Program in Medical Biotechnology, National Chung Hsing University, 145 Xingda Rd., South Dist, Taichung City, 402, Taiwan.
Advanced Plant Biotechnology Center, National Chung Hsing University, 145 Xingda Rd., South Dist, Taichung City, 402, Taiwan.
BMC Genomics. 2018 Dec 27;19(1):966. doi: 10.1186/s12864-018-5367-5.
Abiotic and biotic stresses severely affect the growth and reproduction of plants and crops. Determining the critical molecular mechanisms and cellular processes in response to stresses will provide biological insight for addressing both climate change and food crises. RNA sequencing (RNA-Seq) is a revolutionary tool that has been used extensively in plant stress research. However, no existing large-scale RNA-Seq database has been designed to provide information on the stress-specific differentially expressed transcripts that occur across diverse plant species and various stresses.
We have constructed a comprehensive database, the plant stress RNA-Seq nexus (PSRN), which includes 12 plant species, 26 plant-stress RNA-Seq datasets, and 937 samples. All samples are assigned to 133 stress-specific subsets, which are constructed into 254 subset pairs, a comparison between selected two subsets, for stress-specific differentially expressed transcript identification.
PSRN is an open resource for intuitive data exploration, providing expression profiles of coding-transcript/lncRNA and identifying which transcripts are differentially expressed between different stress-specific subsets, in order to support researchers generating new biological insights and hypotheses in molecular breeding or evolution. PSRN is freely available at http://syslab5.nchu.edu.tw/PSRN .
非生物和生物胁迫严重影响植物和作物的生长和繁殖。确定应对胁迫的关键分子机制和细胞过程将为应对气候变化和粮食危机提供生物学见解。RNA 测序（RNA-Seq）是一种革命性的工具，已广泛应用于植物胁迫研究。然而，目前还没有专门设计的大规模 RNA-Seq 数据库来提供有关不同植物物种和各种胁迫下发生的应激特异性差异表达转录本的信息。
我们构建了一个全面的数据库，即植物应激 RNA-Seq 枢纽（PSRN），其中包括 12 个植物物种、26 个植物应激 RNA-Seq 数据集和 937 个样本。所有样本均被分配到 133 个应激特异性子集，这些子集构建成 254 个子集对，用于应激特异性差异表达转录本的识别。
PSRN 是一个直观的数据探索的开源资源，提供了编码转录本/lncRNA 的表达谱，并确定了哪些转录本在不同的应激特异性子集中存在差异表达，以支持研究人员在分子育种或进化中产生新的生物学见解和假说。PSRN 可在 http://syslab5.nchu.edu.tw/PSRN 免费获取。
