RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics
Abstract Different hypotheses have been proposed to interpret the observed unusual ITS (internal transcribed spacer) sequences in Ophiocordyceps sinensis. The coexistence of diverged ITS paralogs in a single genome was previously shown by amplifying the ITS region from mono-ascospore isolates using...
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BMC
2020-09-01
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| Series: | IMA Fungus |
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| Online Access: | http://link.springer.com/article/10.1186/s43008-020-00040-0 |
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| author | Yi Li Lan Jiang Ke Wang Hai-Jun Wu Rui-Heng Yang Yu-Jing Yan Kathryn E. Bushley David L. Hawksworth Zujian Wu Yi-Jian Yao |
| author_facet | Yi Li Lan Jiang Ke Wang Hai-Jun Wu Rui-Heng Yang Yu-Jing Yan Kathryn E. Bushley David L. Hawksworth Zujian Wu Yi-Jian Yao |
| author_sort | Yi Li |
| collection | DOAJ |
| description | Abstract Different hypotheses have been proposed to interpret the observed unusual ITS (internal transcribed spacer) sequences in Ophiocordyceps sinensis. The coexistence of diverged ITS paralogs in a single genome was previously shown by amplifying the ITS region from mono-ascospore isolates using specific primers designed for different ITS paralog groups. Among those paralogs, are AT-biased ITS sequences which were hypothesized to result from repeat-induced point mutation (RIP). This is a process that detects and mutates repetitive DNA and frequently leads to epigenetic silencing, and these mutations have been interpreted as pseudogenes. Here we investigate the occurrence and frequency of ITS pseudogenes in populations of O. sinensis using large-scale sampling, and discusses the implications of ITS pseudogenes for fungal phylogenetic and evolutionary studies. Our results demonstrate a wide distribution of ITS pseudogenes amongst different geographic populations, and indicate how ITS pseudogenes can contribute to the reconstruction of the evolutionary history of the species. |
| format | Article |
| id | doaj-art-055605fb09f9486da24acb0d91557e44 |
| institution | Kabale University |
| issn | 2210-6359 |
| language | English |
| publishDate | 2020-09-01 |
| publisher | BMC |
| record_format | Article |
| series | IMA Fungus |
| spelling | doaj-art-055605fb09f9486da24acb0d91557e442025-02-02T19:20:58ZengBMCIMA Fungus2210-63592020-09-0111111010.1186/s43008-020-00040-0RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematicsYi Li0Lan Jiang1Ke Wang2Hai-Jun Wu3Rui-Heng Yang4Yu-Jing Yan5Kathryn E. Bushley6David L. Hawksworth7Zujian Wu8Yi-Jian Yao9Department of Plant Protection, Fujian Agriculture and Forestry UniversityState Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of SciencesState Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of SciencesState Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of SciencesInstitute of Edible Fungi, Shanghai Academy of Agriculture SciencesCenter for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of CopenhagenDepartment of Plant and Microbial Biology, University of MinnesotaDepartment of Life Sciences, The Natural History MuseumDepartment of Plant Protection, Fujian Agriculture and Forestry UniversityState Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of SciencesAbstract Different hypotheses have been proposed to interpret the observed unusual ITS (internal transcribed spacer) sequences in Ophiocordyceps sinensis. The coexistence of diverged ITS paralogs in a single genome was previously shown by amplifying the ITS region from mono-ascospore isolates using specific primers designed for different ITS paralog groups. Among those paralogs, are AT-biased ITS sequences which were hypothesized to result from repeat-induced point mutation (RIP). This is a process that detects and mutates repetitive DNA and frequently leads to epigenetic silencing, and these mutations have been interpreted as pseudogenes. Here we investigate the occurrence and frequency of ITS pseudogenes in populations of O. sinensis using large-scale sampling, and discusses the implications of ITS pseudogenes for fungal phylogenetic and evolutionary studies. Our results demonstrate a wide distribution of ITS pseudogenes amongst different geographic populations, and indicate how ITS pseudogenes can contribute to the reconstruction of the evolutionary history of the species.http://link.springer.com/article/10.1186/s43008-020-00040-0Caterpillar fungusCordyceps sinensisITS pseudogeneHaplotypePhylogeny |
| spellingShingle | Yi Li Lan Jiang Ke Wang Hai-Jun Wu Rui-Heng Yang Yu-Jing Yan Kathryn E. Bushley David L. Hawksworth Zujian Wu Yi-Jian Yao RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics IMA Fungus Caterpillar fungus Cordyceps sinensis ITS pseudogene Haplotype Phylogeny |
| title | RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics |
| title_full | RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics |
| title_fullStr | RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics |
| title_full_unstemmed | RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics |
| title_short | RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics |
| title_sort | rip mutated its genes in populations of ophiocordyceps sinensis and their implications for molecular systematics |
| topic | Caterpillar fungus Cordyceps sinensis ITS pseudogene Haplotype Phylogeny |
| url | http://link.springer.com/article/10.1186/s43008-020-00040-0 |
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