Genome-Wide Identification and Molecular Characterization of the Growth-Regulating Factors-Interacting Factor Gene Family in Tomato.
Genome-Wide Identification and Molecular Characterization of the Growth-Regulating Factors-Interacting Factor Gene Family in Tomato.
复制标题
番茄生长调节因子相互作用因子基因家族的全基因组鉴定和分子表征
DOI：
10.3390/genes11121435
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发表时间：
2020-11-28
期刊：
影响因子：
3.5
通讯作者：
Zhang J
中科院分区：
文献类型：
--
作者：
Ai G;Zhang D;Huang R;Zhang S;Li W;Ahiakpa JK;Zhang J
生长调节因子-相互作用因子(GIF)蛋白在植物生长发育调控中起着至关重要的作用。然而，番茄中GIF蛋白的分子机制还不是很清楚。通过系统发育分析，从番茄基因组中鉴定出四个SlGIF基因(分别命名为SlGRF1a、SlGIF1b、SlGIF2和SlGIF3)，并聚为两大类。基因结构和基序模式分析显示，所有SLGIF的外显子/内含子模式和基序组织相似。我们在SLGIF的启动子区域发现了33个顺式作用调控元件(CARE)。表达谱显示，这4个GIF在果实发育的不同组织和阶段都有表达，并受到植物激素(IAA和GA)的诱导。亚细胞定位分析表明，四种GIF均位于细胞核内。酵母双杂交实验表明，不同的生长调节因子(SlGRF)蛋白与四种slGIF蛋白相互作用。然而，slGRF4是与slGIF蛋白共同的相互作用因子。此外，3个SLGIF基因与5个SLGRF基因之间存在较高的共表达关系。蛋白质关联网络分析发现，这四个SLGIF蛋白都与一个铬结构域解旋酶DNA结合蛋白(CHD)和一个肌动蛋白样蛋白相关联。总之，这些结果将加深我们对GIF基因潜在功能的理解，并为进一步研究GIF基因在番茄生长发育中的功能奠定基础。
Growth-regulating factors-interacting factor (GIF) proteins play crucial roles in the regulation of plant growth and development. However, the molecular mechanism of GIF proteins in tomato is poorly understood. Here, four SlGIF genes (named SlGRF1a, SlGIF1b, SlGIF2, and SlGIF3) were identified from the tomato genome and clustered into two major clades by phylogenetic analysis. The gene structure and motif pattern analyses showed similar exon/intron patterns and motif organizations in all the SlGIFs. We identified 33 cis-acting regulatory elements (CAREs) in the promoter regions of the SlGIFs. The expression profiling revealed the four GIFs are expressed in various tissues and stages of fruit development and induced by phytohormones (IAA and GA). The subcellular localization assays showed all four GIFs were located in nucleus. The yeast two-hybrid assay indicated various growth-regulating factors (SlGRFs) proteins interacted with the four SlGIF proteins. However, SlGRF4 was a common interactor with the SlGIF proteins. Moreover, a higher co-expression relationship was shown between three SlGIF genes and five SlGRF genes. The protein association network analysis found a chromodomain helicase DNA-binding protein (CHD) and an actin-like protein to be associated with the four SlGIF proteins. Overall, these results will improve our understanding of the potential functions of GIF genes and act as a base for further functional studies on GIFs in tomato growth and development.
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DOI：
10.1093/bioinformatics/btx190
发表时间：
2017-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fernandez-Pozo N;Zheng Y;Snyder SI;Nicolas P;Shinozaki Y;Fei Z;Catala C;Giovannoni JJ;Rose JKC;Mueller LA
通讯作者：
Mueller LA
PlantTFDB 4.0：成为植物转录因子和调控相互作用的中心枢纽。
影响因子：
14.9
作者：
Jin J;Tian F;Yang DC;Meng YQ;Kong L;Luo J;Gao G
通讯作者：
Gao G
影响因子：
11.6
作者：
Hu, Jianhong;Israeli, Alon;Sun, Tai-ping
通讯作者：
Sun, Tai-ping
通过短串联靶标模拟物破坏 miR396 对番茄子叶、花和果实生长发育的调控
影响因子：
5.2
作者：
Cao, Dongyan;Wang, Jiao;Zhu, Benzhong
通讯作者：
Zhu, Benzhong
CHD1L通过调节METAP2促进EOC细胞侵袭和转移
影响因子：
3.6
作者：
He, Wei-Peng;Guo, Yun-Yun;Yang, Guo-Fen
通讯作者：
Yang, Guo-Fen