Genome-wide identification and characterization of the TIFY gene family in kiwifruit.
Genome-wide identification and characterization of the TIFY gene family in kiwifruit.
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猕猴桃中TIFY基因家族的全基因组鉴定和表征。
DOI：
10.1186/s12864-022-08398-8
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发表时间：
2022-03-05
期刊：
影响因子：
4.4
通讯作者：
Huang C
中科院分区：
文献类型：
--
作者：
Tao J;Jia H;Wu M;Zhong W;Jia D;Wang Z;Huang C
TIFY基因家族是一组植物特有的转录因子，参与调节植物的生长发育和多种逆境反应。然而，Tify家族在猕猴桃中还没有很好的特征，猕猴桃是一种很受欢迎的水果，具有重要的营养和经济价值。在猕猴桃和中华猕猴桃基因组中分别鉴定出27个和21个tify基因。系统发育分析表明，猕猴桃TIFY基因可分为Jaz、ZML、TIFY和PPD四大类群，Jaz类又可分为Jaz I~Jaz VI 6个亚群。同一组或亚组中的成员具有相似的外显子-内含子结构和保守的基序组成。猕猴桃TIFY基因在染色体上分布不均，节段性复制事件对TIFY基因在猕猴桃中的扩增起着至关重要的作用。猕猴桃与其他5种植物(包括拟南芥、山茶、水稻、茄子和葡萄)以及这两种猕猴桃之间的tify基因的同源性分析为了解猕猴桃tify家族的潜在进化提供了有价值的线索。分子进化分析表明，猕猴桃TIFY基因的进化主要受制于强烈的纯化选择。启动子顺式元件分析表明，大多数猕猴桃TIFE基因都含有多种与逆境反应、激素信号转导和植物生长发育相关的顺式元件。表达谱分析表明，TIFY基因可能在猕猴桃不同组织中发挥作用，包括果实发育的特定阶段。此外，几个在PSA过程中高表达的基因(Pseudomonas syringae PV.Acinidiae)感染，提示在PAS感染过程中起作用。在本研究中，从两个组装的猕猴桃基因组中鉴定了猕猴桃tify基因。此外，对它们的基本物理化学性质、染色体定位、系统发育、基因结构和保守基序、同源性分析、启动子顺式元件和表达模式进行了系统的研究。这些结果为进一步了解TIFY基因在猕猴桃中的功能奠定了基础，并为防治PSA感染提供了一条新的潜在途径。网上版载有补充材料，可在10.1186/s12864-022-08398-8查阅。
The TIFY gene family is a group of plant-specific transcription factors involved in regulation of plant growth and development and a variety of stress responses. However, the TIFY family has not yet been well characterized in kiwifruit, a popular fruit with important nutritional and economic value. A total of 27 and 21 TIFY genes were identified in the genomes of Actinidia eriantha and A. chinensis, respectively. Phylogenetic analyses showed that kiwifruit TIFY genes could be classified into four major groups, JAZ, ZML, TIFY and PPD, and the JAZ group could be further clustered into six subgroups (JAZ I to JAZ VI). Members within the same group or subgroup have similar exon-intron structures and conserved motif compositions. The kiwifruit TIFY genes are unevenly distributed on the chromosomes, and the segmental duplication events played a vital role in the expansion of the TIFY genes in kiwifruit. Syntenic analyses of TIFY genes between kiwifruit and other five plant species (including Arabidopsis thaliana, Camellia sinensis, Oryza sativa, Solanum lycopersicum and Vitis vinifera) and between the two kiwifruit species provided valuable clues for understanding the potential evolution of the kiwifruit TIFY family. Molecular evolutionary analysis showed that the evolution of kiwifruit TIFY genes was primarily constrained by intense purifying selection. Promoter cis-element analysis showed that most kiwifruit TIFY genes possess multiple cis-elements related to stress-response, phytohormone signal transduction and plant growth and development. The expression pattern analyses indicated that TIFY genes might play a role in different kiwifruit tissues, including fruit at specific development stages. In addition, several TIFY genes with high expression levels during Psa (Pseudomonas syringae pv. actinidiae) infection were identified, suggesting a role in the process of Pas infection. In this study, the kiwifruit TIFY genes were identified from two assembled kiwifruit genomes. In addition, their basic physiochemical properties, chromosomal localization, phylogeny, gene structures and conserved motifs, synteny analyses, promoter cis-elements and expression patters were systematically examined. The results laid a foundation for further understanding the function of TIFY genes in kiwifruit, and provided a new potential approach for the prevention and treatment of Psa infection. The online version contains supplementary material available at 10.1186/s12864-022-08398-8.
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影响因子：
3.5
作者：
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