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Status |
Public on Aug 18, 2017 |
Title |
Paramutation of natural epialleles in tomato [sRNA] |
Organisms |
Solanum lycopersicum; Solanum pimpinellifolium; Solanum pennellii; Solanum lycopersicum x Solanum pennellii |
Experiment type |
Non-coding RNA profiling by high throughput sequencing
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Summary |
By using DNA methylation of introgression lines as a marker of past paramutation, we characterise in details the paramutation of the \textit{H06} locus in crosses between Solanum lycopersicum and a range of tomato relatives and cultivars. Paramutation of H06 depends on the timing of sRNA production and conforms to the RNA-directed model of paramutation. By scanning the methylomes of tomato introgression lines for shared regions of differential methylation, thousands of candidate regions for paramutation are identified. Analysing the segregation of the methylation patterns for a subset of these regions shows variations in the penetrance of paramutation-like interactions.
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Overall design |
sRNA of M82, S. pennellii and their F1 for leaf/flower/pollen, sRNA for Micro-Tom and S. pimpinellifolium seedlings, methylome data of M82 and introgression lines IL1-1, IL2-5 and IL8-3
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Contributor(s) |
Gouil Q |
Citation(s) |
29554868 |
Submission date |
Mar 29, 2017 |
Last update date |
May 31, 2019 |
Contact name |
Quentin Gouil |
Organization name |
Walter and Eliza Hall
|
Department |
Epigenetics and Development
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Lab |
Ritchie lab
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Street address |
1G Royal Parade
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City |
Parkville |
State/province |
VIC |
ZIP/Postal code |
3052 |
Country |
Australia |
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Platforms (6)
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GPL9245 |
Illumina Genome Analyzer (Solanum lycopersicum) |
GPL10777 |
Illumina Genome Analyzer (Solanum lycopersicum x Solanum pennellii) |
GPL16345 |
Illumina HiSeq 2000 (Solanum lycopersicum) |
GPL22467 |
Illumina HiSeq 2000 (Solanum pennellii) |
GPL22468 |
Illumina HiSeq 2000 (Solanum lycopersicum x Solanum pennellii) |
GPL23239 |
Illumina Genome Analyzer (Solanum pimpinellifolium) |
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Samples (31)
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This SubSeries is part of SuperSeries: |
GSE97247 |
Paramutation of natural epialleles in tomato |
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Relations |
BioProject |
PRJNA381072 |
SRA |
SRP102806 |