Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress
Transcription factors (TFs) play critical roles in mediating the plant response to various abiotic stresses, particularly heat stress. Plants respond to elevated temperatures by modulating the expression of genes involved in diverse metabolic pathways, a regulatory process primarily governed by mult...
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MDPI AG
2023-03-01
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| Series: | International Journal of Molecular Sciences |
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| author | Fuxiang Qiu Yingjie Zheng Yao Lin Samuel Tareke Woldegiorgis Shichang Xu Changqing Feng Guanpeng Huang Huiling Shen Yinying Xu Manegdebwaoga Arthur Fabrice Kabore Yufang Ai Wei Liu Huaqin He |
| author_facet | Fuxiang Qiu Yingjie Zheng Yao Lin Samuel Tareke Woldegiorgis Shichang Xu Changqing Feng Guanpeng Huang Huiling Shen Yinying Xu Manegdebwaoga Arthur Fabrice Kabore Yufang Ai Wei Liu Huaqin He |
| author_sort | Fuxiang Qiu |
| collection | DOAJ |
| description | Transcription factors (TFs) play critical roles in mediating the plant response to various abiotic stresses, particularly heat stress. Plants respond to elevated temperatures by modulating the expression of genes involved in diverse metabolic pathways, a regulatory process primarily governed by multiple TFs in a networked configuration. Many TFs, such as WRKY, MYB, NAC, bZIP, zinc finger protein, AP2/ERF, DREB, ERF, bHLH, and brassinosteroids, are associated with heat shock factor (Hsf) families, and are involved in heat stress tolerance. These TFs hold the potential to control multiple genes, which makes them ideal targets for enhancing the heat stress tolerance of crop plants. Despite their immense importance, only a small number of heat-stress-responsive TFs have been identified in rice. The molecular mechanisms underpinning the role of TFs in rice adaptation to heat stress still need to be researched. This study identified three TF genes, including <i>OsbZIP14</i>, <i>OsMYB2</i>, and <i>OsHSF7</i>, by integrating transcriptomic and epigenetic sequencing data analysis of rice in response to heat stress. Through comprehensive bioinformatics analysis, we demonstrated that <i>OsbZIP14</i>, one of the key heat-responsive TF genes, contained a basic-leucine zipper domain and primarily functioned as a nuclear TF with transcriptional activation capability. By knocking out the <i>OsbZIP14</i> gene in the rice cultivar Zhonghua 11, we observed that the knockout mutant <i>OsbZIP14</i> exhibited dwarfism with reduced tiller during the grain-filling stage. Under high-temperature treatment, it was also demonstrated that in the <i>OsbZIP14</i> mutant, the expression of the <i>OsbZIP58</i> gene, a key regulator of rice seed storage protein (SSP) accumulation, was upregulated. Furthermore, bimolecular fluorescence complementation (BiFC) experiments uncovered a direct interaction between <i>OsbZIP14</i> and <i>OsbZIP58</i>. Our results suggested that <i>OsbZIP14</i> acts as a key TF gene through the concerted action of <i>OsbZIP58</i> and <i>OsbZIP14</i> during rice filling under heat stress. These findings provide good candidate genes for genetic improvement of rice but also offer valuable scientific insights into the mechanism of heat tolerance stress in rice. |
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| language | English |
| last_indexed | 2024-03-11T06:26:00Z |
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| spelling | doaj.art-58ccb724e40349989dd2a049584bc56f2023-11-17T11:36:37ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-03-01246561910.3390/ijms24065619Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat StressFuxiang Qiu0Yingjie Zheng1Yao Lin2Samuel Tareke Woldegiorgis3Shichang Xu4Changqing Feng5Guanpeng Huang6Huiling Shen7Yinying Xu8Manegdebwaoga Arthur Fabrice Kabore9Yufang Ai10Wei Liu11Huaqin He12College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaTranscription factors (TFs) play critical roles in mediating the plant response to various abiotic stresses, particularly heat stress. Plants respond to elevated temperatures by modulating the expression of genes involved in diverse metabolic pathways, a regulatory process primarily governed by multiple TFs in a networked configuration. Many TFs, such as WRKY, MYB, NAC, bZIP, zinc finger protein, AP2/ERF, DREB, ERF, bHLH, and brassinosteroids, are associated with heat shock factor (Hsf) families, and are involved in heat stress tolerance. These TFs hold the potential to control multiple genes, which makes them ideal targets for enhancing the heat stress tolerance of crop plants. Despite their immense importance, only a small number of heat-stress-responsive TFs have been identified in rice. The molecular mechanisms underpinning the role of TFs in rice adaptation to heat stress still need to be researched. This study identified three TF genes, including <i>OsbZIP14</i>, <i>OsMYB2</i>, and <i>OsHSF7</i>, by integrating transcriptomic and epigenetic sequencing data analysis of rice in response to heat stress. Through comprehensive bioinformatics analysis, we demonstrated that <i>OsbZIP14</i>, one of the key heat-responsive TF genes, contained a basic-leucine zipper domain and primarily functioned as a nuclear TF with transcriptional activation capability. By knocking out the <i>OsbZIP14</i> gene in the rice cultivar Zhonghua 11, we observed that the knockout mutant <i>OsbZIP14</i> exhibited dwarfism with reduced tiller during the grain-filling stage. Under high-temperature treatment, it was also demonstrated that in the <i>OsbZIP14</i> mutant, the expression of the <i>OsbZIP58</i> gene, a key regulator of rice seed storage protein (SSP) accumulation, was upregulated. Furthermore, bimolecular fluorescence complementation (BiFC) experiments uncovered a direct interaction between <i>OsbZIP14</i> and <i>OsbZIP58</i>. Our results suggested that <i>OsbZIP14</i> acts as a key TF gene through the concerted action of <i>OsbZIP58</i> and <i>OsbZIP14</i> during rice filling under heat stress. These findings provide good candidate genes for genetic improvement of rice but also offer valuable scientific insights into the mechanism of heat tolerance stress in rice.https://www.mdpi.com/1422-0067/24/6/5619<i>Oryza sativa</i> L.transcription factorsheat stress<i>OsbZIP14</i> |
| spellingShingle | Fuxiang Qiu Yingjie Zheng Yao Lin Samuel Tareke Woldegiorgis Shichang Xu Changqing Feng Guanpeng Huang Huiling Shen Yinying Xu Manegdebwaoga Arthur Fabrice Kabore Yufang Ai Wei Liu Huaqin He Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress International Journal of Molecular Sciences <i>Oryza sativa</i> L. transcription factors heat stress <i>OsbZIP14</i> |
| title | Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress |
| title_full | Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress |
| title_fullStr | Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress |
| title_full_unstemmed | Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress |
| title_short | Integrated ATAC-Seq and RNA-Seq Data Analysis to Reveal <i>OsbZIP14</i> Function in Rice in Response to Heat Stress |
| title_sort | integrated atac seq and rna seq data analysis to reveal i osbzip14 i function in rice in response to heat stress |
| topic | <i>Oryza sativa</i> L. transcription factors heat stress <i>OsbZIP14</i> |
| url | https://www.mdpi.com/1422-0067/24/6/5619 |
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