Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance
The <i>TRM</i> (<i>TONNEAU1 Recruiting Motif</i>) gene family plays a crucial role in multiple biological processes, including microtubule organization, cell division regulation, fruit morphogenesis, stress adaptation, and growth and development. To delve deeper into the pote...
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2025-06-01
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| author | Yunlu Zhang Ke Zhao Ruisen Wang Yang Zhu Huiqi Zhang Jingyi Zhang Xiangtan Yao Cheng Qin Pengcheng Zhang |
| author_facet | Yunlu Zhang Ke Zhao Ruisen Wang Yang Zhu Huiqi Zhang Jingyi Zhang Xiangtan Yao Cheng Qin Pengcheng Zhang |
| author_sort | Yunlu Zhang |
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| description | The <i>TRM</i> (<i>TONNEAU1 Recruiting Motif</i>) gene family plays a crucial role in multiple biological processes, including microtubule organization, cell division regulation, fruit morphogenesis, stress adaptation, and growth and development. To delve deeper into the potential functions of <i>BnaTRMs</i> in <i>Brassica napus</i>, this study employed bioinformatics methods to systematically identify and analyze the <i>TRM</i> family genes in <i>Brassica napus</i> (Westar). Using the model plant <i>Arabidopsis thaliana</i> as a reference and based on six conserved motifs, 100 <i>TRM</i> members were first identified in <i>Brassica napus</i>. These genes are widely distributed across 19 chromosomes, and most exhibit nuclear localization characteristics. Through gene collinearity analysis among <i>Brassica napus</i>, <i>Arabidopsis thaliana</i>, <i>Glycine max</i>, <i>Oryza sativa</i>, and <i>Zea mays</i>, we speculate that <i>Brassica napus</i> and <i>Glycine max</i> may share a similar evolutionary history. Analysis of cis-acting elements in the 2000 bp upstream region of <i>TRM</i> gene promoters revealed numerous elements related to abiotic stress response and hormone regulation. Furthermore, qRT-PCR data supported these findings, indicating that multiple <i>TRM</i> genes actively participate in the growth and development process and abiotic stress tolerance of <i>Brassica napus</i>. In summary, <i>BnaTRMs</i> exhibit significant functions in stress adaptation, growth, and development. This study not only enhances our understanding of the functions of the <i>TRM</i> gene family but also provides new perspectives and strategies for further exploring their regulatory mechanisms and potential applications. |
| format | Article |
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| institution | Matheson Library |
| issn | 2223-7747 |
| language | English |
| publishDate | 2025-06-01 |
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| series | Plants |
| spelling | doaj-art-3c9d0ed3c70442bca49bb9c51a4ea0902025-06-25T14:20:14ZengMDPI AGPlants2223-77472025-06-011412185810.3390/plants14121858Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress ToleranceYunlu Zhang0Ke Zhao1Ruisen Wang2Yang Zhu3Huiqi Zhang4Jingyi Zhang5Xiangtan Yao6Cheng Qin7Pengcheng Zhang8College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 311121, ChinaCollege of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 311121, ChinaInstitute of Economic Crop Sciences, Jiaxing Academy of Agricultural Sciences, Jiaxing 314016, ChinaInstitute of Crop Science, Zhejiang University, Hangzhou 310058, ChinaInstitute of Crop Science, Zhejiang University, Hangzhou 310058, ChinaInstitute of Crop Science, Zhejiang University, Hangzhou 310058, ChinaInstitute of Economic Crop Sciences, Jiaxing Academy of Agricultural Sciences, Jiaxing 314016, ChinaCollege of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 311121, ChinaCollege of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 311121, ChinaThe <i>TRM</i> (<i>TONNEAU1 Recruiting Motif</i>) gene family plays a crucial role in multiple biological processes, including microtubule organization, cell division regulation, fruit morphogenesis, stress adaptation, and growth and development. To delve deeper into the potential functions of <i>BnaTRMs</i> in <i>Brassica napus</i>, this study employed bioinformatics methods to systematically identify and analyze the <i>TRM</i> family genes in <i>Brassica napus</i> (Westar). Using the model plant <i>Arabidopsis thaliana</i> as a reference and based on six conserved motifs, 100 <i>TRM</i> members were first identified in <i>Brassica napus</i>. These genes are widely distributed across 19 chromosomes, and most exhibit nuclear localization characteristics. Through gene collinearity analysis among <i>Brassica napus</i>, <i>Arabidopsis thaliana</i>, <i>Glycine max</i>, <i>Oryza sativa</i>, and <i>Zea mays</i>, we speculate that <i>Brassica napus</i> and <i>Glycine max</i> may share a similar evolutionary history. Analysis of cis-acting elements in the 2000 bp upstream region of <i>TRM</i> gene promoters revealed numerous elements related to abiotic stress response and hormone regulation. Furthermore, qRT-PCR data supported these findings, indicating that multiple <i>TRM</i> genes actively participate in the growth and development process and abiotic stress tolerance of <i>Brassica napus</i>. In summary, <i>BnaTRMs</i> exhibit significant functions in stress adaptation, growth, and development. This study not only enhances our understanding of the functions of the <i>TRM</i> gene family but also provides new perspectives and strategies for further exploring their regulatory mechanisms and potential applications.https://www.mdpi.com/2223-7747/14/12/1858<i>TRM</i> (<i>TONNEAU1 Recruiting Motif</i>) genebioinformatics analysis<i>Brassica napus</i>abiotic stress |
| spellingShingle | Yunlu Zhang Ke Zhao Ruisen Wang Yang Zhu Huiqi Zhang Jingyi Zhang Xiangtan Yao Cheng Qin Pengcheng Zhang Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance Plants <i>TRM</i> (<i>TONNEAU1 Recruiting Motif</i>) gene bioinformatics analysis <i>Brassica napus</i> abiotic stress |
| title | Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance |
| title_full | Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance |
| title_fullStr | Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance |
| title_full_unstemmed | Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance |
| title_short | Integrated Phylogenomics and Expression Profiling of the <i>TRM</i> Gene Family in <i>Brassica napus</i> Reveals Their Role in Development and Stress Tolerance |
| title_sort | integrated phylogenomics and expression profiling of the i trm i gene family in i brassica napus i reveals their role in development and stress tolerance |
| topic | <i>TRM</i> (<i>TONNEAU1 Recruiting Motif</i>) gene bioinformatics analysis <i>Brassica napus</i> abiotic stress |
| url | https://www.mdpi.com/2223-7747/14/12/1858 |
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