Transcriptomics and co-expression networks reveal tissue-specific responses and regulatory hubs under mild and severe drought in papaya (Carica papaya L.).
Transcriptomics and co-expression networks reveal tissue-specific responses and regulatory hubs under mild and severe drought in papaya (Carica papaya L.).
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转录组学和共表达网络揭示了木瓜中轻度和严重干旱的组织特异性响应和调节中心（Carica Papaya L.）。
DOI：
10.1038/s41598-018-32904-2
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发表时间：
2018-09-28
影响因子：
4.6
通讯作者：
Rodríguez-Zapata LC
中科院分区：
文献类型：
--
作者：
Gamboa-Tuz SD;Pereira-Santana A;Zamora-Briseño JA;Castano E;Espadas-Gil F;Ayala-Sumuano JT;Keb-Llanes MÁ;Sanchez-Teyer F;Rodríguez-Zapata LC
植物通过阿坝依赖和非依赖途径响应干旱胁迫，进而调节转录调控中心。在这里，我们采用Illumina RNA-Seq分析了来自干旱胁迫下番木瓜植物的叶、汁液和根的总共18个cDNA文库。参考和从头转录组学分析分别确定了8，549和6，089个干旱响应基因和unigenes。6和34个基因的核心集同时上调或下调，分别在所有的压力样品。此外，GO富集分析表明，在中度干旱胁迫下，与细胞周期和DNA修复的过程中上调叶片和汁液;而响应非生物胁迫，激素信号，蔗糖代谢，木栓素生物合成上调根。在严重干旱胁迫下，所有组织中与非生物胁迫、激素信号和氧化还原相关的生物学过程均上调。此外，在所有强制降解样品中，类似的生物学过程通常下调。此外，共表达网络分析揭示了3个和8个转录调控模块，分别在叶和根。17个压力相关的TF被确定，可能作为主要的监管枢纽，在叶和根。我们的研究结果提供了深入了解木瓜植物对干旱的分子反应，这可能有助于改善这种重要的热带作物。
Plants respond to drought stress through the ABA dependent and independent pathways, which in turn modulate transcriptional regulatory hubs. Here, we employed Illumina RNA-Seq to analyze a total of 18 cDNA libraries from leaves, sap, and roots of papaya plants under drought stress. Reference and de novo transcriptomic analyses identified 8,549 and 6,089 drought-responsive genes and unigenes, respectively. Core sets of 6 and 34 genes were simultaneously up- or down-regulated, respectively, in all stressed samples. Moreover, GO enrichment analysis revealed that under moderate drought stress, processes related to cell cycle and DNA repair were up-regulated in leaves and sap; while responses to abiotic stress, hormone signaling, sucrose metabolism, and suberin biosynthesis were up-regulated in roots. Under severe drought stress, biological processes related to abiotic stress, hormone signaling, and oxidation-reduction were up-regulated in all tissues. Moreover, similar biological processes were commonly down-regulated in all stressed samples. Furthermore, co-expression network analysis revealed three and eight transcriptionally regulated modules in leaves and roots, respectively. Seventeen stress-related TFs were identified, potentially serving as main regulatory hubs in leaves and roots. Our findings provide insight into the molecular responses of papaya plant to drought, which could contribute to the improvement of this important tropical crop.
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影响因子：
5.8
作者：
Gu, Zuguang;Eils, Roland;Schlesner, Matthias
通讯作者：
Schlesner, Matthias
DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
6.9
作者：
Kehr, Julia;Buhtz, Anja
通讯作者：
Buhtz, Anja
影响因子：
3.7
作者：
Allen JD;Xie Y;Chen M;Girard L;Xiao G
通讯作者：
Xiao G
DOI：
10.1093/bioinformatics/btp101
发表时间：
2009-04-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Bindea G;Mlecnik B;Hackl H;Charoentong P;Tosolini M;Kirilovsky A;Fridman WH;Pagès F;Trajanoski Z;Galon J
通讯作者：
Galon J