title: Small RNA and mRNA Profiling of Arabidopsis in Response to Phytophthora Infection and PAMP Treatment.
abstract: 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.
authors.affiliation: Department of Plant Pathology and Microbiology, University of California, Riverside, CA, 92521, USA.|Center for Plant Cell Biology, University of California, Riverside, CA, 92521, USA.
authors.forename: Yingnan
authors.initials: Y
authors.lastname: Hou
authors.affiliation: Department of Plant Pathology and Microbiology, University of California, Riverside, CA, 92521, USA. wenbo.ma@ucr.edu.|Center for Plant Cell Biology, University of California, Riverside, CA, 92521, USA. wenbo.ma@ucr.edu.
authors.forename: Wenbo
authors.initials: W
authors.lastname: Ma
mesh_terms: D017360:Arabidopsis / Q000235:genetics / Q000276:immunology / Q000469:parasitology*; D020869:Gene Expression Profiling / Q000379:methods*; D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D000069452:Pathogen-Associated Molecular Pattern Molecules / Q000276:immunology; D010838:Phytophthora / Q000472:pathogenicity*; D010935:Plant Diseases / Q000235:genetics / Q000469:parasitology; D057865:Plant Immunity; D012333:RNA, Messenger / Q000235:genetics; D018749:RNA, Plant / Q000235:genetics; D058727:RNA, Small Untranslated / Q000235:genetics*; D017423:Sequence Analysis, RNA / Q000379:methods*
chemical_list: D000069452:Pathogen-Associated Molecular Pattern Molecules; D012333:RNA, Messenger; D018749:RNA, Plant; D058727:RNA, Small Untranslated
keywords: Next-generation sequencing; Pattern-triggered immune response; Phytophthora infection; RNA-Seq; Small RNA-Seq; Small RNA-regulated defense response