马铃薯（Solanum tuberosum L.）全基因组 Q 型 C2H2 基因家族的鉴定与分析。

Genome-wide identification and analysis of the Q-type C2H2 gene family in potato (Solanum tuberosum L.).

机构信息

College of Horticulture/Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou 730070, China.

Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN 55108, USA.

出版信息

Int J Biol Macromol. 2020 Jun 15;153:327-340. doi: 10.1016/j.ijbiomac.2020.03.022. Epub 2020 Mar 5.

DOI:10.1016/j.ijbiomac.2020.03.022

PMID:32145229

Abstract

Plant Q-type C2H2 zinc finger proteins play an important role in plant tolerance to abiotic stresses. Although the Q-type C2H2 gene family has been identified in many plants, little is known about it in potato (Solanum tuberosum). In the present study, a total of 79 Q-type C2H2 proteins in potato (StZFPs) were identified and their distribution on chromosomes, gene structure, and conserved motifs was assessed. According to their protein structural and phylogenetic features, these 79 StZFPs were classified into 12 distinct subclasses. Collinearity analysis showed that tandem and segmental duplication events played a crucial role in expansion of the StZFP gene family. Synteny analysis indicated that 11 and 21 StZFP genes were orthologous to Arabidopsis and wheat (Triticum aestivum), respectively. RNA-seq data were used to analyze the tissue-specific expression and abiotic stress responses of the StZFP genes. Furthermore, we analyzed the expression of StZFP genes in drought-sensitive and drought-tolerant potato cultivars under drought stress. Subsequently, we used qPCR (Quantitative real-time-PCR) to calculate the relative expression of candidate genes in potato plantlets treated with NaCl (100 mM) and PEG 6000 (10% w/v) for 24 h. Such candidate genes could provide valuable information for abiotic stress resistance research in potato.

摘要

植物 Q 型 C2H2 锌指蛋白在植物耐受非生物胁迫方面发挥着重要作用。虽然在许多植物中已经鉴定出 Q 型 C2H2 基因家族，但在马铃薯（Solanum tuberosum）中对其了解甚少。在本研究中，共鉴定出马铃薯（StZFPs）中的 79 个 Q 型 C2H2 蛋白，并评估了它们在染色体上的分布、基因结构和保守基序。根据其蛋白结构和系统发育特征，这些 79 个 StZFPs 被分为 12 个不同的亚类。共线性分析表明，串联和片段复制事件在 StZFP 基因家族的扩张中起着至关重要的作用。同线性分析表明，11 个和 21 个 StZFP 基因分别与拟南芥和小麦（Triticum aestivum）同源。RNA-seq 数据用于分析 StZFP 基因的组织特异性表达和非生物胁迫响应。此外，我们分析了在干旱胁迫下，干旱敏感和耐旱马铃薯品种中 StZFP 基因的表达。随后，我们使用 qPCR（实时定量 PCR）计算了在处理过的马铃薯幼苗中候选基因的相对表达NaCl（100 mM）和聚乙二醇 6000（10%w/v）24 h。这些候选基因可以为马铃薯的非生物胁迫抗性研究提供有价值的信息。