caa a22 4500 606209336 CHVBK 20210128101027.0 cr unu---uuuuu 210128e20150501xx s 000 0 eng 10.1007/s00425-015-2255-y doi (NATIONALLICENCE)springer-10.1007/s00425-015-2255-y Mining NGS transcriptomes for miRNAs and dissecting their role in regulating growth, development, and secondary metabolites production in different organs of a medicinal herb, Picrorhiza kurroa [Elektronische Daten] [Ira Vashisht, Prashant Mishra, Tarun Pal, Sreekrishna Chanumolu, Tiratha Singh, Rajinder Chauhan] Main conclusion : This study is the first endeavor on mining of miRNAs and analyzing their involvement in development and secondary metabolism of an endangered medicinal herb Picrorhiza kurroa (P. kurroa ). miRNAs are ubiquitous non-coding RNA species that target complementary sequences of mRNA and result in either translational repression or target degradation in eukaryotes. The role of miRNAs has not been investigated in P. kurroa which is a medicinal herb of industrial value due to the presence of secondary metabolites, picroside-I and picroside-II. Computational identification of miRNAs was done in 6 transcriptomes of P. kurroa generated from root, shoot, and stolon organs varying for growth, development, and culture conditions. All available plant miRNA entries were retrieved from miRBase and used as backend datasets to computationally identify conserved miRNAs in transcriptome data sets. Total 18 conserved miRNAs were detected in P. kurroa followed by target prediction and functional annotation which suggested their possible role in controlling various biological processes. Validation of miRNA and expression analysis by qRT-PCR and 5′ RACE revealed that miRNA-4995 has a regulatory role in terpenoid biosynthesis ultimately affecting the production of picroside-I. miR-5532 and miR-5368 had negligible expression in field-grown samples as compared to in vitro-cultured samples suggesting their role in regulating P. kurroa growth in culture conditions. The study has thus identified novel functions for existing miRNAs which can be further validated for their potential regulatory role. Springer-Verlag Berlin Heidelberg, 2015 miRNA nationallicence Picrorhiza nationallicence Picroside-I nationallicence Picroside-II nationallicence Secondary metabolism nationallicence miRNA : MicroRNA nationallicence P. kurroa : Picrorhiza kurroa nationallicence PKS-25 : P. kurroa in vitro-cultured shoots grown at 25°C nationallicence PKS-15 : P. kurroa in vitro-cultured shoots grown at 15°C nationallicence PKR-25 : P. kurroa in vitro-cultured roots grown at 25°C nationallicence PKSS : P. kurroa field-grown shoots nationallicence PKSR : P. kurroa field-grown roots nationallicence PKSTS : P. kurroa field-grown stolons nationallicence P-I and II : Picroside I and II nationallicence Vashisht Ira Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut Mishra Prashant Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut Pal Tarun Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut Chanumolu Sreekrishna Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut Singh Tiratha Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut Chauhan Rajinder Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut Planta Springer Berlin Heidelberg 241/5(2015-05-01), 1255-1268 0032-0935 241:5<1255 2015 241 425 https://doi.org/10.1007/s00425-015-2255-y text/html Onlinezugriff via DOI BK010053 XK010053 XK010000 Metadata rights reserved Springer special CC-BY-NC licence nationallicence 1 research-article jats NATIONALLICENCE NATIONALLICENCE NL-springer NATIONALLICENCE 856 40 https://doi.org/10.1007/s00425-015-2255-y text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Vashisht Ira Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut NATIONALLICENCE 700 1- Mishra Prashant Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut NATIONALLICENCE 700 1- Pal Tarun Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut NATIONALLICENCE 700 1- Chanumolu Sreekrishna Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut NATIONALLICENCE 700 1- Singh Tiratha Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut NATIONALLICENCE 700 1- Chauhan Rajinder Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, 173234, Waknaghat, Solan, Himachal Pradesh, India aut NATIONALLICENCE 773 0- Planta Springer Berlin Heidelberg 241/5(2015-05-01), 1255-1268 0032-0935 241:5<1255 2015 241 425