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| Status |
Public on Mar 17, 2016 |
| Title |
Phytophthora infestans Ago1 binds miRNA and sRNAs from effector genes and transposable elements (small RNA-Seq) |
| Organism |
Phytophthora infestans |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
Other
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| Summary |
The plant pathogen Phytophthora infestans encodes four distinct Ago proteins. To identify the sRNA repertoire associated with each PiAgo protein, Ago-sRNA co-immunoprecipitation and sRNA sequencing were carried out. 20-22 nucleotide (nt) sRNAs were identified as the main interaction partners of PiAgo1 and high enrichment of 24-26 nt sRNAs was seen in the PiAgo4-bound sample. The majority of PiAgo-associated sRNAs derived from transposable elements (TEs). The frequencies and sizes of TE-derived sRNAs in the different PiAgo libraries suggested diversified roles of the PiAgo proteins in control of different TE classes. We further provide evidence for involvement of PiAgo1 in the P. infestans miRNA pathway. Protein-coding genes are likely to be regulated by the shared action of PiAgo1 and PiAgo5, as demonstrated by analysis of differential expression. An abundance of sRNAs from genes encoding host cell death-inducing CRN effectors was bound to PiAgo1, implicating this protein in regulation of the expanded CRN gene family. These findings highlight the different roles played by Ago proteins in an economically important plant pathogenic oomyce
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| Overall design |
The number of small RNA samples sequenced from each Argonaute immunoprecipitation were: PiAgo1-IP, three; PiAgo3-IP, one; PiAgo4-IP, two; PiAgo5-IP, one. Control GFP immunoprecipitation: GFP-IP, two. Control input Ago1: two. Total number of samples: eleven.
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| Contributor(s) |
Åsman AM, Fogelqvist J, Vetukuri RR, Dixelius C |
| Citation(s) |
27010746 |
| Submission date |
Oct 26, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Anna Åsman |
| E-mail(s) |
anna.asman@slu.se
|
| Organization name |
Swedish University of Agricultural Sciences (SLU)
|
| Department |
Molecular Sciences
|
| Street address |
PO Box 7080
|
| City |
Uppsala |
| ZIP/Postal code |
SE-750 07 |
| Country |
Sweden |
| |
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| Platforms (1) |
| GPL21069 |
Ion Torrent Proton (Phytophthora infestans) |
|
| Samples (11)
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| This SubSeries is part of SuperSeries: |
| GSE75282 |
Phytophthora infestans Ago1 binds miRNA and sRNAs from effector genes and transposable elements |
|
| Relations |
| BioProject |
PRJNA299833 |
| SRA |
SRP065283 |
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