Unknown,Transcriptomics,Genomics,Proteomics

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High-throughput pyrosequencing of endogenous small RNAs from Solanum lycopersicum leaf and fruit


ABSTRACT: Comparison of the endogenous small RNA content of tomato leaves and fruits. Size fractionated small RNA from total RNA extracts was ligated to adapters, purified again and reverse transcribed. After PCR amplification the sample was subjected to 454 high throughput pyrosequencing. Please see www.454.com for details of the sequencing technology. Note: Raw data files were not available from 454 at the time this experiment was carried out.

ORGANISM(S): Solanum lycopersicum

SUBMITTER: Frank Schwach 

PROVIDER: E-GEOD-12081 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening.

Moxon Simon S   Jing Runchun R   Szittya Gyorgy G   Schwach Frank F   Rusholme Pilcher Rachel L RL   Moulton Vincent V   Dalmay Tamas T  

Genome research 20080724 10


In plants there are several classes of 21-24-nt short RNAs that regulate gene expression. The most conserved class is the microRNAs (miRNAs), although some miRNAs are found only in specific species. We used high-throughput pyrosequencing to identify conserved and nonconserved miRNAs and other short RNAs in tomato fruit and leaf. Several conserved miRNAs showed tissue-specific expression, which, combined with target gene validation results, suggests that miRNAs may play a role in fleshy fruit dev  ...[more]

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