Small RNA and mRNA profiling of Arabidopsis in response to Phytophthora infection and PAMP treatment

Yingnan Hou, Wenbo Ma

Research output: Chapter in Book/Report/Conference proceedingChapter


Small non-coding RNAs (smRNAs) regulate gene expression at both transcriptional and post-transcriptional levels. Well known for their roles in development, smRNAs have emerged as important regulators of plant immunity. Upon pathogen perception, accumulation of specific smRNAs are found to be altered, presumably as a host defense response. Therefore, identification of differentially accumulated smRNAs and their target genes would provide important insight into the regulation mechanism of immune responses. Here, we describe the detailed experimental procedure using Illumina sequencing to analyze the expression profiles of smRNAs and mRNAs in Arabidopsis. We focus on a newly developed pathosystem using Phytophthora capsici as the pathogen and include the treatment of Arabidopsis leaves with pathogen-associated molecular patterns (PAMPs) of Phytophthora.

Original languageEnglish
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc
Number of pages11
Publication statusPublished - 2017

Publication series

NameMethods in Molecular Biology
ISSN (Print)1064-3745


  • Next-generation sequencing
  • Pattern-triggered immune response
  • Phytophthora infection
  • RNA-Seq
  • Small RNA-regulated defense response
  • Small RNA-Seq

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