联合转录组和代谢组分析光照对番茄果实成熟的影响

Integrated transcriptomic and metabolomic analysis on the effects of light on fruit ripening in tomato

  • 摘要: 【目的】 通过联合转录组和代谢组分析光照对番茄果实成熟的影响,为探究光照影响番茄果实发育的分子机制及番茄的高效栽培提供理论参考。【方法】 以丽春番茄果实为试验材料,采用黑色袋子包裹花后29 d的番茄果实为黑暗处理组,正常光照为光照组。测定2组番茄果实品质指标,利用转录组测序(RNA-Seq),构建不同处理下番茄果实的转录组文库并筛选差异表达基因(DEGs),对DEGs进行GO功能注释及KEGG信号通路富集分析。使用超高效液相色谱—四极杆飞行时间质谱(UHPLC-QTOF-MS)鉴定番茄果实中代谢产物并进行代谢组学分析。使用主成分分析(PCA)评估代谢物的变化以及与果实成熟相关酶活性基因表达的相应变化。采用实时荧光定量PCR验证RNA-Seq数据的可靠性。【结果】 与光照组相比,黑暗组番茄果实中胡萝卜素、番茄红素和叶黄素含量极显著降低(P<0.01,下同),蔗糖磷酸合酶(SPS)、酸性转化酶(AI)和中性转化酶(NI)活性极显著降低,而蔗糖合成酶(SS)活性极显著升高。通过比较黑暗处理和对照组番茄果实中上调DEGs和下调DEGs数量分别为5833和5312个,果实对遮光的反应途径相似。GO功能注释到30个GO功能条目;KEGG信号通路富集结果显示,黑暗组影响光合作用和次生代谢物生物合成的代谢途径。正、负离子模式下第一主成分(PC1)解释75.11%和77.82%的数据变异,PC1主要反映组间有机酸、酚类(黑暗组的核心代谢变化)的差异。与光合作用、激素信号转导、淀粉和蔗糖代谢相关的信号通路富集最明显。与光照组相比,黑暗组番茄果实样本中筛选到7个与番茄植物激素生物合成途径有关的关键基因,黑暗组番茄果实样本中角鲨烯/八氢番茄红素合酶基因PSY上调表达和含黄素的胺氧化还原酶基因PDS表达下调。实时荧光定量PCR下基因的相对表达量与RNA-Seq结果一致。【结论】 遮光通过抑制与光合作用相关的基因表达,减少光能捕获与碳同化,导致番茄果实叶绿素积累和糖代谢失衡。黑暗组番茄果实中类胡萝卜素合成关键基因PDS表达受抑制,导致番茄红素含量降低,最终影响番茄果实着色。

     

    Abstract: 【Objective】 To investigate the effects of light on tomato fruit ripening through integrated transcriptome andmetabolome analysis, which could provide reference for exploring the molecular mechanisms underlying light-regulated tomato fruit development and efficient cultivation of tomato. 【Method】Using Lycopersicon esculentum cv. Ailsa Craig fruits as experimental materials, fruits at 29 d post-anthesis were either wrapped in black bags( dark treatment group) or exposed to normal light( control group). Tomato fruit quality parameters of the 2 groups were measured. Transcriptome libraries of tomato fruits under different treatments were constructed by transcriptome sequencing( RNA-Seq), and diffe-rentially expressed genes( DEGs) were screened. GO function annotation and KEGG signaling pathway enrichment analysis were performed on DEGs. Metabolites in tomato fruits were identified by ultra-high performance liquid chromatography-quadrupole time-of-flight mass spectrometry( UHPLC-QTOF-MS) and their metabolomics were analyzed. Principal com-ponent analysis(PCA) was used to assess changes in metabolites and corresponding changes in gene expression of enzyme activity associated with fruit ripening. Real-time fluorescence quantitative PCR was used to verify the reliability of RNA-Seq data. 【Result】 Compared to the control group, carotenoid, lycopene and lutein contents of tomato fruits were extremely significantly reduced in the dark treatment group(P<0.01, the same below). Activities of sucrose phosphate synthase(SPS), acid invertase(AI) and neutral invertase(NI) decreased significantly, while sucrose synthase(SS) activity extremely significantly increased in the dark treatment group. The numbers of up-regulated and down-regulated DEGs of tomato fruits in the dark treatment group and control group were 5833 and 5312 respectively. The response path-way of fruit to shading was similar. A total of 30 GO functional entries were identified by GO functional annotation; the KEGG signaling pathway enrichment results showed that the dark treatment group affected the metabolic pathway of pho-tosynthesis and secondary metabolite biosynthesis. The first principal component(PC1) of positive and negative ion modes explained 75.11% and 77.82% of the data variation, and PC1 mainly reflected the differences of organic acids and phenols( core metabolic changes in the dark treatment group) between the groups. Signaling pathways related to photo-synthesis, hormone signal transduction, starch and sucrose metabolism were enriched the most obviously. Compared with the light group, 7 key genes related to tomato plant hormone biosynthesis pathway were screened in the dark treatment group, and the expression of squalene/octahydrolycopene synthase gene(PSY) was up-regulated and the expression of flavin-containing amine oxidorereductase gene(PDS) was down-regulated in the dark treatment group. The relative expression of genes under real-time fluorescence quantitative PCR was consistent with that of RNA-Seq. 【Conclusion】 Shading can inhibit the expression of genes related to photosynthesis, reduce light energy capture and carbon assimilation, and lead to chlorophyll accumulation and glucose metabolism imbalance in tomato fruits. In the dark treatment group, expression of key gene of carotenoid biosynthesis PDS in inhibited, resulting in the decrease of lycopene content and ulti-mately affecting the tomato fruit coloring.

     

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