Zhao Kai, Nan Siyuan, Li Yajing, Yu Changhong, Zhou Lieding, Hu Jia, Jin Xia, Han Youzhi, Wang Shengji
College of Forestry, Shanxi Agricultural University, Jinzhong 030801, China.
Int J Mol Sci. 2023 Sep 14;24(18):14118. doi: 10.3390/ijms241814118.
GATA transcription factors are ubiquitously present in eukaryotic organisms and play a crucial role in multiple biological processes, such as plant growth, stress response, and hormone signaling. However, the study of GATA factors in poplar is currently limited to a small number of proteins, despite their evident functional importance. In this investigation, we utilized the most recent genome annotation and stringent criteria to identify 38 GATA transcription factor genes in poplar. Subsequently, we conducted a comprehensive analysis of this gene family, encompassing phylogenetic classification, protein characterization, analysis of promoter cis-acting elements, and determination of chromosomal location. Our examination of gene duplication events indicated that both tandem and segmental duplications have contributed to the expansion of the GATA gene family in poplar, with segmental duplication potentially being a major driving force. By performing collinearity analysis of genes across six different species, we identified 74 pairs of co-linear genes, which provide valuable insights for predicting gene functions from a comparative genomics perspective. Furthermore, through the analysis of gene expression patterns, we identified five GATA genes that exhibited differential expression in leaf-stem-root tissues and eight genes that were responsive to salt stress. Of particular interest was , which displayed strong induction by salt stress and overlapped between the two gene sets. We discovered that encodes a nuclear-localized protein with transcription activation activity, which is continuously induced by salt stress in leaf and root tissues. Moreover, we constructed a co-expression network centered around , suggesting the potential involvement of these genes in the growth, development, and response to abiotic stress processes in poplar through cell transport systems and protein modification mechanisms, such as vesicle-mediated transport, intracellular transport, ubiquitination, and deubiquitination. This research provides a foundation for further exploration of the functions and mechanisms of GATA transcription factors in poplar.
GATA转录因子广泛存在于真核生物中,在多种生物学过程中发挥关键作用,如植物生长、应激反应和激素信号传导。然而,尽管GATA因子在杨树中具有明显的功能重要性,但目前对其研究仅限于少数蛋白质。在本研究中,我们利用最新的基因组注释和严格标准,在杨树中鉴定出38个GATA转录因子基因。随后,我们对该基因家族进行了全面分析,包括系统发育分类、蛋白质特征分析、启动子顺式作用元件分析以及染色体定位测定。我们对基因复制事件的研究表明,串联重复和片段重复都对杨树中GATA基因家族的扩展有所贡献,片段重复可能是主要驱动力。通过对六个不同物种的基因进行共线性分析,我们鉴定出74对共线基因,这为从比较基因组学角度预测基因功能提供了有价值的见解。此外,通过分析基因表达模式,我们鉴定出五个在叶 - 茎 - 根组织中表现出差异表达的GATA基因和八个对盐胁迫有响应的基因。特别值得关注的是,它在盐胁迫下表现出强烈诱导,且在两个基因集之间存在重叠。我们发现 编码一种具有转录激活活性的核定位蛋白,在叶和根组织中受到盐胁迫持续诱导。此外,我们构建了以 为中心的共表达网络,表明这些基因可能通过细胞运输系统和蛋白质修饰机制,如囊泡介导的运输、细胞内运输、泛素化和去泛素化,参与杨树的生长、发育以及对非生物胁迫过程的响应。本研究为进一步探索杨树中GATA转录因子的功能和机制奠定了基础。