title: Elucidation of miRNAs-mediated responses to low nitrogen stress by deep sequencing of two soybean genotypes.
abstract: Nitrogen (N) is a major limiting factor in crop production, and plant adaptive responses to low N are involved in many post-transcriptional regulation. Recent studies indicate that miRNAs play important roles in adaptive responses. However, miRNAs in soybean adaptive responses to N limitation have been not reported. We constructed sixteen libraries to identify low N-responsive miRNAs on a genome-wide scale using samples from 2 different genotypes (low N sensitive and low N tolerant) subjected to various periods of low nitrogen stress. Using high-throughput sequencing technology (Illumina-Solexa), we identified 362 known miRNAs variants belonging to 158 families and 90 new miRNAs belonging to 55 families. Among these known miRNAs variants, almost 50% were not different from annotated miRNAs in miRBase. Analyses of their expression patterns showed 150 known miRNAs variants as well as 2 novel miRNAs with differential expressions. These differentially expressed miRNAs between the two soybean genotypes were compared and classified into three groups based on their expression patterns. Predicted targets of these miRNAs were involved in various metabolic and regulatory pathways such as protein degradation, carbohydrate metabolism, hormone signaling pathway, and cellular transport. These findings suggest that miRNAs play important roles in soybean response to low N and contribute to the understanding of the genetic basis of differences in adaptive responses to N limitation between the two soybean genotypes. Our study provides basis for expounding the complex gene regulatory network of these miRNAs.
authors.affiliation: Long Ping Branch, Graduate School of Central South University, Changsha, China.
authors.forename: Yejian
authors.initials: Y
authors.lastname: Wang
authors.forename: Chanjuan
authors.initials: C
authors.lastname: Zhang
authors.forename: Qinnan
authors.initials: Q
authors.lastname: Hao
authors.forename: Aihua
authors.initials: A
authors.lastname: Sha
authors.forename: Rong
authors.initials: R
authors.lastname: Zhou
authors.forename: Xinan
authors.initials: X
authors.lastname: Zhou
authors.forename: Longping
authors.initials: L
authors.lastname: Yuan
mesh_terms: D001483:Base Sequence; D015536:Down-Regulation / Q000187:drug effects / Q000235:genetics; D005091:Exons / Q000235:genetics; D018506:Gene Expression Regulation, Plant / Q000187:drug effects; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D007438:Introns / Q000235:genetics; D035683:MicroRNAs / Q000235:genetics* / Q000378:metabolism; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D009584:Nitrogen / Q000494:pharmacology*; D016366:Open Reading Frames / Q000235:genetics; D018517:Plant Roots / Q000187:drug effects / Q000235:genetics; D018520:Plant Shoots / Q000187:drug effects / Q000235:genetics; D015203:Reproducibility of Results; D020133:Reverse Transcriptase Polymerase Chain Reaction; D017423:Sequence Analysis, RNA; D013025:Glycine max / Q000187:drug effects / Q000235:genetics* / Q000502:physiology*; D013312:Stress, Physiological / Q000187:drug effects / Q000235:genetics*; D015854:Up-Regulation / Q000187:drug effects / Q000235:genetics
chemical_list: D035683:MicroRNAs; D009584:Nitrogen