文献类型：期刊文献

英文题名：Pln24NT: a web resource for plant 24-nt siRNA producing loci

作者：Liu, Qi[1] Ding, Changjun[1] Chu, Yanguang[1] Zhang, Weixi[1] Guo, Ganggang[2] Chen, Jiafei[1] Su, Xiaohua[1,3]

第一作者：Liu, Qi

通信作者：Su, XH[1];Su, XH[2]

机构：[1]Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Key Lab Tree Breeding & Cultivat State Forestry A, Beijing, Peoples R China;[2]Chinese Acad Agr Sci, Inst Crop Sci, Beijing 100081, Peoples R China;[3]Nanjing Forestry Univ, Coinnovat Ctr Sustainable Forestry Southern China, Nanjing 210037, Jiangsu, Peoples R China

年份：2017

卷号：33

期号：13

起止页码：2065-2067

外文期刊名：BIOINFORMATICS

收录：;Scopus(收录号：2-s2.0-85021791186);WOS:【SCI-EXPANDED(收录号:WOS:000404054700029)】；

基金：This work was supported by the National Key Research and Development Program of China (Grant No. 2016YFD0600401) and Fundamental Research Funds of CAF (Grant No. CAFYBB2017ZY006).

语种：英文

摘要：In plants, 24 nucleotide small interfering RNAs (24-nt siRNAs) account for a large percentage of the total siRNA pool, and they play an important role in guiding plant-specific RNA-directed DNA methylation (RdDM), which transcriptionally silences transposon elements, transgenes, repetitive sequences and some endogenous genes. Several loci in plant genomes produce clusters of 24-nt RNAs, and these loci are receiving increasing attention from the research community. However, at present there is no bioinformatics resource dedicated to 24-nt siRNA loci and their derived 24-nt siRNAs. Thus, in this study, Pln24NT, a freely available web resource, was created to centralize 24-nt siRNA loci and 24-nt siRNA information, including fundamental locus information, expression profiles and annotation of transposon elements, from next-generation sequencing (NGS) data for 10 popular plant species. An intuitive web interface was also developed for convenient searching and browsing, and analytical tools were included to help users flexibly analyze their own siRNA NGS data. Pln24NT will help the plant research community to discover and characterize 24-nt siRNAs, and may prove useful for studying the roles of siRNA in RNA-directed DNA methylation in plants.