Deep learning-enabled discovery and characterization of HKT genes in Spartina alterniflora

文献类型： 外文期刊

第一作者： Yang, Maogeng

作者： Yang, Maogeng;Chen, Shoukun;Huang, Zhangping;Gao, Shang;Yu, Tingxi;Du, Tingting;Zhang, Hao;Liu, Chun-Ming;Li, Huihui;Yang, Maogeng;Chen, Shoukun;Huang, Zhangping;Gao, Shang;Yu, Tingxi;Du, Tingting;Zhang, Hao;Li, Xiang;Li, Huihui;Yang, Maogeng;Chen, Shihua;Chen, Shoukun;Li, Xiang;Li, Xiang;Liu, Chun-Ming;Liu, Chun-Ming;Liu, Chun-Ming

作者机构：

关键词： deep learning; Spartina alterniflora; HKT; salinity tolerance

期刊名称：PLANT JOURNAL （ 影响因子：7.2； 五年影响因子：7.9 ）

ISSN： 0960-7412

年卷期： 2023 年

页码：

收录情况： SCI

摘要： Spartina alterniflora is a halophyte that can survive in high-salinity environments, and it is phylogenetically close to important cereal crops, such as maize and rice. It is of scientific interest to understand why S. alterniflora can live under such extremely stressful conditions. The molecular mechanism underlying its high-saline tolerance is still largely unknown. Here we investigated the possibility that high-affinity K+ transporters (HKTs), which function in salt tolerance and maintenance of ion homeostasis in plants, are responsible for salt tolerance in S. alterniflora. To overcome the imprecision and unstable of the gene screening method caused by the conventional sequence alignment, we used a deep learning method, DeepGOPlus, to automatically extract sequence and protein characteristics from our newly assemble S. alterniflora genome to identify SaHKTs. Results showed that a total of 16 HKT genes were identified. The number of S. alterniflora HKTs (SaHKTs) is larger than that in all other investigated plant species except wheat. Phylogenetically related SaHKT members had similar gene structures, conserved protein domains and cis-elements. Expression profiling showed that most SaHKT genes are expressed in specific tissues and are differentially expressed under salt stress. Yeast complementation expression analysis showed that type I members SaHKT1;2, SaHKT1;3 and SaHKT1;8 and type II members SaHKT2;1, SaHKT2;3 and SaHKT2;4 had low-affinity K+ uptake ability and that type II members showed stronger K+ affinity than rice and Arabidopsis HKTs, as well as most SaHKTs showed preference for Na+ transport. We believe the deep learning-based methods are powerful approaches to uncovering new functional genes, and the SaHKT genes identified are important resources for breeding new varieties of salt-tolerant crops.

分类号：

  • 相关文献
作者其他论文 更多>>

微信小程序