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Series GSE6682 Query DataSets for GSE6682
Status Public on Feb 01, 2007
Title Arabidopsis thaliana small RNAs sequences identified using high-throughput 454 sequencing technology
Organism Arabidopsis thaliana
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary To determine the extent to which the major small RNA pathways functions across the Arabidopsis thaliana genome, small RNA populations from several tissues of wild-type (wt) and mutant plants were amplified by RT-PCR and sequenced using high-throughput 454 sequencing technology.
Keywords: small RNAs, high-throughput sequencing
 
Overall design Amplicons were prepared by 5' and 3' adaptor ligation and RT-PCR using small RNA fractions from inflorescence tissue (containing stage 1-12 flowers) of wt Col-0 plants, mutants with defects in each DCL gene (dcl1-7, dcl2-1, dcl3-1, dcl4-2), and mutants with defects in each RDR gene for which a function has been established (rdr1-1, rdr2-1, rdr6-15). Amplicons from whole seedlings (3 day post-germinations) were prepared from Col-0 and rdr6-15 plants. Small RNA preparations from leaf samples of Col-O that were either uninoculated or inoculated by Pseudomonas syringae pv tomato (DC3000hrcC) for 1 hr and 3 hr were also sequenced.
Web link http://asrp.cgrb.oregonstate.edu/db/
 
Contributor(s) Kasschau KD, Fahlgren N, Chapman EJ, Sullivan CM, Cumbie JS, Carrington JC
Citation(s) 17298187, 17299599, 17400893
Submission date Jan 08, 2007
Last update date Mar 16, 2012
Contact name James C Carrington
E-mail jcarrington@danforthcenter.org
Phone 314-587-1202
Organization name Donald Danforth Plant Science Center
Lab James C. Carrington
Street address 975 North Warson Road
City Saint Louis
State/province MO
ZIP/Postal code 63132
Country USA
 
Platforms (1)
GPL4732 Arabidopsis thaliana small RNAs sequences identified using high-throughput 454 sequencing technology
Samples (14)
GSM154336 Col-0, inflorescence tissue (stage 1-12 flowers)
GSM154361 dcl1-7, inflorescence tissue (stage 1-12 flowers)
GSM154362 dcl2-1, inflorescence tissue (stage 1-12 flowers)
Relations
BioProject PRJNA99059

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Supplementary data files not provided
Raw data included within Sample table

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