Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses
Prunus mume is an important woody plant that has high ornamental and economic value, widely distributed and used in landscape architecture in East Asia. In plants, basic (region) leucine zipper (bZIP) transcription factors play important regulatory roles in growth, development, dormancy and abiotic...
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KeAi Communications Co., Ltd.
2022-03-01
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| Series: | Horticultural Plant Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2468014121000960 |
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| author | Ping Li Tangchun Zheng Lulu Li Jia Wang Tangren Cheng Qixiang Zhang |
| author_facet | Ping Li Tangchun Zheng Lulu Li Jia Wang Tangren Cheng Qixiang Zhang |
| author_sort | Ping Li |
| collection | DOAJ |
| description | Prunus mume is an important woody plant that has high ornamental and economic value, widely distributed and used in landscape architecture in East Asia. In plants, basic (region) leucine zipper (bZIP) transcription factors play important regulatory roles in growth, development, dormancy and abiotic stress. To date, bZIP transcription factors have not been systematically studied in P. mume. In this study, 49 bZIP genes were first identified in P. mume, and the PmbZIP family was divided into 12 groups according to the grouping principles for the Arabidopsis thaliana bZIP family. For the first time, we constructed a detailed model of the PmbZIP domains (R-x3N-x7-R/K-x2-K-x6-L-x6-L-x6-L). Phylogenetic and synteny analyses showed that PmbZIPs duplication events might have occurred during the large-scale genome duplication events. A relatively short time of speciation and the finding that 91.84% of the bZIP genes formed orthologous pairs between P. mume and Prunus armeniaca provided evidence of a close relationship. Gene expression patterns were analysed in different tissues and periods, indicating that PmbZIP genes with the same motifs exhibited similar expression patterns. The gene expression results showed that PmbZIP31/36/41 genes played a more prominent role in the response to freezing stress than cold stress. The expression level of almost all subset III genes was upregulated under freezing treatment, especially after cold exposure. We analysed the gene expression patterns of PmbZIP12/31/36/41/48 and their responses to low-temperature stress, which provided useful resources for future studies on the cold/freezing-tolerant molecular breeding of P. mume. |
| first_indexed | 2024-04-24T08:43:55Z |
| format | Article |
| id | doaj.art-0ca12256350447149f94e97c877c36e6 |
| institution | Directory Open Access Journal |
| issn | 2468-0141 |
| language | English |
| last_indexed | 2024-04-24T08:43:55Z |
| publishDate | 2022-03-01 |
| publisher | KeAi Communications Co., Ltd. |
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| series | Horticultural Plant Journal |
| spelling | doaj.art-0ca12256350447149f94e97c877c36e62024-04-16T14:08:24ZengKeAi Communications Co., Ltd.Horticultural Plant Journal2468-01412022-03-0182230242Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responsesPing Li0Tangchun Zheng1Lulu Li2Jia Wang3Tangren Cheng4Qixiang Zhang5Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding; National Engineering Research Center for Floriculture; Beijing Laboratory of Urban and Rural Ecological Environment; Engineering Research Center of Landscape Environment of Ministry of Education; Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaCorresponding authors. Tel.:+861062336321.; Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding; National Engineering Research Center for Floriculture; Beijing Laboratory of Urban and Rural Ecological Environment; Engineering Research Center of Landscape Environment of Ministry of Education; Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding; National Engineering Research Center for Floriculture; Beijing Laboratory of Urban and Rural Ecological Environment; Engineering Research Center of Landscape Environment of Ministry of Education; Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding; National Engineering Research Center for Floriculture; Beijing Laboratory of Urban and Rural Ecological Environment; Engineering Research Center of Landscape Environment of Ministry of Education; Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding; National Engineering Research Center for Floriculture; Beijing Laboratory of Urban and Rural Ecological Environment; Engineering Research Center of Landscape Environment of Ministry of Education; Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaCorresponding authors. Tel.:+861062336321.; Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding; National Engineering Research Center for Floriculture; Beijing Laboratory of Urban and Rural Ecological Environment; Engineering Research Center of Landscape Environment of Ministry of Education; Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaPrunus mume is an important woody plant that has high ornamental and economic value, widely distributed and used in landscape architecture in East Asia. In plants, basic (region) leucine zipper (bZIP) transcription factors play important regulatory roles in growth, development, dormancy and abiotic stress. To date, bZIP transcription factors have not been systematically studied in P. mume. In this study, 49 bZIP genes were first identified in P. mume, and the PmbZIP family was divided into 12 groups according to the grouping principles for the Arabidopsis thaliana bZIP family. For the first time, we constructed a detailed model of the PmbZIP domains (R-x3N-x7-R/K-x2-K-x6-L-x6-L-x6-L). Phylogenetic and synteny analyses showed that PmbZIPs duplication events might have occurred during the large-scale genome duplication events. A relatively short time of speciation and the finding that 91.84% of the bZIP genes formed orthologous pairs between P. mume and Prunus armeniaca provided evidence of a close relationship. Gene expression patterns were analysed in different tissues and periods, indicating that PmbZIP genes with the same motifs exhibited similar expression patterns. The gene expression results showed that PmbZIP31/36/41 genes played a more prominent role in the response to freezing stress than cold stress. The expression level of almost all subset III genes was upregulated under freezing treatment, especially after cold exposure. We analysed the gene expression patterns of PmbZIP12/31/36/41/48 and their responses to low-temperature stress, which provided useful resources for future studies on the cold/freezing-tolerant molecular breeding of P. mume.http://www.sciencedirect.com/science/article/pii/S2468014121000960bZIP transcription factorGene expressionLow-temperature stress |
| spellingShingle | Ping Li Tangchun Zheng Lulu Li Jia Wang Tangren Cheng Qixiang Zhang Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses Horticultural Plant Journal bZIP transcription factor Gene expression Low-temperature stress |
| title | Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses |
| title_full | Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses |
| title_fullStr | Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses |
| title_full_unstemmed | Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses |
| title_short | Genome-wide investigation of the bZIP transcription factor gene family in Prunus mume: Classification, evolution, expression profile and low-temperature stress responses |
| title_sort | genome wide investigation of the bzip transcription factor gene family in prunus mume classification evolution expression profile and low temperature stress responses |
| topic | bZIP transcription factor Gene expression Low-temperature stress |
| url | http://www.sciencedirect.com/science/article/pii/S2468014121000960 |
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