–24 nucleotides that play a significant role in post-transcriptional gene regulation. Various conserved and novel miRNAs have been characterized, especially from the plant species whose genomes were well-characterized; however, information on miRNA in economically important plants such as pea ( Pisum sativum L.) is limited. In this study, I have identified conserved and novel miRNA in garden pea plant leaves samples along with their targets by analyzing the next generation sequencing (NGS) data. The raw data obtained from NGS were processed and 1.38 million high-quality non-redundant reads were retained for analysis, this tremendous quantity of reads indicates a large and diverse small RNA population in pea leaves. After analyzing the deep sequencing data, 255 conserved and 11 novel miRNAs were identified in the garden pea leaves sample. Utilizing psRNATarget tool, the miRNA targets of conserved and novel miRNA were predicted. Further, the functional annotation of the miRNA targets were performed using blast2Go software and the target gene products were predicted. The miRNA target gene products along with GO_ID (Gene Ontology Identifier) were categorized into biological processes, cellular components, and molecular functions. The information obtained from this study will provide genomic resources that will help in understanding miRNA-mediated post-transcriptional gene regulation in garden peas.

Identification and expression profiling of microRNAs in leaf tissues of Foeniculum vulgare Mill. under salinity stress

“… 39 Remarkably, all the predicted precursor structures of the fennel miRNAs showed high MFEI values that ranged from 0.71 to 1.47, with an average of 1.03, which is greater than the MFEI values associated with other RNA species (e.g., mRNAs: 0.62–0.66, tRNAs: 0.64, or rRNAs: 0.59). 40 In our assessment, a notable predominance of uracil at the initial position of the predicted miRNAs was also acknowledged. This observation reinforces the reliability of our results and aligns with previous findings emphasizing the pivotal role of uracil at the start of the mature miRNA in governing miRNA-mediated regulatory mechanisms.…”