E-GEOD-20660 - MIRNA Gene Evolution in Arabidopsis lyrata and Arabidopsis thaliana: Illumina sequencing

Status
Released on 14 May 2010, last updated on 1 May 2014
Organism
Arabidopsis lyrata, Arabidopsis thaliana
Samples (4)
Protocols (6)
Description
Deep sequencing of small RNA from three closely related brassicaceae A. thaliana, A. lyrata and Capsella rubella was done to systematically analyze the evolution of MIRNA genes and their targets. Small RNA were extracted from total RNA by size fractionation and converted to DNA amplicons by serial adaptor ligation to both ends followed by RT-PCR. DNA amplicons were sequenced using an Ilumina Genome Analyzer. Resulting sequences were computationally trimmed to remove 3' adaptor sequences. Raw data files (fastq) are unavailable for two of the samples (A.lyrata_flowers-stage1-12_rep1 and A.lyrata_flowers-stage1-12_rep2).
Experiment type
RNA-seq of non coding RNA 
Contacts
Christopher M Sullivan, Detlef Weigel, Elisabeth J Chapman, James C Carrington, Kristin D Kasschau, Lisa M Smith, Mark Dasenko, Noah Fahlgren, Sanjuro Jogdeo, Sascha Laubinger, Scott A Givan
Citation
MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana. Fahlgren N, Jogdeo S, Kasschau KD, Sullivan CM, Chapman EJ, Laubinger S, Smith LM, Dasenko M, Givan SA, Weigel D, Carrington JC. , Europe PMC 20407027
MINSEQE
Exp. designProtocolsFactorsProcessedSeq. reads
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