Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa
Calcium-dependent protein kinases (CDPK) are known to mediate plant growth and development and respond to various environmental changes. Here, we performed whole-genome identification of CDPK families in cultivated and wild mei (<i>Prunus mume</i>). We identified 14 and 17 CDPK genes in...
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MDPI AG
2023-07-01
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author | Runtian Miao Mingyu Li Zhenying Wen Juan Meng Xu Liu Dongqing Fan Wenjuan Lv Tangren Cheng Qixiang Zhang Lidan Sun |
author_facet | Runtian Miao Mingyu Li Zhenying Wen Juan Meng Xu Liu Dongqing Fan Wenjuan Lv Tangren Cheng Qixiang Zhang Lidan Sun |
author_sort | Runtian Miao |
collection | DOAJ |
description | Calcium-dependent protein kinases (CDPK) are known to mediate plant growth and development and respond to various environmental changes. Here, we performed whole-genome identification of CDPK families in cultivated and wild mei (<i>Prunus mume</i>). We identified 14 and 17 CDPK genes in <i>P. mume</i> and <i>P. mume</i> var. Tortuosa genomes, respectively. All 270 CPDK proteins were classified into four clade, displaying frequent homologies between these two genomes and those of other Rosaceae species. Exon/intron structure, motif and synteny blocks were conserved between <i>P. mume</i> and <i>P. mume</i> var. Tortuosa. The interaction network revealed all PmCDPK and PmvCDPK proteins is interacted with respiratory burst oxidase homologs (RBOHs) and mitogen-activated protein kinase (MAPK). RNA-seq data analysis of cold experiments show that cis-acting elements in the <i>PmCDPK</i> genes, especially <i>PmCDPK14</i>, are associated with cold hardiness. Our results provide and broad insights into CDPK gene families in mei and their role in modulating cold stress response in plants. |
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spelling | doaj.art-9830ecb91a604f3290cef74aa7abc96f2023-11-18T17:19:04ZengMDPI AGPlants2223-77472023-07-011213254810.3390/plants12132548Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. TortuosaRuntian Miao0Mingyu Li1Zhenying Wen2Juan Meng3Xu Liu4Dongqing Fan5Wenjuan Lv6Tangren Cheng7Qixiang Zhang8Lidan Sun9Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaBeijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, School of Landscape Architecture, Beijing Forestry University, Beijing 100083, ChinaCalcium-dependent protein kinases (CDPK) are known to mediate plant growth and development and respond to various environmental changes. Here, we performed whole-genome identification of CDPK families in cultivated and wild mei (<i>Prunus mume</i>). We identified 14 and 17 CDPK genes in <i>P. mume</i> and <i>P. mume</i> var. Tortuosa genomes, respectively. All 270 CPDK proteins were classified into four clade, displaying frequent homologies between these two genomes and those of other Rosaceae species. Exon/intron structure, motif and synteny blocks were conserved between <i>P. mume</i> and <i>P. mume</i> var. Tortuosa. The interaction network revealed all PmCDPK and PmvCDPK proteins is interacted with respiratory burst oxidase homologs (RBOHs) and mitogen-activated protein kinase (MAPK). RNA-seq data analysis of cold experiments show that cis-acting elements in the <i>PmCDPK</i> genes, especially <i>PmCDPK14</i>, are associated with cold hardiness. Our results provide and broad insights into CDPK gene families in mei and their role in modulating cold stress response in plants.https://www.mdpi.com/2223-7747/12/13/2548cold stressreplication eventstranscriptional expression profilesprotein-protein interaction networkgene expression |
spellingShingle | Runtian Miao Mingyu Li Zhenying Wen Juan Meng Xu Liu Dongqing Fan Wenjuan Lv Tangren Cheng Qixiang Zhang Lidan Sun Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa Plants cold stress replication events transcriptional expression profiles protein-protein interaction network gene expression |
title | Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa |
title_full | Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa |
title_fullStr | Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa |
title_full_unstemmed | Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa |
title_short | Whole-Genome Identification of Regulatory Function of CDPK Gene Families in Cold Stress Response for <i>Prunus mume</i> and <i>Prunus mume</i> var. Tortuosa |
title_sort | whole genome identification of regulatory function of cdpk gene families in cold stress response for i prunus mume i and i prunus mume i var tortuosa |
topic | cold stress replication events transcriptional expression profiles protein-protein interaction network gene expression |
url | https://www.mdpi.com/2223-7747/12/13/2548 |
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