Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle
The INDETERMINATE DOMAIN (IDD) gene family, encoding a class of C2H2 transcription factor, played diverse roles in land plants. The IDD family in tobacco (Nicotiana tabacum) has not been characterized. In this study, 26 NtIDDs were identified in the tobacco genome. Phylogenetic analysis showed that...
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Frontiers Media S.A.
2024-12-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2024.1496351/full |
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| author | Zefeng Li Zefeng Li Peijian Cao Peijian Cao Huabing Liu Jianfeng Zhang Jianfeng Zhang Zhaopeng Luo Zhaopeng Luo Hui Zhang Hui Zhang Mingzhu Wu Mingzhu Wu Xiaodong Xie Xiaodong Xie |
| author_facet | Zefeng Li Zefeng Li Peijian Cao Peijian Cao Huabing Liu Jianfeng Zhang Jianfeng Zhang Zhaopeng Luo Zhaopeng Luo Hui Zhang Hui Zhang Mingzhu Wu Mingzhu Wu Xiaodong Xie Xiaodong Xie |
| author_sort | Zefeng Li |
| collection | DOAJ |
| description | The INDETERMINATE DOMAIN (IDD) gene family, encoding a class of C2H2 transcription factor, played diverse roles in land plants. The IDD family in tobacco (Nicotiana tabacum) has not been characterized. In this study, 26 NtIDDs were identified in the tobacco genome. Phylogenetic analysis showed that NtIDDs were divided into five groups. Motif analysis revealed that the ID domain was conserved in NtIDDs. Gene duplication analysis demonstrated that segmental/whole-genome duplication and dispersed duplication would have occurred in NtIDDs. Cis-element analysis predicted that hormone-, stress-, and development-related elements are located in NtIDD promoters. Expression analysis revealed tissue preference patterns and differential hormone responses in NtIDDs. Further investigations on the function of NtIDD9 exhibited increased leaf angle degrees in RNA silencing plants. Cellular localization suggested that NtIDD9 expressed in the endodermis of the leaf petiole base. Subcellular localization analysis revealed that the NtIDD9 protein was located in the nucleus. Hormone quantification found that the levels of auxin, ABA, JA, and GA were significantly changed in NtIDD9-silenced plants. Thus, the study suggested that NtIDD9 played a crucial role in modulation of leaf angle development. Overall, these findings lay foundations for future function and mechanism research on IDDs in tobacco. |
| format | Article |
| id | doaj-art-775ea9beebe04d02a8ad18f13c742cb5 |
| institution | DOAJ |
| issn | 1664-462X |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj-art-775ea9beebe04d02a8ad18f13c742cb52025-08-20T02:52:19ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2024-12-011510.3389/fpls.2024.14963511496351Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angleZefeng Li0Zefeng Li1Peijian Cao2Peijian Cao3Huabing Liu4Jianfeng Zhang5Jianfeng Zhang6Zhaopeng Luo7Zhaopeng Luo8Hui Zhang9Hui Zhang10Mingzhu Wu11Mingzhu Wu12Xiaodong Xie13Xiaodong Xie14China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaChina Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaTechnology Center, China Tobacco Zhejiang Industrial, Co Ltd., Hangzhou, ChinaChina Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaChina Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaChina Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaChina Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaChina Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, ChinaSecond Research Department, Beijing Life Science Academy (BLSA), Beijing, ChinaThe INDETERMINATE DOMAIN (IDD) gene family, encoding a class of C2H2 transcription factor, played diverse roles in land plants. The IDD family in tobacco (Nicotiana tabacum) has not been characterized. In this study, 26 NtIDDs were identified in the tobacco genome. Phylogenetic analysis showed that NtIDDs were divided into five groups. Motif analysis revealed that the ID domain was conserved in NtIDDs. Gene duplication analysis demonstrated that segmental/whole-genome duplication and dispersed duplication would have occurred in NtIDDs. Cis-element analysis predicted that hormone-, stress-, and development-related elements are located in NtIDD promoters. Expression analysis revealed tissue preference patterns and differential hormone responses in NtIDDs. Further investigations on the function of NtIDD9 exhibited increased leaf angle degrees in RNA silencing plants. Cellular localization suggested that NtIDD9 expressed in the endodermis of the leaf petiole base. Subcellular localization analysis revealed that the NtIDD9 protein was located in the nucleus. Hormone quantification found that the levels of auxin, ABA, JA, and GA were significantly changed in NtIDD9-silenced plants. Thus, the study suggested that NtIDD9 played a crucial role in modulation of leaf angle development. Overall, these findings lay foundations for future function and mechanism research on IDDs in tobacco.https://www.frontiersin.org/articles/10.3389/fpls.2024.1496351/fullIDD familyevolutionary analysisexpression analysisleaf angleNicotiana tabacum |
| spellingShingle | Zefeng Li Zefeng Li Peijian Cao Peijian Cao Huabing Liu Jianfeng Zhang Jianfeng Zhang Zhaopeng Luo Zhaopeng Luo Hui Zhang Hui Zhang Mingzhu Wu Mingzhu Wu Xiaodong Xie Xiaodong Xie Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle Frontiers in Plant Science IDD family evolutionary analysis expression analysis leaf angle Nicotiana tabacum |
| title | Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle |
| title_full | Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle |
| title_fullStr | Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle |
| title_full_unstemmed | Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle |
| title_short | Genome-wide analysis of Nicotiana tabacum IDD genes identifies NtIDD9 as a regulator of leaf angle |
| title_sort | genome wide analysis of nicotiana tabacum idd genes identifies ntidd9 as a regulator of leaf angle |
| topic | IDD family evolutionary analysis expression analysis leaf angle Nicotiana tabacum |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2024.1496351/full |
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