4.7 Article

Integrated analysis of smRNAome, transcriptome, and degradome data to decipher microRNAs regulating costunolide biosynthesis in Saussurea lappa

Journal

PLANT SCIENCE
Volume 331, Issue -, Pages -

Publisher

ELSEVIER IRELAND LTD
DOI: 10.1016/j.plantsci.2023.111689

Keywords

Saussurea lappa; Transcription factors; Degradome sequencing; Small RNA sequencing; Plant systems biology; Costunolide; Secondary metabolites; Network analysis; Feed forward loops; miRNAs

Ask authors/readers for more resources

A study was conducted to understand the regulatory mechanism of costunolide biosynthesis in Saussurea lappa. Transcriptome, miRNA, and degradome analyses revealed the roles of miR171c.1 and sla-miR121 as key regulators in connecting different pathways involved in costunolide biosynthesis.
Saussurea lappa (S. lappa) has been known to synthesize medicinally important, costunolide. Due to its immense therapeutic importance, understanding of regulatory mechanism associated with its biosynthesis is crucial. The identification of genes and transcription factors (TFs) in S. lappa, created a clear picture of costunolide biosynthesis pathways. Further to understand the regulation of costunolide biosynthesis by miRNAs, an inte-grated study of transcriptome, miRNAs, and degradome was performed. Identified candidate miRNAs and associated feed-forward loops (FFLs) illustrates their regulatory role in secondary metabolite biosynthesis. Small RNA and degradome sequencing were performed for leaf and root tissues to determine miRNAs-targets pairs. A total of 711 and 525 such targets were obtained for novel and known miRNAs respectively. This data was used to generate costunolide-specific miRNA-TF-gene interactome to perform systematic analyses through graph theo-retical approach. Interestingly, miR171c.1 and sla-miR121 were identified as key regulators to connect and co -regulate both mevalonate and sesquiterpenoid pathways to bio-synthesize costunolide. Tissue-specific FFLs were identified to be involved in costunolide biosynthesis which further suggests the evolutionary co-relation of root -specific networks in synthesis of secondary metabolites in addition to leaf-specific networks. This integrative approach allowed us to determine candidate miRNAs and associated tissue-specific motifs involved in the diversification of secondary metabolites. MiRNAs identified in present study can provide alternatives for bioengineering tool to enhance the synthesis of costunolide and other secondary metabolites in S. lappa.

Authors

I am an author on this paper
Click your name to claim this paper and add it to your profile.

Reviews

Primary Rating

4.7
Not enough ratings

Secondary Ratings

Novelty
-
Significance
-
Scientific rigor
-
Rate this paper

Recommended

No Data Available
No Data Available