Dynamic patterns of the translatome in a hybrid triplet show translational fractionation of the maize subgenomes
Dynamic patterns of the translatome in a hybrid triplet show translational fractionation of the maize subgenomes
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杂交三联体中翻译组的动态模式显示玉米亚基因组的翻译分级
DOI：
10.1016/j.cj.2021.02.002
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发表时间：
2021-03
期刊：
影响因子：
--
通讯作者：
Li Lin
中科院分区：
文献类型：
--
作者：
Zhu Wanchao;Chen Sijia;Zhang Tifu;Qian Jia;Luo Zi;Zhao Han;Zhang Yirong;Li Lin
杂种优势是杂交种表现优于双亲的现象，在玉米(Zea maysL.)已经有100多年了。为了更全面地了解玉米的杂种优势，我们收集了B73、Mo17和它们的F1苗期叶片的完整的转录组和翻译组数据集，提供了玉米转录组和转录组变异的动态图谱。尽管可加性在两个组学水平上解释了很大比例的变异，但在翻译组中观察到了较高的非加性效应，特别是在翻译的亚基因组MAIZE 1基因中，从转录组中的可加性转换为翻译组中的非可加性的基因在亚基因组MAIZE 1中显著丰富。许多具有等位基因特异性表达和翻译的基因在转录组和翻译组之间表现出显著的调控切换，部分具有等位基因特异性翻译调控机制的基因也表现出亚基因组偏向。有趣的是，我们发现翻译的异构体与转录组相比表现出不同的表达模式，并且在翻译组水平上，更多的基因在从双亲到杂交种的遗传流动中改变了其主导的异构体。具有转换显性亚型的翻译基因显着偏向于亚基因组MAIZE 2，而具有保守显性亚型的基因显着富集亚基因组MAIZE 1。综上所述，玉米杂交系和亲本转录组的动态变化模式显示了玉米亚基因组的翻译分离，这可能与玉米的杂种优势有关，并为育种提供了潜在的理论依据。
Heterosis, the phenomenon in which hybrids outperform their parents, has been utilized in maize (Zea maysL.) for over 100 years. To provide a more complete understanding of heterosis, we collected a comprehensive transcriptome and translatome dataset on seedling leaves for B73, Mo17, and their F1hybrid, which provided a dynamic landscape of transcriptomic and translatomic variation in maize. Although additivity accounted for a large proportion of variation at two omics-levels, an elevated nonadditive effect was observed in the translatome, especially in the translated subgenome maize1 genes, and the genes that switched from additivity in the transcriptome to nonadditivity in the translatome were significantly enriched in the subgenome maize1. Many genes with allele-specific expression and translation show dramatic regulatory switches between the transcriptome and translatome, and partial genes with allele-specific translation underlying regulatory mechanism also exhibited subgenome bias. Interestingly, we found the translated isoforms show different expression patterns compared with transcriptome and more genes changed their dominant isoforms during the genetic flow from parents to the hybrid at the translatome level. The translated genes with switched dominant isoforms significantly biased to the subgenome maize2 while genes with conserved dominant isoforms significantly enriched in subgenome maize1. Together, the dynamic changed patterns in translatome across hybrid and parental lines show translational fractionation of the maize subgenomes, which may be associated with heterosis in maize and provides a potential theoretical basis for breeding.
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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
DOI：
10.1073/pnas.1705423114
发表时间：
2017-07
期刊：
Proceedings of the National Academy of Sciences
影响因子：
--
作者：
Mei Yang;Xuncheng Wang;Diqiu Ren;Hao Huang;Miqi Xu;Guangming He;X. Deng
通讯作者：
Mei Yang;Xuncheng Wang;Diqiu Ren;Hao Huang;Miqi Xu;Guangming He;X. Deng
影响因子：
7.4
作者：
Marcon, Caroline;Paschold, Anja;Hochholdinger, Frank
通讯作者：
Hochholdinger, Frank
影响因子：
11.6
作者：
Paschold, Anja;Larson, Nick B.;Hochholdinger, Frank
通讯作者：
Hochholdinger, Frank
DOI：
10.1073/pnas.1820513116
发表时间：
2019-03-19
影响因子：
11.1
作者：
Shao, Lin;Xing, Feng;Zhang, Qifa
通讯作者：
Zhang, Qifa