Ocimum basilicum miRNOME revisited: A cross kingdom approach

Genomics. 2019 Jul;111(4):772-785. doi: 10.1016/j.ygeno.2018.04.016. Epub 2018 May 15.

Abstract

O. basilicum is medicinally important herb having inevitable role in human health. However, the mechanism of action is largely unknown. Present study aims to understand the mechanism of regulation of key human target genes that could plausibly modulated by O. basilicum miRNAs in cross kingdom manner using computational and system biology approach. O. basilicum miRNA sequences were retrieved and their corresponding human target genes were identified using psRNA target and interaction analysis of hub nodes. Six O. basilicum derived miRNAs were found to modulate 26 human target genes which were associated `with PI3K-AKTand MAPK signaling pathways with PTPN11, EIF2S2, NOS1, IRS1 and USO1 as top 5 Hub nodes. O. basilicum miRNAs not only regulate key human target genes having a significance in various diseases but also paves the path for future studies that might explore potential of miRNA mediated cross-kingdom regulation, prevention and treatment of various human diseases including cancer.

Keywords: Cross kingdom regulation; Functional analysis; Ocimum basilicum; Pathway analysis; miRNA.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Gene Regulatory Networks*
  • Genome, Human*
  • Golgi Matrix Proteins / genetics
  • Golgi Matrix Proteins / metabolism
  • Humans
  • Insulin Receptor Substrate Proteins / genetics
  • Insulin Receptor Substrate Proteins / metabolism
  • MAP Kinase Signaling System
  • MicroRNAs / genetics*
  • MicroRNAs / metabolism
  • Nitric Oxide Synthase Type I / genetics
  • Nitric Oxide Synthase Type I / metabolism
  • Ocimum basilicum / genetics*
  • Plants, Medicinal / genetics*
  • Protein Tyrosine Phosphatase, Non-Receptor Type 11 / genetics
  • Protein Tyrosine Phosphatase, Non-Receptor Type 11 / metabolism
  • RNA, Plant / genetics*
  • RNA, Plant / metabolism
  • Systems Biology
  • Vesicular Transport Proteins / genetics
  • Vesicular Transport Proteins / metabolism

Substances

  • Golgi Matrix Proteins
  • IRS1 protein, human
  • Insulin Receptor Substrate Proteins
  • MicroRNAs
  • RNA, Plant
  • Vesicular Transport Proteins
  • vesicular transport factor p115
  • NOS1 protein, human
  • Nitric Oxide Synthase Type I
  • PTPN11 protein, human
  • Protein Tyrosine Phosphatase, Non-Receptor Type 11