Unigene-based RNA-seq provides insights on drought stress responses in Marsdenia tenacissima.
Unigene-based RNA-seq provides insights on drought stress responses in Marsdenia tenacissima.
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基于 Unigene 的 RNA-seq 提供了对 Marsdenia tenacissima 干旱胁迫反应的见解
DOI：
10.1371/journal.pone.0202848
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发表时间：
2018
期刊：
影响因子：
3.7
通讯作者：
Yang SC
中科院分区：
文献类型：
--
作者：
Meng HL;Zhang W;Zhang GH;Wang JJ;Meng ZG;Long GQ;Yang SC
Marsdenia tenacissima 是一种著名的中药抗癌药用植物。干旱严重影响生产，并且没有关于其对干旱胁迫的转录反应的信息。在本研究中，构建了对照 (CK)、干旱胁迫 (T1) 和补水 (T2) 处理的 cDNA 文库，并使用 Illumina 平台进行 HiSeq 2000 测序。干净读取数分别为 43,129,228、47,116,844 和 42,815,454，Q20 值分别为 98.06、98.04 和 97.88。当分析 CK 与 T1、CK 与 T2 以及 T1 与 T2 时，分别鉴定出总共 8672、6043 和 6537 个差异表达基因 (DEG)。此外，在 CK、T1 和 T2 中分别鉴定出 1039、1016 和 980 个转录因子 (TF)。其中，CK vs. T1、CK vs. T2、T1 vs. T2 中分别有 363、267 和 299 个 TF 被鉴定为 DEG。这些差异表达的转录因子主要属于bHLH、bZIP、C2H2、ERF、MYB、MYB相关和NAC家族。 CK与T1和T1与T2的比较分析发现，在干旱胁迫下，1174个基因上调，2344个基因下调，这种模式与重新浇水后发现的情况相反。在干旱胁迫上调的 1174 个基因中，有 64 个与直接保护植物免受干旱胁迫的已知功能基因同源。此外，还鉴定了 44 个蛋白激酶和 38 个 TF 在干旱胁迫和重新浇水下具有相反的表达模式，它们可能是 M. tenacissima 抗干旱胁迫的候选调节因子。我们的研究首次描述了 M. tenacissima 转录组对干旱胁迫的响应，并将为未来研究涉及 M. tenacissima 干旱胁迫抗性的候选蛋白激酶和转录因子的功能提供有用的资源。
Marsdenia tenacissima is a well-known anti-cancer medicinal plant used in traditional Chinese medicine. Drought severely affects production and no information on its transcriptional responses to drought stress is available. In this study, cDNA libraries on control (CK), drought stress (T1), and re-watering (T2) treatments were constructed and HiSeq 2000 sequencing was performed using the Illumina platform. There were 43,129,228, 47,116,844, and 42,815,454 clean reads with Q20 values of 98.06, 98.04, and 97.88, respectively. A total of 8672, 6043, and 6537 differentially expressed genes (DEGs) were identified when CK vs. T1, CK vs. T2, and T1 vs. T2, respectively, were analyzed. In addition, 1039, 1016, and 980 transcription factors (TFs) were identified in CK, T1, and T2, respectively. Among them, 363, 267, and 299 TFs were identified as DEGs in CK vs. T1, CK vs. T2, and T1 vs. T2, respectively. These differentially expressed TFs mainly belonged to the bHLH, bZIP, C2H2, ERF, MYB, MYB-related, and NAC families. A comparative analysis of CK vs. T1 and T1 vs. T2 found that 1174 genes were up-regulated and 2344 were down-regulated under drought stress and this pattern was the opposite to that found after re-watering. Among the 1174 genes up-regulated by drought stress, 64 were homologous to known functional genes that directly protect plants against drought stress. Furthermore, 44 protein kinases and 38 TFs with opposite expression patterns under drought stress and re-watering were identified, which are possibly candidate regulators for drought stress resistance in M. tenacissima. Our study is the first to characterize the M. tenacissima transcriptome in response to drought stress, and will serve as a useful resource for future studies on the functions of candidate protein kinases and TFs involved in M. tenacissima drought stress resistance.
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