College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China.
Muhammad Nawaz Sharif University of Agriculture, Multan, Punjab, 25000, Pakistan.
BMC Genomics. 2022 Oct 18;23(1):708. doi: 10.1186/s12864-022-08902-0.
The sucrose non-fermenting 1 (SNF1)-related protein kinases (SnRKs) play a vivid role in regulating plant metabolism and stress response, providing a pathway for regulation between metabolism and stress signals. Conducting identification and stress response studies on SnRKs in plants contributes to the development of strategies for tree species that are more tolerant to stress conditions.
In the present study, a total of 30 LcSnRKs were identified in Liriodendron chinense (L. chinense) genome, which was distributed across 15 chromosomes and 4 scaffolds. It could be divided into three subfamilies: SnRK1, SnRK2, and SnRK3 based on phylogenetic analysis and domain types. The LcSnRK of the three subfamilies shared the same Ser/Thr kinase structure in gene structure and motif composition, while the functional domains, except for the kinase domain, showed significant differences. A total of 13 collinear gene pairs were detected in L. chinense and Arabidopsis thaliana (A. thaliana), and 18 pairs were detected in L. chinense and rice, suggesting that the LcSnRK family genes may be evolutionarily more closely related to rice. Cis-regulation element analysis showed that LcSnRKs were LTR and TC-rich, which could respond to different environmental stresses. Furthermore, the expression patterns of LcSnRKs are different at different times under low-temperature stress. LcSnRK1s expression tended to be down-regulated under low-temperature stress. The expression of LcSnRK2s tended to be up-regulated under low-temperature stress. The expression trend of LcSnRK3s under low-temperature stress was mainly up-or down-regulated.
The results of this study will provide valuable information for the functional identification of the LcSnRK gene in the future.
蔗糖非发酵 1（SNF1）相关蛋白激酶（SnRKs）在调节植物代谢和应激反应中发挥着重要作用，为代谢和应激信号之间的调节提供了途径。对植物中的 SnRKs 进行鉴定和应激反应研究有助于开发更能耐受胁迫条件的树种的策略。
本研究共鉴定出 30 个 LcSnRKs 存在于鹅掌楸（Liriodendron chinense）基因组中，分布于 15 条染色体和 4 个支架上。根据系统发育分析和结构域类型，可将其分为三个亚家族：SnRK1、SnRK2 和 SnRK3。三个亚家族的 LcSnRK 在基因结构和基序组成上具有相同的 Ser/Thr 激酶结构，而除激酶结构域外的功能结构域存在显著差异。在鹅掌楸和拟南芥（Arabidopsis thaliana）之间共检测到 13 对共线性基因对，在鹅掌楸和水稻之间检测到 18 对，表明 LcSnRK 家族基因可能与水稻在进化上更为密切相关。顺式调控元件分析表明，LcSnRK 富含 LTR 和 TC，可响应不同的环境胁迫。此外，LcSnRKs 在低温胁迫下不同时间的表达模式不同。LcSnRK1s 在低温胁迫下的表达趋于下调。LcSnRK2s 在低温胁迫下的表达趋于上调。LcSnRK3s 在低温胁迫下的表达趋势主要是上调或下调。
本研究结果将为未来 LcSnRK 基因的功能鉴定提供有价值的信息。
