Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton
Abstract Background 2-oxoglutarate-dependent dioxygenase (2ODD) is the second largest family of oxidases involved in various oxygenation/hydroxylation reactions in plants. Many members in the family regulate gene transcription, nucleic acid modification/repair and secondary metabolic synthesis. The...
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| Format: | Article |
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BMC
2023-03-01
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| Series: | BMC Plant Biology |
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| Online Access: | https://doi.org/10.1186/s12870-023-04133-x |
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| author | Tiantian Jiang Aihua Cui Yupeng Cui Ruifeng Cui Mingge Han Yuexin Zhang Yapeng Fan Hui Huang Xixian Feng Yuqian Lei Xiaoyu Liu Kesong Ni Hong Zhang Nan Xu Jing Wang Liangqing Sun Cun Rui Junjuan Wang Shuai Wang Xiugui Chen Xuke Lu Delong Wang Lixue Guo Lanjie Zhao Fushun Hao Wuwei Ye |
| author_facet | Tiantian Jiang Aihua Cui Yupeng Cui Ruifeng Cui Mingge Han Yuexin Zhang Yapeng Fan Hui Huang Xixian Feng Yuqian Lei Xiaoyu Liu Kesong Ni Hong Zhang Nan Xu Jing Wang Liangqing Sun Cun Rui Junjuan Wang Shuai Wang Xiugui Chen Xuke Lu Delong Wang Lixue Guo Lanjie Zhao Fushun Hao Wuwei Ye |
| author_sort | Tiantian Jiang |
| collection | DOAJ |
| description | Abstract Background 2-oxoglutarate-dependent dioxygenase (2ODD) is the second largest family of oxidases involved in various oxygenation/hydroxylation reactions in plants. Many members in the family regulate gene transcription, nucleic acid modification/repair and secondary metabolic synthesis. The 2ODD family genes also function in the formation of abundant flavonoids during anthocyanin synthesis, thereby modulating plant development and response to diverse stresses. Results Totally, 379, 336, 205, and 204 2ODD genes were identified in G. barbadense (Gb), G. hirsutum (Gh), G. arboreum (Ga), and G. raimondii (Gb), respectively. The 336 2ODDs in G. hirsutum were divided into 15 subfamilies according to their putative functions. The structural features and functions of the 2ODD members in the same subfamily were similar and evolutionarily conserved. Tandem duplications and segmental duplications served essential roles in the large-scale expansion of the cotton 2ODD family. Ka/Ks values for most of the gene pairs were less than 1, indicating that 2ODD genes undergo strong purifying selection during evolution. Gh2ODDs might act in cotton responses to different abiotic stresses. GhLDOX3 and GhLDOX7, two members of the GhLDOX subfamily from Gh2ODDs, were significantly down-regulated in transcription under alkaline stress. Moreover, the expression of GhLDOX3 in leaves was significantly higher than that in other tissues. These results will provide valuable information for further understanding the evolution mechanisms and functions of the cotton 2ODD genes in the future. Conclusions Genome-wide identification, structure, and evolution and expression analysis of 2ODD genes in Gossypium were carried out. The 2ODDs were highly conserved during evolutionary. Most Gh2ODDs were involved in the regulation of cotton responses to multiple abiotic stresses including salt, drought, hot, cold and alkali. |
| first_indexed | 2024-04-09T23:03:51Z |
| format | Article |
| id | doaj.art-2ce1f003268e419eb88465454e63c21b |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-04-09T23:03:51Z |
| publishDate | 2023-03-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-2ce1f003268e419eb88465454e63c21b2023-03-22T10:49:38ZengBMCBMC Plant Biology1471-22292023-03-0123112310.1186/s12870-023-04133-xSystematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cottonTiantian Jiang0Aihua Cui1Yupeng Cui2Ruifeng Cui3Mingge Han4Yuexin Zhang5Yapeng Fan6Hui Huang7Xixian Feng8Yuqian Lei9Xiaoyu Liu10Kesong Ni11Hong Zhang12Nan Xu13Jing Wang14Liangqing Sun15Cun Rui16Junjuan Wang17Shuai Wang18Xiugui Chen19Xuke Lu20Delong Wang21Lixue Guo22Lanjie Zhao23Fushun Hao24Wuwei Ye25State Key Laboratory of Cotton Biology / School of Life Sciences, Henan UniversityCotton Research Institute of Jiangxi ProvinceResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural SciencesState Key Laboratory of Cotton Biology / School of Life Sciences, Henan UniversityState Key Laboratory of Cotton Biology / School of Life Sciences, Henan UniversityAbstract Background 2-oxoglutarate-dependent dioxygenase (2ODD) is the second largest family of oxidases involved in various oxygenation/hydroxylation reactions in plants. Many members in the family regulate gene transcription, nucleic acid modification/repair and secondary metabolic synthesis. The 2ODD family genes also function in the formation of abundant flavonoids during anthocyanin synthesis, thereby modulating plant development and response to diverse stresses. Results Totally, 379, 336, 205, and 204 2ODD genes were identified in G. barbadense (Gb), G. hirsutum (Gh), G. arboreum (Ga), and G. raimondii (Gb), respectively. The 336 2ODDs in G. hirsutum were divided into 15 subfamilies according to their putative functions. The structural features and functions of the 2ODD members in the same subfamily were similar and evolutionarily conserved. Tandem duplications and segmental duplications served essential roles in the large-scale expansion of the cotton 2ODD family. Ka/Ks values for most of the gene pairs were less than 1, indicating that 2ODD genes undergo strong purifying selection during evolution. Gh2ODDs might act in cotton responses to different abiotic stresses. GhLDOX3 and GhLDOX7, two members of the GhLDOX subfamily from Gh2ODDs, were significantly down-regulated in transcription under alkaline stress. Moreover, the expression of GhLDOX3 in leaves was significantly higher than that in other tissues. These results will provide valuable information for further understanding the evolution mechanisms and functions of the cotton 2ODD genes in the future. Conclusions Genome-wide identification, structure, and evolution and expression analysis of 2ODD genes in Gossypium were carried out. The 2ODDs were highly conserved during evolutionary. Most Gh2ODDs were involved in the regulation of cotton responses to multiple abiotic stresses including salt, drought, hot, cold and alkali.https://doi.org/10.1186/s12870-023-04133-xLeucocyanidin dioxygenaseGene familyPhylogenetic analysisStructural analysisCotton |
| spellingShingle | Tiantian Jiang Aihua Cui Yupeng Cui Ruifeng Cui Mingge Han Yuexin Zhang Yapeng Fan Hui Huang Xixian Feng Yuqian Lei Xiaoyu Liu Kesong Ni Hong Zhang Nan Xu Jing Wang Liangqing Sun Cun Rui Junjuan Wang Shuai Wang Xiugui Chen Xuke Lu Delong Wang Lixue Guo Lanjie Zhao Fushun Hao Wuwei Ye Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton BMC Plant Biology Leucocyanidin dioxygenase Gene family Phylogenetic analysis Structural analysis Cotton |
| title | Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton |
| title_full | Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton |
| title_fullStr | Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton |
| title_full_unstemmed | Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton |
| title_short | Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton |
| title_sort | systematic analysis and expression of gossypium 2odd superfamily highlight the roles of ghldoxs responding to alkali and other abiotic stress in cotton |
| topic | Leucocyanidin dioxygenase Gene family Phylogenetic analysis Structural analysis Cotton |
| url | https://doi.org/10.1186/s12870-023-04133-x |
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