Genome-wide study of C2H2 zinc finger gene family in Medicago truncatula
Genome-wide study of C2H2 zinc finger gene family in Medicago truncatula
复制标题
蒺藜苜蓿C2H2锌指基因家族的全基因组研究
DOI：
10.1186/s12870-020-02619-6
复制
发表时间：
2020-08-31
影响因子：
5.3
通讯作者：
Ge, Liangfa
中科院分区：
文献类型：
--
作者：
Jiao, Zhicheng;Wang, Liping;Ge, Liangfa
背景
C2H2 锌指蛋白 (C2H2 ZFP) 在塑造植物生长和适应环境的许多方面发挥着至关重要的作用。植物基因组包含数百个 C2H2 ZFP，它们构成高等植物中最重要和最大的转录因子家族之一。尽管 C2H2 ZFP 基因家族已在多种植物物种中报道，但尚未在模式豆科物种蒺藜苜蓿中进行描述。
结果
在这项研究中，我们在蒺藜 M. truncatula 中鉴定了 218 个 C2H2 型 ZFP，具有 337 个单独的 C2H2 基序。我们发现，局部基因的高复制率对蒺藜 M. truncatula 中 C2H2 基因家族的扩展做出了显着贡献。鉴定出的 ZFP 在基序排列和表达模式上表现出高度变化，表明短 C2H2 锌指基序已被众多具有不同功能的转录因子采用作为支架来识别顺式元件。通过分析公共表达数据集和定量 RT-PCR (qRT-PCR)，我们鉴定了几种在某些组织（例如根瘤、种子和花）中特异性表达的 C2H2 ZFP。
结论
我们的全基因组工作揭示了重要的豆科植物 M. truncatula 中扩展的 C2H2 ZFP 基因家族，并为高等植物中 C2H2 ZFP 的多样化和扩展提供了新的见解。
Background
C2H2 zinc finger proteins (C2H2 ZFPs) play vital roles in shaping many aspects of plant growth and adaptation to the environment. Plant genomes harbor hundreds of C2H2 ZFPs, which compose one of the most important and largest transcription factor families in higher plants. Although the C2H2 ZFP gene family has been reported in several plant species, it has not been described in the model leguminous species Medicago truncatula.
Results
In this study, we identified 218 C2H2 type ZFPs with 337 individual C2H2 motifs in M. truncatula. We showed that the high rate of local gene duplication has significantly contributed to the expansion of the C2H2 gene family in M. truncatula. The identified ZFPs exhibit high variation in motif arrangement and expression pattern, suggesting that the short C2H2 zinc finger motif has been adopted as a scaffold by numerous transcription factors with different functions to recognize cis-elements. By analyzing the public expression datasets and quantitative RT-PCR (qRT-PCR), we identified several C2H2 ZFPs that are specifically expressed in certain tissues, such as the nodule, seed, and flower.
Conclusion
Our genome-wide work revealed an expanded C2H2 ZFP gene family in an important legume M. truncatula, and provides new insights into the diversification and expansion of C2H2 ZFPs in higher plants.