Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress
Exposure to extended periods of darkness is a common source of abiotic stress that significantly affects plant growth and development. To understand how Nicotiana benthamiana responds to dark stress, the proteomes and metabolomes of leaves treated with darkness were studied. In total, 5763 proteins...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2022-01-01
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| Series: | FEBS Open Bio |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/2211-5463.13331 |
| _version_ | 1798034261942468608 |
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| author | Juan‐Juan Shen Qian‐Si Chen Ze‐Feng Li Qing‐Xia Zheng Ya‐Long Xu Hui‐Na Zhou Hong‐Yan Mao Qi Shen Ping‐Ping Liu |
| author_facet | Juan‐Juan Shen Qian‐Si Chen Ze‐Feng Li Qing‐Xia Zheng Ya‐Long Xu Hui‐Na Zhou Hong‐Yan Mao Qi Shen Ping‐Ping Liu |
| author_sort | Juan‐Juan Shen |
| collection | DOAJ |
| description | Exposure to extended periods of darkness is a common source of abiotic stress that significantly affects plant growth and development. To understand how Nicotiana benthamiana responds to dark stress, the proteomes and metabolomes of leaves treated with darkness were studied. In total, 5763 proteins and 165 primary metabolites were identified following dark treatment. Additionally, the expression of autophagy‐related gene (ATG) proteins was transiently upregulated. Weighted gene coexpression network analysis (WGCNA) was utilized to find the protein modules associated with the response to dark stress. A total of four coexpression modules were obtained. The results indicated that heat‐shock protein (HSP70), SnRK1‐interacting protein 1, 2A phosphatase‐associated protein of 46 kDa (Tap46), and glutamate dehydrogenase (GDH) might play crucial roles in N. benthamiana’s response to dark stress. Furthermore, a protein–protein interaction (PPI) network was constructed and top‐degreed proteins were predicted to identify potential key factors in the response to dark stress. These proteins include isopropylmalate isomerase (IPMI), eukaryotic elongation factor 5A (ELF5A), and ribosomal protein 5A (RPS5A). Finally, metabolic analysis suggested that some amino acids and sugars were involved in the dark‐responsive pathways. Thus, these results provide a new avenue for understanding the defensive mechanism against dark stress at the protein and metabolic levels in N. benthamiana. |
| first_indexed | 2024-04-11T20:41:55Z |
| format | Article |
| id | doaj.art-a7cb8d4d74714d3b8978e4266f3eebf0 |
| institution | Directory Open Access Journal |
| issn | 2211-5463 |
| language | English |
| last_indexed | 2024-04-11T20:41:55Z |
| publishDate | 2022-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | FEBS Open Bio |
| spelling | doaj.art-a7cb8d4d74714d3b8978e4266f3eebf02022-12-22T04:04:11ZengWileyFEBS Open Bio2211-54632022-01-0112123124910.1002/2211-5463.13331Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stressJuan‐Juan Shen0Qian‐Si Chen1Ze‐Feng Li2Qing‐Xia Zheng3Ya‐Long Xu4Hui‐Na Zhou5Hong‐Yan Mao6Qi Shen7Ping‐Ping Liu8College of Chemistry Zhengzhou University Zhengzhou ChinaZhengzhou Tobacco Research Institute of CNTC Zhengzhou ChinaZhengzhou Tobacco Research Institute of CNTC Zhengzhou ChinaZhengzhou Tobacco Research Institute of CNTC Zhengzhou ChinaZhengzhou Tobacco Research Institute of CNTC Zhengzhou ChinaZhengzhou Tobacco Research Institute of CNTC Zhengzhou ChinaCollege of Chemistry Zhengzhou University Zhengzhou ChinaCollege of Chemistry Zhengzhou University Zhengzhou ChinaZhengzhou Tobacco Research Institute of CNTC Zhengzhou ChinaExposure to extended periods of darkness is a common source of abiotic stress that significantly affects plant growth and development. To understand how Nicotiana benthamiana responds to dark stress, the proteomes and metabolomes of leaves treated with darkness were studied. In total, 5763 proteins and 165 primary metabolites were identified following dark treatment. Additionally, the expression of autophagy‐related gene (ATG) proteins was transiently upregulated. Weighted gene coexpression network analysis (WGCNA) was utilized to find the protein modules associated with the response to dark stress. A total of four coexpression modules were obtained. The results indicated that heat‐shock protein (HSP70), SnRK1‐interacting protein 1, 2A phosphatase‐associated protein of 46 kDa (Tap46), and glutamate dehydrogenase (GDH) might play crucial roles in N. benthamiana’s response to dark stress. Furthermore, a protein–protein interaction (PPI) network was constructed and top‐degreed proteins were predicted to identify potential key factors in the response to dark stress. These proteins include isopropylmalate isomerase (IPMI), eukaryotic elongation factor 5A (ELF5A), and ribosomal protein 5A (RPS5A). Finally, metabolic analysis suggested that some amino acids and sugars were involved in the dark‐responsive pathways. Thus, these results provide a new avenue for understanding the defensive mechanism against dark stress at the protein and metabolic levels in N. benthamiana.https://doi.org/10.1002/2211-5463.13331autophagydark stressmetabolismNicotiana benthamianaproteomicweighted gene coexpression network analysis |
| spellingShingle | Juan‐Juan Shen Qian‐Si Chen Ze‐Feng Li Qing‐Xia Zheng Ya‐Long Xu Hui‐Na Zhou Hong‐Yan Mao Qi Shen Ping‐Ping Liu Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress FEBS Open Bio autophagy dark stress metabolism Nicotiana benthamiana proteomic weighted gene coexpression network analysis |
| title | Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress |
| title_full | Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress |
| title_fullStr | Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress |
| title_full_unstemmed | Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress |
| title_short | Proteomic and metabolomic analysis of Nicotiana benthamiana under dark stress |
| title_sort | proteomic and metabolomic analysis of nicotiana benthamiana under dark stress |
| topic | autophagy dark stress metabolism Nicotiana benthamiana proteomic weighted gene coexpression network analysis |
| url | https://doi.org/10.1002/2211-5463.13331 |
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