Small RNA discovery in the interaction between barley and the powdery mildew pathogen

dc.contributor.author Hunt, Matt
dc.contributor.author Banerjee, Sagnik
dc.contributor.author Surana, Priyanka
dc.contributor.author Liu, Meiling
dc.contributor.author Fuerst, Greg
dc.contributor.author Mathioni, Sandra
dc.contributor.author Meyers, Blake
dc.contributor.author Nettleton, Dan
dc.contributor.author Wise, Roger
dc.contributor.department Plant Pathology and Microbiology
dc.contributor.department Statistics (LAS)
dc.contributor.department Bioinformatics and Computational Biology Program
dc.contributor.department Genetics and Genomics
dc.date 2019-09-22T07:26:37.000
dc.date.accessioned 2020-07-02T06:57:28Z
dc.date.available 2020-07-02T06:57:28Z
dc.date.issued 2019-01-01
dc.description.abstract <p>Background: Plants encounter pathogenic and non-pathogenic microorganisms on a nearly constant basis. Small RNAs such as siRNAs and miRNAs/milRNAs influence pathogen virulence and host defense responses. We exploited the biotrophic interaction between the powdery mildew fungus, Blumeria graminis f. sp. hordei (Bgh), and its diploid host plant, barley (Hordeum vulgare) to explore fungal and plant sRNAs expressed during Bgh infection of barley leaf epidermal cells.</p> <p>Results: RNA was isolated from four fast-neutron immune-signaling mutants and their progenitor over a time course representing key stages of Bgh infection, including appressorium formation, penetration of epidermal cells, and development of haustorial feeding structures. The Cereal Introduction (CI) 16151 progenitor carries the resistance allele Mla6, while Bgh isolate 5874 harbors the AVRa6 avirulence effector, resulting in an incompatible interaction. Parallel Analysis of RNA Ends (PARE) was used to verify sRNAs with likely transcript targets in both barley and Bgh. Bgh sRNAs are predicted to regulate effectors, metabolic genes, and translation-related genes. Barley sRNAs are predicted to influence the accumulation of transcripts that encode auxin response factors, NAC transcription factors, homeodomain transcription factors, and several splicing factors. We also identified phasing small interfering RNAs (phasiRNAs) in barley that overlap transcripts that encode receptor-like kinases (RLKs) and nucleotide-binding, leucine-rich domain proteins (NLRs).</p> <p>Conclusions: These data suggest that Bgh sRNAs regulate gene expression in metabolism, translation-related, and pathogen effectors. PARE-validated targets of predicted Bgh milRNAs include both EKA (effectors homologous to AVRk1 and AVRa10) and CSEP (candidate secreted effector protein) families. We also identified barley phasiRNAs and miRNAs in response to Bgh infection. These include phasiRNA loci that overlap with a significant proportion of receptor-like kinases, suggesting an additional sRNA control mechanism may be active in barley leaves as opposed to predominant R-gene phasiRNA overlap in many eudicots. In addition, we identified conserved miRNAs, novel miRNA candidates, and barley genome mapped sRNAs that have PARE validated transcript targets in barley. The miRNA target transcripts are enriched in transcription factors, signaling-related proteins, and photosynthesis-related proteins. Together these results suggest both barley and Bgh control metabolism and infection-related responses via the specific accumulation and targeting of genes via sRNAs.</p>
dc.description.comments <p>This article is published as Hunt, Matt, Sagnik Banerjee, Priyanka Surana, Meiling Liu, Greg Fuerst, Sandra Mathioni, Blake C. Meyers, Dan Nettleton, and Roger P. Wise. "Small RNA discovery in the interaction between barley and the powdery mildew pathogen." <em>BMC Genomics</em> 20 (2019): 610. doi: <a href="https://doi.org/10.1186/s12864-019-5947-z">10.1186/s12864-019-5947-z</a>.</p>
dc.format.mimetype application/pdf
dc.identifier archive/lib.dr.iastate.edu/stat_las_pubs/253/
dc.identifier.articleid 1255
dc.identifier.contextkey 15019024
dc.identifier.s3bucket isulib-bepress-aws-west
dc.identifier.submissionpath stat_las_pubs/253
dc.identifier.uri https://dr.lib.iastate.edu/handle/20.500.12876/90569
dc.language.iso en
dc.source.bitstream archive/lib.dr.iastate.edu/stat_las_pubs/253/2019_Nettleton_SmallDiscovery.pdf|||Fri Jan 14 22:58:09 UTC 2022
dc.source.uri 10.1186/s12864-019-5947-z
dc.subject.disciplines Cell and Developmental Biology
dc.subject.disciplines Computational Biology
dc.subject.disciplines Genetics and Genomics
dc.subject.disciplines Plant Pathology
dc.subject.disciplines Statistical Models
dc.subject.keywords Blumeria
dc.subject.keywords Barley
dc.subject.keywords Small RNA-Seq
dc.subject.keywords Transposable elements
dc.subject.keywords EKA family
dc.subject.keywords CSEPs
dc.subject.keywords Pathogen effectors
dc.title Small RNA discovery in the interaction between barley and the powdery mildew pathogen
dc.type article
dc.type.genre article
dspace.entity.type Publication
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