Welcome to FmMiRNADb

FmMiRNADb (Foxtail millet micro RNA database) is the first online database of microRNA (miRNA) sequences, its annotation and secondary structure for the model crop Setaria italica L.. miRNAs play a prominent role in gene regulation during multiple biological processes including stress response, through post-transcriptional control. Foxtail millet, the second largest cultivated millet species has been recently considered to be a tractable model crop for studying functional genomics, as it possesses a small genome (~515 Mb), short life-cycle, rich genetic diversity (~6,000 varieties), inbreeding nature and closely-related to several bioenergy grasses. Recently, the draft genome sequence was released by US Department of Energy - Joint Genome Initiative and Beijing Genomics Institute, China.

Being a potential abiotic stress tolerant crop, foxtail millet is also used as model to decipher the molecular mechanism involved in tolerance towards abiotic stresses such as drought and salinity. Hence, our group conducted a genome-wide investigation to identify the miRNAs and our study reported 355 mature miRNAs to be encoded by the foxtail millet genome. Further, all the 355 miRNAs were annotated and its respective secondary structures were predicted. Noteworthy, from these 355 miRNAs, 123 primer pairs were developed as miRNA-based molecular markers and 24 of them were validated in a set of foxtail millet accessions.

With a view of providing the information generated on miRNAs to the plant research community, this FmMiRNADb was constructed. Currently, this database encompasses all the details of 355 Setaria italica miRNAs including its molecular characteristics, sequences, annotation, physical position, secondary structure and comparative genome mapping information between the physically mapped miRNAs of foxtail millet and sorghum, maize, rice and Brachypodium. In addition, the database also harbors the 123 miRNA-based molecular markers developed in foxtail millet.

The design of FmMiRNADb database schema follows the "Three-Level-Schema" architecture, is shown in figure 1, developed using open-source softwares, MySQL, Apache and PHP. The FmMiRNADb schema is shown in the figure 2.

Go to "Browse" tab on home page to start using FmMiRNADb.


Cite Us:

Y. Khan*, A. Yadav*, B. V. Suresh*, M. Muthamilarasan, C. B. Yadav and M. Prasad (2014). Comprehensive genome-wide identification and expression profiling of foxtail millet [Setaria italica (L.)] miRNAs in response to abiotic stress and development of miRNA database. Plant Cell, Tissue and Organ Culture (PCTOC). Accepted. (DOI 10.1007/s11240-014-0480-x). (*Equal Contribution)

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