Wang Meng, Zhang Rui, Shu Jiang-Ping, Zheng Xi-Long, Wu Xin-Yi, Chen Jian-Bing, Wang Mei-Na, Shen Hui, Yan Yue-Hong
Shenzhen Key Laboratory for Orchid Conservation and Utilization, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, The National Orchid Conservation Center of China and the Orchid Conservation and Research Center of Shenzhen, Shenzhen 518114, China.
Eastern China Conservation Centre for Wild Endangered Plant Resources, Shanghai Chenshan Botanical Garden, Shanghai 201602, China.
Plants (Basel). 2024 Feb 14;13(4):521. doi: 10.3390/plants13040521.
As the only aquatic lineage of Pteridaceae, Parkerioideae is distinct from many xeric-adapted species of the family and consists of the freshwater species and the only mangrove ferns from the genus . Previous studies have shown that whole genome duplication (WGD) has occurred in Parkerioideae at least once and may have played a role in their adaptive evolution; however, more in-depth research regarding this is still required. In this study, comparative and evolutionary transcriptomics analyses were carried out to identify WGDs and explore their roles in the environmental adaptation of Parkerioideae. Three putative WGD events were identified within Parkerioideae, two of which were specific to and , respectively. The functional enrichment analysis indicated that the lineage-specific WGD events have played a role in the adaptation of Parkerioideae to the low oxygen concentrations of aquatic habitats, as well as different aquatic environments of and , such as the adaptation of to reduced light levels and the adaptation of to high salinity. Positive selection analysis further provided evidence that the putative WGD events may have facilitated the adaptation of Parkerioideae to changes in habitat. Moreover, the gene family analysis indicated that the plasma membrane H-ATPase (), vacuolar H-ATPase (), and suppressor of K transport growth defect 1 () may have been involved in the high salinity adaptation of . Our study provides new insights into the evolution and adaptations of Parkerioideae in different aquatic environments.
作为凤尾蕨科唯一的水生分支，水蕨亚科不同于该科许多适应干旱环境的物种，由淡水物种和该属唯一的红树林蕨类植物组成。先前的研究表明，水蕨亚科至少发生过一次全基因组复制（WGD），这可能在其适应性进化中发挥了作用；然而，对此仍需要更深入的研究。在本研究中，进行了比较和进化转录组学分析，以鉴定WGD事件并探索它们在水蕨亚科环境适应中的作用。在水蕨亚科中鉴定出三个假定的WGD事件，其中两个分别是特定于[物种名称1]和[物种名称2]的。功能富集分析表明，特定谱系的WGD事件在水蕨亚科适应水生栖息地的低氧浓度以及[物种名称1]和[物种名称2]的不同水生环境中发挥了作用，例如[物种名称1]适应光照水平降低以及[物种名称2]适应高盐度。正选择分析进一步提供了证据，表明假定的WGD事件可能促进了水蕨亚科对栖息地变化的适应。此外，基因家族分析表明，质膜H⁺-ATP酶（[具体基因名称1]）、液泡H⁺-ATP酶（[具体基因名称2]）和钾转运生长缺陷抑制因子1（[具体基因名称3]）可能参与了[物种名称2]的高盐度适应。我们的研究为水蕨亚科在不同水生环境中的进化和适应提供了新的见解。
