Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton
Carbon ion beam (CIB) irradiation is a powerful way to create mutations in animals, plants, and microbes. Research on the mutagenic effects and molecular mechanisms of radiation is an important and multidisciplinary issue. However, the effect of carbon ion radiation on cotton is uncertain. In this s...
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| Format: | Article |
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Frontiers Media S.A.
2023-02-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1056662/full |
| _version_ | 1797904926903369728 |
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| author | Jianguang Liu Guiyuan Zhao Jinpeng Geng Zhao Geng Haikuan Dou Xu Liu Zetong An Hanshuang Zhang Yongqiang Wang |
| author_facet | Jianguang Liu Guiyuan Zhao Jinpeng Geng Zhao Geng Haikuan Dou Xu Liu Zetong An Hanshuang Zhang Yongqiang Wang |
| author_sort | Jianguang Liu |
| collection | DOAJ |
| description | Carbon ion beam (CIB) irradiation is a powerful way to create mutations in animals, plants, and microbes. Research on the mutagenic effects and molecular mechanisms of radiation is an important and multidisciplinary issue. However, the effect of carbon ion radiation on cotton is uncertain. In this study, five different upland cotton varieties and five CIB doses were used to identify the suitable irradiation dose for cotton. Three mutagenized progeny cotton lines from the wild-type Ji172 were re-sequenced. The effect of half-lethal dose on mutation induction indicated that 200 Gy with LETmax of 226.9 KeV/μm was the most effective heavy-ion dose for upland cotton and a total of 2,959-4,049 single-base substitutions (SBSs) and 610-947 insertion-deletion polymorphisms (InDels) were identified among the three mutants by resequencing. The ratio of transition to transversion in the three mutants ranged from 2.16 to 2.24. Among transversion events, G:C>C:G was significantly less common than three other types of mutations (A:T>C:G, A:T>T:A, and G:C>T:A). The proportions of six types of mutations were very similar in each mutant. The distributions of identified SBSs and InDels were similar with unevenly distributed across the genome and chromosomes. Some chromosomes had significantly more SBSs than others, and there were “hotspot” mutation regions at the ends of chromosomes. Overall, our study revealed a profile of cotton mutations caused by CIB irradiation, and these data could provide valuable information for cotton mutation breeding. |
| first_indexed | 2024-04-10T09:56:48Z |
| format | Article |
| id | doaj.art-9746009c9b794f06a1b3eee2a93cd899 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-10T09:56:48Z |
| publishDate | 2023-02-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-9746009c9b794f06a1b3eee2a93cd8992023-02-16T12:21:38ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-02-011410.3389/fpls.2023.10566621056662Genome-wide analysis of mutations induced by carbon ion beam irradiation in cottonJianguang Liu0Guiyuan Zhao1Jinpeng Geng2Zhao Geng3Haikuan Dou4Xu Liu5Zetong An6Hanshuang Zhang7Yongqiang Wang8Institute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaSchool of Science, Hebei University of Technology, Tianjin, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaInstitute of Cotton, Hebei Academy of Agriculture and Forestry Sciences/Key Laboratory of Biology and Genetic Improvement of Cotton in Huanghuaihai Semiarid Area, Shijiazhuang, ChinaCarbon ion beam (CIB) irradiation is a powerful way to create mutations in animals, plants, and microbes. Research on the mutagenic effects and molecular mechanisms of radiation is an important and multidisciplinary issue. However, the effect of carbon ion radiation on cotton is uncertain. In this study, five different upland cotton varieties and five CIB doses were used to identify the suitable irradiation dose for cotton. Three mutagenized progeny cotton lines from the wild-type Ji172 were re-sequenced. The effect of half-lethal dose on mutation induction indicated that 200 Gy with LETmax of 226.9 KeV/μm was the most effective heavy-ion dose for upland cotton and a total of 2,959-4,049 single-base substitutions (SBSs) and 610-947 insertion-deletion polymorphisms (InDels) were identified among the three mutants by resequencing. The ratio of transition to transversion in the three mutants ranged from 2.16 to 2.24. Among transversion events, G:C>C:G was significantly less common than three other types of mutations (A:T>C:G, A:T>T:A, and G:C>T:A). The proportions of six types of mutations were very similar in each mutant. The distributions of identified SBSs and InDels were similar with unevenly distributed across the genome and chromosomes. Some chromosomes had significantly more SBSs than others, and there were “hotspot” mutation regions at the ends of chromosomes. Overall, our study revealed a profile of cotton mutations caused by CIB irradiation, and these data could provide valuable information for cotton mutation breeding.https://www.frontiersin.org/articles/10.3389/fpls.2023.1056662/fullcottoncarbon-ion beam irradiationgenetic variationmutantswhole genome re-sequencing |
| spellingShingle | Jianguang Liu Guiyuan Zhao Jinpeng Geng Zhao Geng Haikuan Dou Xu Liu Zetong An Hanshuang Zhang Yongqiang Wang Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton Frontiers in Plant Science cotton carbon-ion beam irradiation genetic variation mutants whole genome re-sequencing |
| title | Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton |
| title_full | Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton |
| title_fullStr | Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton |
| title_full_unstemmed | Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton |
| title_short | Genome-wide analysis of mutations induced by carbon ion beam irradiation in cotton |
| title_sort | genome wide analysis of mutations induced by carbon ion beam irradiation in cotton |
| topic | cotton carbon-ion beam irradiation genetic variation mutants whole genome re-sequencing |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1056662/full |
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