RNA sequencing analysis reveals transcriptomic variations in tobacco (Nicotiana tabacum) leaves affected by climate, soil, and tillage factors.
RNA sequencing analysis reveals transcriptomic variations in tobacco (Nicotiana tabacum) leaves affected by climate, soil, and tillage factors.
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RNA 测序分析揭示了受气候、土壤和耕作因素影响的烟草 (Nicotiana tabacum) 叶子的转录组变异
DOI：
10.3390/ijms15046137
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发表时间：
2014-04-11
影响因子：
5.6
通讯作者：
Pan W
中科院分区：
文献类型：
--
作者：
Lei B;Lu K;Ding F;Zhang K;Chen Y;Zhao H;Zhang L;Ren Z;Qu C;Guo W;Wang J;Pan W
植物的生长发育对周围环境很敏感。虽然许多研究已经分析了植物转录变异，但很少有人量化因素组合的影响或确定特定因素的影响。在本研究中，我们对来自气候因素(CFS)、土壤因素(SFS)和耕作因素(TFS)三组生态因素的10个处理组合的烟草叶片进行了RNA测序(RNA-seq)分析。我们检测到受CFS、SFS和TFS影响的差异表达基因(DGs)分别为4980、2916和1605个，分别包括2703、768和507个特异DGs和703个共同DGs(同时受CFS、SFS和TFS调控)。GO和KEGG富集化分析表明，参与非生物胁迫反应和次生代谢途径的基因在普通DEG和Cf特异性DEG中过度表达。此外，我们还注意到与昼夜节律有关的Cf特有DEGS的丰富，与矿质养分吸收和运输有关的SF特有DEGS，以及与光合作用相关的SF和Tf特有DEGS。基于这些结果，我们提出了一个在转录水平上解释植物如何适应各种生态因素的模型。此外，所鉴定的DEGS为进一步研究烟草的抗逆性、昼夜节律和光合作用奠定了基础。
The growth and development of plants are sensitive to their surroundings. Although numerous studies have analyzed plant transcriptomic variation, few have quantified the effect of combinations of factors or identified factor-specific effects. In this study, we performed RNA sequencing (RNA-seq) analysis on tobacco leaves derived from 10 treatment combinations of three groups of ecological factors, i.e., climate factors (CFs), soil factors (SFs), and tillage factors (TFs). We detected 4980, 2916, and 1605 differentially expressed genes (DEGs) that were affected by CFs, SFs, and TFs, which included 2703, 768, and 507 specific and 703 common DEGs (simultaneously regulated by CFs, SFs, and TFs), respectively. GO and KEGG enrichment analyses showed that genes involved in abiotic stress responses and secondary metabolic pathways were overrepresented in the common and CF-specific DEGs. In addition, we noted enrichment in CF-specific DEGs related to the circadian rhythm, SF-specific DEGs involved in mineral nutrient absorption and transport, and SF- and TF-specific DEGs associated with photosynthesis. Based on these results, we propose a model that explains how plants adapt to various ecological factors at the transcriptomic level. Additionally, the identified DEGs lay the foundation for future investigations of stress resistance, circadian rhythm and photosynthesis in tobacco.
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DOI：
10.3109/10425179809008472
发表时间：
1998-01-01
期刊：
DNA SEQUENCE
影响因子：
--
作者：
Anai, T;Kono, N;Hasegawa, K
通讯作者：
Hasegawa, K
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
影响因子：
12.3
作者：
Dal Santo S;Tornielli GB;Zenoni S;Fasoli M;Farina L;Anesi A;Guzzo F;Delledonne M;Pezzotti M
通讯作者：
Pezzotti M
影响因子：
5.4
作者：
Malone JH;Oliver B
通讯作者：
Oliver B
影响因子：
4.8
作者：
Chen Song;Xia Guo-mian;Zhang Guo-Ping
通讯作者：
Zhang Guo-Ping