Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest?
<i>MYB98</i> is master regulator of the molecular network involved in pollen tube attraction. Until recently, it was unclear how this gene exhibits exclusively synergid cell-specific expression in ovule. Our recent study has established that a 16-bp-long <i>SaeM</i> element i...
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| Format: | Article |
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MDPI AG
2024-03-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/13/7/1007 |
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| author | Prakash B. Adhikari Xiaoyan Liu Chen Huang Nobutaka Mitsuda Michitaka Notaguchi Ryushiro Dora Kasahara |
| author_facet | Prakash B. Adhikari Xiaoyan Liu Chen Huang Nobutaka Mitsuda Michitaka Notaguchi Ryushiro Dora Kasahara |
| author_sort | Prakash B. Adhikari |
| collection | DOAJ |
| description | <i>MYB98</i> is master regulator of the molecular network involved in pollen tube attraction. Until recently, it was unclear how this gene exhibits exclusively synergid cell-specific expression in ovule. Our recent study has established that a 16-bp-long <i>SaeM</i> element is crucial for its synergid cell-specific expression in ovule, and an 84-bp-long fragment harboring <i>SaeM</i> is sufficient to drive the process. In this study, we have developed a workflow to predict functional roles of potential transcription factors (TFs) putatively binding to the promoter region, taking <i>MYB98</i> promoter as a test subject. After sequential assessment of co-expression pattern, network analysis, and potential master regulator identification, we have proposed a multi-TF model for <i>MYB98</i> regulation. Our study suggests that ANL2, GT-1, and their respective homologs could be direct regulators of <i>MYB98</i> and indicates that TCP15, TCP16, FRS9, and HB34 are likely master regulators of the majority of the TFs involved in its regulation. Comprehensive studies in the future are expected to offer more insights into such propositions. Developed workflow can be used while designing similar regulome-related studies for any other species and genes. |
| first_indexed | 2024-04-24T10:37:03Z |
| format | Article |
| id | doaj.art-a876329cf05a41b69e9755e3fbb13b5f |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-04-24T10:37:03Z |
| publishDate | 2024-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-a876329cf05a41b69e9755e3fbb13b5f2024-04-12T13:24:51ZengMDPI AGPlants2223-77472024-03-01137100710.3390/plants13071007Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest?Prakash B. Adhikari0Xiaoyan Liu1Chen Huang2Nobutaka Mitsuda3Michitaka Notaguchi4Ryushiro Dora Kasahara5Biotechnology and Bioscience Research Center, Nagoya University, Nagoya 464-8601, JapanCollege of Life Science, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Science, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaBioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba 305-8560, JapanBiotechnology and Bioscience Research Center, Nagoya University, Nagoya 464-8601, JapanBiotechnology and Bioscience Research Center, Nagoya University, Nagoya 464-8601, Japan<i>MYB98</i> is master regulator of the molecular network involved in pollen tube attraction. Until recently, it was unclear how this gene exhibits exclusively synergid cell-specific expression in ovule. Our recent study has established that a 16-bp-long <i>SaeM</i> element is crucial for its synergid cell-specific expression in ovule, and an 84-bp-long fragment harboring <i>SaeM</i> is sufficient to drive the process. In this study, we have developed a workflow to predict functional roles of potential transcription factors (TFs) putatively binding to the promoter region, taking <i>MYB98</i> promoter as a test subject. After sequential assessment of co-expression pattern, network analysis, and potential master regulator identification, we have proposed a multi-TF model for <i>MYB98</i> regulation. Our study suggests that ANL2, GT-1, and their respective homologs could be direct regulators of <i>MYB98</i> and indicates that TCP15, TCP16, FRS9, and HB34 are likely master regulators of the majority of the TFs involved in its regulation. Comprehensive studies in the future are expected to offer more insights into such propositions. Developed workflow can be used while designing similar regulome-related studies for any other species and genes.https://www.mdpi.com/2223-7747/13/7/1007<i>MYB98</i><i>SaeM</i>regulatory workflowGT-1transcription factor |
| spellingShingle | Prakash B. Adhikari Xiaoyan Liu Chen Huang Nobutaka Mitsuda Michitaka Notaguchi Ryushiro Dora Kasahara Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest? Plants <i>MYB98</i> <i>SaeM</i> regulatory workflow GT-1 transcription factor |
| title | Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest? |
| title_full | Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest? |
| title_fullStr | Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest? |
| title_full_unstemmed | Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest? |
| title_short | Transcription Factors behind <i>MYB98</i> Regulation: What Does the Discovery of <i>SaeM</i> Suggest? |
| title_sort | transcription factors behind i myb98 i regulation what does the discovery of i saem i suggest |
| topic | <i>MYB98</i> <i>SaeM</i> regulatory workflow GT-1 transcription factor |
| url | https://www.mdpi.com/2223-7747/13/7/1007 |
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