title: Transcriptome/degradome-wide identification of R. glutinosa miRNAs and their targets: the role of miRNA activity in the replanting disease.
abstract: Rehmannia glutinosa, a traditional Chinese medicine herb, is unable to grow normally in a soil where the same species has recently been cultivated. The biological basis of this so called "replanting disease" is unknown, but it may involve the action of microRNAs (miRNAs), which are known to be important regulators of plant growth and development. High throughput Solexa/Illumina sequencing was used to generate a transcript library of the R. glutinosa transcriptome and degradome in order to identify possible miRNAs and their targets implicated in the replanting disease. A total of 87,665 unigenes and 589 miRNA families (17 of which have not been identified in plants to date) was identified from the libraries made from a first year (FP) and a second year (SP) crop. A comparison between the FP and SP miRNAs showed that the abundance of eight of the novel and 295 of the known miRNA families differed between the FP and SP plants. Sequencing of the degradome sampled from FP and SP plants led to the identification of 165 transcript targets of 85 of the differentially abundant miRNA families. The interaction of some of these miRNAs with their target(s) is likely to form an important part of the molecular basis of the replanting disease of R. glutinosa.
authors.affiliation: College of Life Sciences, Henan Agricultural University, Zhengzhou, China.
authors.forename: Ming Jie
authors.initials: MJ
authors.lastname: Li
authors.forename: Yan Hui
authors.initials: YH
authors.lastname: Yang
authors.forename: Xin Jian
authors.initials: XJ
authors.lastname: Chen
authors.forename: Feng Qing
authors.initials: FQ
authors.lastname: Wang
authors.forename: Wen Xiong
authors.initials: WX
authors.lastname: Lin
authors.forename: Yan Jie
authors.initials: YJ
authors.lastname: Yi
authors.forename: Lei
authors.initials: L
authors.lastname: Zeng
authors.forename: Shuo Ye
authors.initials: SY
authors.lastname: Yang
authors.forename: Zhong Yi
authors.initials: ZY
authors.lastname: Zhang
mesh_terms: D019295:Computational Biology; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D059014:High-Throughput Nucleotide Sequencing; D035683:MicroRNAs / Q000235:genetics*; D058977:Molecular Sequence Annotation; D064028:Tracheophyta / Q000235:genetics*; D059467:Transcriptome
chemical_list: D035683:MicroRNAs