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Weighted gene co-expression network analysis unveils gene networks regulating folate biosynthesis in maize endosperm
3 Biotech ( IF 2.8 ) Pub Date : 2021-09-21 , DOI: 10.1007/s13205-021-02974-7
Lili Song 1, 2 , Diansi Yu 2, 3 , Hongjian Zheng 2, 3 , Guogan Wu 1, 2 , Yu Sun 1, 2 , Peng Li 1, 2 , Jinbin Wang 1, 2 , Cui Wang 1, 2 , Beibei Lv 1, 2 , Xueming Tang 1, 2
Affiliation  

Folates are essential elements for human growth and development, and their deficiency can lead to serious disorders. Waxy maize is a rich source of folates; however, the regulatory mechanism underlying folate biosynthesis in the endosperm remains unclear. Here, we examined changes in the folate content of maize endosperm collected at 15, 18, 21, 24, and 27 days after pollination (DAP) using liquid chromatograph-mass spectrometry and identified genes related to folate biosynthesis using transcriptome sequencing data. The results showed that 5-methyl-tetrahydrofolate and 5,10-methylene tetrahydrofolate were the main storage forms of folates in the endosperm, and their contents were relatively high at 21–24 days. We also identified 569, 3183, 4365, and 5513 differentially expressed genes (DEGs) in different days around milk stage. Functional annotation revealed 518 transcription factors (TFs) belonging to 33 families exhibiting specific expression in at least one sampling time. The key hub genes involved in folate biosynthesis were identified by weighted gene co-expression network analysis. In total, 24,976 genes were used to construct a co-expression network with 29 co-expression modules, among which the brown and purple modules were highly related to folate biosynthesis. Further, 187 transcription factors in the brown and purple modules were considered potential transcription factors related to endosperm folate biosynthesis. These results may improve the understanding of the molecular mechanism underlying folate biosynthesis in waxy maize and lead to the development of nutritionally fortified varieties.



中文翻译:

加权基因共表达网络分析揭示了调控玉米胚乳叶酸生物合成的基因网络

叶酸是人类生长发育必不可少的元素,缺乏叶酸会导致严重的疾病。糯玉米富含叶酸;然而,胚乳中叶酸生物合成的调控机制仍不清楚。在这里,我们使用液相色谱-质谱法检查了授粉后 15、18、21、24 和 27 天(DAP)收集的玉米胚乳中叶酸含量的变化,并使用转录组测序数据鉴定了与叶酸生物合成相关的基因。结果表明,5-甲基-四氢叶酸和5,10-亚甲基四氢叶酸是胚乳中叶酸的主要储存形式,在21-24天它们的含量较高。我们还鉴定了 569、3183、4365 和 5513 个在乳期前后不同天数的差异表达基因 (DEG)。功能注释揭示了属于 33 个家族的 518 个转录因子 (TF) 在至少一个采样时间内表现出特定的表达。通过加权基因共表达网络分析确定了参与叶酸生物合成的关键枢纽基因。共利用24976个基因构建了共表达网络,共表达模块有29个,其中棕色和紫色模块与叶酸生物合成高度相关。此外,棕色和紫色模块中的 187 个转录因子被认为是与胚乳叶酸生物合成相关的潜在转录因子。这些结果可能会提高对糯玉米叶酸生物合成分子机制的理解,并促进营养强化品种的开发。

更新日期:2021-09-22
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