Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus
Epiphytic ferns have been found to flourish after angiosperms dominated forest communities, and they play important roles in rainforest canopies. How do epiphytic ferns adapt to tropical rainforest canopy habitats? At present, we know little about the molecular mechanism underlying this adaptation....
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| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2019-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2019/1429316 |
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| author | Jiao Zhang Li Liu Jiang-Ping Shu Dong-Mei Jin Hui Shen Hong-Feng Chen Rui Zhang Yue-Hong Yan |
| author_facet | Jiao Zhang Li Liu Jiang-Ping Shu Dong-Mei Jin Hui Shen Hong-Feng Chen Rui Zhang Yue-Hong Yan |
| author_sort | Jiao Zhang |
| collection | DOAJ |
| description | Epiphytic ferns have been found to flourish after angiosperms dominated forest communities, and they play important roles in rainforest canopies. How do epiphytic ferns adapt to tropical rainforest canopy habitats? At present, we know little about the molecular mechanism underlying this adaptation. Asplenium nidus is a well-known epiphytic fern that is closely related to the terrestrial species Asplenium komarovii. Here, RNA-seq and comparative transcriptomic analyses were performed to explore the underlying basis of the adaptation of A. nidus to extreme environments. A total of 44.04 and 44.57 Mb clean reads were obtained from A. nidus and A. komarovii, respectively, and they were assembled into 89,741 and 77,912 unigenes. Functional annotation showed that 52,305 (58.28% of the total genes for A. nidus) and 45,938 (58.96% of the total genes for A. komarovii) unigenes were annotated in public databases. Genes involved in stress responses and photosynthesis were found to have undergone positive selection in A. nidus. Compared to A. komarovii, transcription factors related to stress response, leaf development, and root development were found to be considerably expanded in A. nidus, especially in the ANR1 subclade of MADS-box family genes which played roles in lateral root development. This study improves our understanding of the adaptation of A. nidus to epiphytic habitats by forming unique strategies. |
| format | Article |
| id | doaj-art-da6eee4a2b4d49ccaa584d3dcd08a62c |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2019-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-da6eee4a2b4d49ccaa584d3dcd08a62c2025-08-20T03:24:25ZengWileyInternational Journal of Genomics2314-436X2314-43782019-01-01201910.1155/2019/14293161429316Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidusJiao Zhang0Li Liu1Jiang-Ping Shu2Dong-Mei Jin3Hui Shen4Hong-Feng Chen5Rui Zhang6Yue-Hong Yan7Shanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaShanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaShanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaShanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaShanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaKey Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, ChinaShanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaShanghai Chenshan Plant Science Research Center, Shanghai Chenshan Botanical Garden, Chinese Academy of Sciences, Shanghai 201602, ChinaEpiphytic ferns have been found to flourish after angiosperms dominated forest communities, and they play important roles in rainforest canopies. How do epiphytic ferns adapt to tropical rainforest canopy habitats? At present, we know little about the molecular mechanism underlying this adaptation. Asplenium nidus is a well-known epiphytic fern that is closely related to the terrestrial species Asplenium komarovii. Here, RNA-seq and comparative transcriptomic analyses were performed to explore the underlying basis of the adaptation of A. nidus to extreme environments. A total of 44.04 and 44.57 Mb clean reads were obtained from A. nidus and A. komarovii, respectively, and they were assembled into 89,741 and 77,912 unigenes. Functional annotation showed that 52,305 (58.28% of the total genes for A. nidus) and 45,938 (58.96% of the total genes for A. komarovii) unigenes were annotated in public databases. Genes involved in stress responses and photosynthesis were found to have undergone positive selection in A. nidus. Compared to A. komarovii, transcription factors related to stress response, leaf development, and root development were found to be considerably expanded in A. nidus, especially in the ANR1 subclade of MADS-box family genes which played roles in lateral root development. This study improves our understanding of the adaptation of A. nidus to epiphytic habitats by forming unique strategies.http://dx.doi.org/10.1155/2019/1429316 |
| spellingShingle | Jiao Zhang Li Liu Jiang-Ping Shu Dong-Mei Jin Hui Shen Hong-Feng Chen Rui Zhang Yue-Hong Yan Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus International Journal of Genomics |
| title | Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus |
| title_full | Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus |
| title_fullStr | Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus |
| title_full_unstemmed | Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus |
| title_short | Transcriptomic Evidence of Adaptive Evolution of the Epiphytic Fern Asplenium nidus |
| title_sort | transcriptomic evidence of adaptive evolution of the epiphytic fern asplenium nidus |
| url | http://dx.doi.org/10.1155/2019/1429316 |
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