Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton

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 fam...

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Autores principales: Jiang, Tiantian, Cui, Aihua, Cui, Yupeng, Cui, Ruifeng, Han, Mingge, Zhang, Yuexin, Fan, Yapeng, Huang, Hui, Feng, Xixian, Lei, Yuqian, Liu, Xiaoyu, Ni, Kesong, Zhang, Hong, Xu, Nan, Wang, Jing, Sun, Liangqing, Rui, Cun, Wang, Junjuan, Wang, Shuai, Chen, Xiugui, Lu, Xuke, Wang, Delong, Guo, Lixue, Zhao, Lanjie, Hao, Fushun, Ye, Wuwei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9985220/
https://www.ncbi.nlm.nih.gov/pubmed/36869319
http://dx.doi.org/10.1186/s12870-023-04133-x
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author Jiang, Tiantian
Cui, Aihua
Cui, Yupeng
Cui, Ruifeng
Han, Mingge
Zhang, Yuexin
Fan, Yapeng
Huang, Hui
Feng, Xixian
Lei, Yuqian
Liu, Xiaoyu
Ni, Kesong
Zhang, Hong
Xu, Nan
Wang, Jing
Sun, Liangqing
Rui, Cun
Wang, Junjuan
Wang, Shuai
Chen, Xiugui
Lu, Xuke
Wang, Delong
Guo, Lixue
Zhao, Lanjie
Hao, Fushun
Ye, Wuwei
author_facet Jiang, Tiantian
Cui, Aihua
Cui, Yupeng
Cui, Ruifeng
Han, Mingge
Zhang, Yuexin
Fan, Yapeng
Huang, Hui
Feng, Xixian
Lei, Yuqian
Liu, Xiaoyu
Ni, Kesong
Zhang, Hong
Xu, Nan
Wang, Jing
Sun, Liangqing
Rui, Cun
Wang, Junjuan
Wang, Shuai
Chen, Xiugui
Lu, Xuke
Wang, Delong
Guo, Lixue
Zhao, Lanjie
Hao, Fushun
Ye, Wuwei
author_sort Jiang, Tiantian
collection PubMed
description 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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-023-04133-x.
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spelling pubmed-99852202023-03-05 Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton Jiang, Tiantian Cui, Aihua Cui, Yupeng Cui, Ruifeng Han, Mingge Zhang, Yuexin Fan, Yapeng Huang, Hui Feng, Xixian Lei, Yuqian Liu, Xiaoyu Ni, Kesong Zhang, Hong Xu, Nan Wang, Jing Sun, Liangqing Rui, Cun Wang, Junjuan Wang, Shuai Chen, Xiugui Lu, Xuke Wang, Delong Guo, Lixue Zhao, Lanjie Hao, Fushun Ye, Wuwei BMC Plant Biol Research 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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-023-04133-x. BioMed Central 2023-03-04 /pmc/articles/PMC9985220/ /pubmed/36869319 http://dx.doi.org/10.1186/s12870-023-04133-x Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Jiang, Tiantian
Cui, Aihua
Cui, Yupeng
Cui, Ruifeng
Han, Mingge
Zhang, Yuexin
Fan, Yapeng
Huang, Hui
Feng, Xixian
Lei, Yuqian
Liu, Xiaoyu
Ni, Kesong
Zhang, Hong
Xu, Nan
Wang, Jing
Sun, Liangqing
Rui, Cun
Wang, Junjuan
Wang, Shuai
Chen, Xiugui
Lu, Xuke
Wang, Delong
Guo, Lixue
Zhao, Lanjie
Hao, Fushun
Ye, Wuwei
Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in 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 Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9985220/
https://www.ncbi.nlm.nih.gov/pubmed/36869319
http://dx.doi.org/10.1186/s12870-023-04133-x
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