Yihong Ji, Zhen Liu, Chang Liu, Ziying Shao, Ning Zhang, Meiqing Suo, Yuhui Liu, Lei Wang
Potato Research Centre, Hebei North University, Zhangjiakou, China.
College of Agriculture and Forestry Science and Technology, Hebei North University, Zhangjiakou, China.
Front Genet. 2024 Jul 11;15:1396375. doi: 10.3389/fgene.2024.1396375. eCollection 2024.
NHX proteins are transmembrane antiporters belonging to the cation/proton antiporter gene family, with a conserved Na (K)/H exchange (PF00999) protein domain. NHXs play a prominent role in plant growth, development, and defense. However, the role of NHX gene family in potato ( L.) is yet to be known. In this study, we conducted a genome-wide analysis of the potato gene family. A total of 25 family members were identified to be unevenly distributed on 10 chromosomes. The proteins ranged in length from 252 to 1,153 amino acids, with molecular masses ranging from 27516.32 to 127860.87 kD, and isoelectric points (pI) ranging from 4.96 to 9.3. Analyses of gene structures and conserved motifs indicated that genes in the same phylogenetic cluster are conserved. Phylogenetic analysis divided the genes into three subfamilies (Classes I, II, and III). Synteny analysis indicated that gene family Class III of NHX and all s shared a close evolutionary relationship. Analysis of -acting elements in the upstream 1,500 bp promoter region of potato genes showed that these genes could be regulated by light, stress, and hormones such as abscisic acid and gibberellic acid. Protein-protein interaction network analysis indicated that StNHX proteins may participate in the regulation of potato growth and stress response. Besides, To determine a potential role of these genes in tissue development and drought response, we analyzed the RNA-seq data of different DM potato tissues. The results showed that genes exhibited distinct tissue-specific expression patterns. We further examined the expression patterns of in different tissues (leaves, roots, shoots, tubers, stolons, and flowers) during the flowering stage in 'Jizhangshu NO.8.' potato. The qRT-PCR results further confirmed the importance of genes in potato plant growth and development. We further analyzed the RNA-seq data (DM potato) under different abiotic stresses (salt, drought, and heat), and found that the expression of genes was induced under abiotic stress. qRT-PCR analysis of shoots and roots of 'Jizhangshu NO.8.' potato treated for 0, 6, 12, and 24 h with 15% PEG6000 confirmed that the 25 genes are involved in the response to drought stress in potato. The results of this study may be useful for selecting appropriate candidate genes for the breeding of new drought-tolerant potato varieties. Furthermore, this study lays a foundation for prospective analysis of gene functions.
NHX蛋白是属于阳离子/质子反向转运蛋白基因家族的跨膜反向转运蛋白，具有保守的Na（K）/H交换（PF00999）蛋白结构域。NHX蛋白在植物生长、发育和防御中发挥着重要作用。然而，NHX基因家族在马铃薯中的作用尚不清楚。在本研究中，我们对马铃薯基因家族进行了全基因组分析。共鉴定出25个基因家族成员，它们不均匀地分布在10条染色体上。这些蛋白质的长度从252到1153个氨基酸不等，分子量从27516.32到127860.87 kD不等，等电点（pI）从4.96到9.3不等。基因结构和保守基序分析表明，同一系统发育簇中的基因是保守的。系统发育分析将这些基因分为三个亚家族（I类、II类和III类）。共线性分析表明，NHX的III类基因家族与所有基因都有密切的进化关系。对马铃薯基因上游1500 bp启动子区域的顺式作用元件分析表明，这些基因可能受光、胁迫以及脱落酸和赤霉素等激素的调控。蛋白质-蛋白质相互作用网络分析表明，StNHX蛋白可能参与马铃薯生长和胁迫反应的调控。此外，为了确定这些基因在组织发育和干旱响应中的潜在作用，我们分析了不同DM马铃薯组织的RNA-seq数据。结果表明，基因表现出明显的组织特异性表达模式。我们进一步研究了“冀张薯8号”马铃薯开花期不同组织（叶、根、茎、块茎、匍匐茎和花）中的表达模式。qRT-PCR结果进一步证实了基因在马铃薯植株生长发育中的重要性。我们进一步分析了不同非生物胁迫（盐、干旱和热）下的RNA-seq数据（DM马铃薯），发现基因的表达在非生物胁迫下被诱导。用15% PEG6000处理“冀张薯8号”马铃薯的茎和根0、6、12和24小时后的qRT-PCR分析证实，这25个基因参与了马铃薯对干旱胁迫的响应。本研究结果可能有助于为培育新耐干旱马铃薯品种选择合适的候选基因。此外，本研究为基因功能的前瞻性分析奠定了基础。
