Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i>
<i>Cymbidium sinense,</i> a type of orchid plant, is more drought-resistant and ornamental than other terrestrial orchids. Research has shown that many members of the <i>NUCLEAR FACTOR Y (NF-Y)</i> transcription factor family are responsive to plant growth, development, and a...
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2024-03-01
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| author | Linying Wang Xuewei Zhao Ruiyue Zheng Ye Huang Cuili Zhang Meng-Meng Zhang Siren Lan Zhong-Jian Liu |
| author_facet | Linying Wang Xuewei Zhao Ruiyue Zheng Ye Huang Cuili Zhang Meng-Meng Zhang Siren Lan Zhong-Jian Liu |
| author_sort | Linying Wang |
| collection | DOAJ |
| description | <i>Cymbidium sinense,</i> a type of orchid plant, is more drought-resistant and ornamental than other terrestrial orchids. Research has shown that many members of the <i>NUCLEAR FACTOR Y (NF-Y)</i> transcription factor family are responsive to plant growth, development, and abiotic stress. However, the mechanism of the <i>NF-Y</i> gene family’s response to abiotic stress in orchids has not yet been reported. In this study, phylogenetic analysis allowed for 27 <i>CsNF-Y</i> genes to be identified (5 <i>CsNF-YAs</i>, 9 <i>CsNF-YBs</i>, and 13 <i>CsNF-YC</i> subunits), and the <i>CsNF-Y</i>s were homologous to those in <i>Arabidopsis</i> and <i>Oryza</i>. Protein structure analysis revealed that different subfamilies contained different motifs, but all of them contained Motif 2. Secondary and tertiary protein structure analysis indicated that the <i>CsNF-YB</i> and <i>CsNF-YC</i> subfamilies had a high content of alpha helix structures. <i>Cis</i>-element analysis showed that elements related to drought stress were mainly concentrated in the <i>CsNF-YB</i> and <i>CsNF-YC</i> subfamilies, with <i>CsNF-YB3</i> and <i>CsNF-YC12</i> having the highest content. The results of a transcriptome analysis showed that there was a trend of downregulation of almost all <i>CsNF-Ys</i> in leaves under drought stress, while in roots, most members of the <i>CsNF-YB</i> subfamily showed a trend of upregulation. Additionally, seven genes were selected for real-time reverse transcription quantitative PCR (qRT-PCR) experiments. The results were generally consistent with those of the transcriptome analysis. The regulatory roles of <i>CsNF-YB 1</i>, <i>2</i>, and <i>4</i> were particularly evident in the roots. The findings of our study may make a great contribution to the understanding of the role of <i>CsNF-Ys</i> in stress-related metabolic processes. |
| first_indexed | 2024-04-25T00:28:02Z |
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| spelling | doaj.art-a9b7d3d003024741ba7a250cb3c61c532024-03-12T16:47:19ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672024-03-01255303110.3390/ijms25053031Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i>Linying Wang0Xuewei Zhao1Ruiyue Zheng2Ye Huang3Cuili Zhang4Meng-Meng Zhang5Siren Lan6Zhong-Jian Liu7Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China<i>Cymbidium sinense,</i> a type of orchid plant, is more drought-resistant and ornamental than other terrestrial orchids. Research has shown that many members of the <i>NUCLEAR FACTOR Y (NF-Y)</i> transcription factor family are responsive to plant growth, development, and abiotic stress. However, the mechanism of the <i>NF-Y</i> gene family’s response to abiotic stress in orchids has not yet been reported. In this study, phylogenetic analysis allowed for 27 <i>CsNF-Y</i> genes to be identified (5 <i>CsNF-YAs</i>, 9 <i>CsNF-YBs</i>, and 13 <i>CsNF-YC</i> subunits), and the <i>CsNF-Y</i>s were homologous to those in <i>Arabidopsis</i> and <i>Oryza</i>. Protein structure analysis revealed that different subfamilies contained different motifs, but all of them contained Motif 2. Secondary and tertiary protein structure analysis indicated that the <i>CsNF-YB</i> and <i>CsNF-YC</i> subfamilies had a high content of alpha helix structures. <i>Cis</i>-element analysis showed that elements related to drought stress were mainly concentrated in the <i>CsNF-YB</i> and <i>CsNF-YC</i> subfamilies, with <i>CsNF-YB3</i> and <i>CsNF-YC12</i> having the highest content. The results of a transcriptome analysis showed that there was a trend of downregulation of almost all <i>CsNF-Ys</i> in leaves under drought stress, while in roots, most members of the <i>CsNF-YB</i> subfamily showed a trend of upregulation. Additionally, seven genes were selected for real-time reverse transcription quantitative PCR (qRT-PCR) experiments. The results were generally consistent with those of the transcriptome analysis. The regulatory roles of <i>CsNF-YB 1</i>, <i>2</i>, and <i>4</i> were particularly evident in the roots. The findings of our study may make a great contribution to the understanding of the role of <i>CsNF-Ys</i> in stress-related metabolic processes.https://www.mdpi.com/1422-0067/25/5/3031<i>Cymbidium sinense</i>NF-Y genesabiotic stressdrought stress responsivenessexpression analysis |
| spellingShingle | Linying Wang Xuewei Zhao Ruiyue Zheng Ye Huang Cuili Zhang Meng-Meng Zhang Siren Lan Zhong-Jian Liu Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i> International Journal of Molecular Sciences <i>Cymbidium sinense</i> NF-Y genes abiotic stress drought stress responsiveness expression analysis |
| title | Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i> |
| title_full | Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i> |
| title_fullStr | Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i> |
| title_full_unstemmed | Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i> |
| title_short | Genome-Wide Identification and Drought Stress Response Pattern of the NF-Y Gene Family in <i>Cymbidium sinense</i> |
| title_sort | genome wide identification and drought stress response pattern of the nf y gene family in i cymbidium sinense i |
| topic | <i>Cymbidium sinense</i> NF-Y genes abiotic stress drought stress responsiveness expression analysis |
| url | https://www.mdpi.com/1422-0067/25/5/3031 |
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