This site gives a free access to 454 pyrosequencing data of Medicago truncatula small RNAs from nodules and root tips, and to a list of candidate miRNAs identified as described in:
Lelandais-Brière et al., 2009, Genome-wide Medicago truncatula small RNA analysis revealed novel microRNAs and isoforms differentially regulated in roots and nodules, Plant Cell 21:2780-96.
Summary table of small RNA Libraries included in the MIRMED Project:
| Library name | genotype | sample | total read number |
|---|---|---|---|
| N | Jemalong A17 | Mature nodules (3-4 weeks) | 106 618 |
| R | Jemalong A17 | Root tips | 129 137 |
| RS | Jemalong A17 | Root tips treated by Salt (NaCl 100 mM for 1 h) | 8 611 |
Quick search thumbnail ( Use miR# or MIRMED small RNA IDs ) :
Allow to find all informations for a specific Mtr-miRNA of interest (eg “miR166” or “EVSUSMY01BAZRJ”) available in the MIRMED project
Search: search for a small RNA, a miRNA precursor or a predicted target for a sequence of interest
Mtr-miRNA precursors: access tables containing all Mtr-miRNA precursors identified grouped by classes 1 to 5 (defined in Lelandais-Brière et al., 2009)
miRNA homologs in plants: access a table indicating gene number of candidate Mtr-miRNAs in the Mt genome, as well as the number of homologs (defined using 0, 1 or 3 mismatches thresholds) in 6 other plant genomes (Lj: Lotus japonicus, Gm: Glycine max, Vv: Vitis vinifera, Pt: Populus trichocarpa, At: Arabidopsis thaliana, Os: Oryza sativa)
Genome browser: visualize location of small RNAs or miRNA precursors on Mt chromosomes
Targets: access a table of predicted targets for the candidate Mtr-miRNA. Target prediction was determined based on miRanda v1.9 software on the MtGI9 database (http://compbio.dfci.harvard.edu/tgi/cgi-bin/tgi/gimain.pl?gudb=medicago )
Download: download the different datasets (all small RNAs, candidate Mtr-miRNAs, candidate miRNA precursors, miRNA homologs in other plants, predicted targets)