E-GEOD-50030 - Phytophthora have distinct endogenous small RNA populations that include short interfering and microRNAs: Phytophthora infestans small RNA

Released on 21 October 2013, last updated on 25 November 2013
Phytophthora infestans
Samples (2)
Protocols (3)
Deep sequencing of small RNAs from three Phytophthora species, P. infestans, P. ramorum and P. sojae, was done to systematically analyze small RNA-generating components of Phytophthora genomes. We found that each species produces two distinct small RNA populations that are predominantly 21- or 25-nucleotides long. We present evidence that 25-nucleotide small RNAs are short-interfering RNAs that silence repetitive genetic elements. In contrast, 21-nucleotide small RNAs are associated with inverted repeats, including a novel microRNA family, and may function at the post-transcriptional level. Phytophthora infestans mycelium small RNAs were sequenced and aligned to the P. infestans genome for analysis.
Experiment type
RNA-seq of non coding RNA 
Caroline M Press, Christopher M Sullivan, Elisabeth J Chapman, J S Hoyer, James C Carrington, Josh T Cuperus, Kerrigan B Gilbert, Kristin D Kasschau, Niklaus J Grünwald, Noah Fahlgren, Stephanie R Bollmann
Exp. designProtocolsVariablesProcessedSeq. reads
Investigation descriptionE-GEOD-50030.idf.txt
Sample and data relationshipE-GEOD-50030.sdrf.txt
Processed data (2)E-GEOD-50030.processed.1.zip, E-GEOD-50030.processed.2.zip