Integration of the Pokeweed miRNA and mRNA Transcriptomes Reveals Targeting of Jasmonic Acid-Responsive Genes

Frontiers in Plant Science
Kira C M NellerKatalin A Hudak

Abstract

The American pokeweed plant, Phytolacca americana, displays broad-spectrum resistance to plant viruses and is a heavy metal hyperaccumulator. However, little is known about the regulation of biotic and abiotic stress responses in this non-model plant. To investigate the control of miRNAs in gene expression, we sequenced the small RNA transcriptome of pokeweed treated with jasmonic acid (JA), a hormone that mediates pathogen defense and stress tolerance. We predicted 145 miRNAs responsive to JA, most of which were unique to pokeweed. These miRNAs were low in abundance and condition-specific, with discrete expression change. Integration of paired mRNA-Seq expression data enabled us to identify correlated, novel JA-responsive targets that mediate hormone biosynthesis, signal transduction, and pathogen defense. The expression of approximately half the pairs was positively correlated, an uncommon finding that we functionally validated by mRNA cleavage. Importantly, we report that a pokeweed-specific miRNA targets the transcript of OPR3, novel evidence that a miRNA regulates a JA biosynthesis enzyme. This first large-scale small RNA study of a Phytolaccaceae family member shows that miRNA-mediated control is a significant component o...Continue Reading

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Citations

May 15, 2019·Current Protocols in Plant Biology·Kira C M NellerKatalin A Hudak
May 11, 2021·Frontiers in Molecular Biosciences·Jiali YuMargaret E Staton

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Datasets Mentioned

BETA
SRP069141

Methods Mentioned

BETA
transgenic
RNA-Seq
environmental stresses
reverse transcription PCR
PCR
environmental stress

Software Mentioned

ViennaRNA
RNAfold
Plant Small RNA Target Analysis Server
BLASTn
miRDeep
KOBAS
R
short
BLASTx
Blast2GO

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