Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.)
Abstract Plant-specific transcription factors (TFs) are responsible for regulating the genes involved in the development of plant-specific organs and response systems for adaptation to terrestrial environments. This includes the development of efficient water transport systems, efficient reproductiv...
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Nature Portfolio
2024-04-01
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| Online Access: | https://doi.org/10.1038/s41598-024-58903-0 |
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| author | Sujeevan Rajendran Yu Mi Kang In Been Yang Hye Bhin Eo Kyung Lyung Baek Seonghoe Jang Assaf Eybishitz Ho Cheol Kim Byeong Il Je Soon Ju Park Chul Min Kim |
| author_facet | Sujeevan Rajendran Yu Mi Kang In Been Yang Hye Bhin Eo Kyung Lyung Baek Seonghoe Jang Assaf Eybishitz Ho Cheol Kim Byeong Il Je Soon Ju Park Chul Min Kim |
| author_sort | Sujeevan Rajendran |
| collection | DOAJ |
| description | Abstract Plant-specific transcription factors (TFs) are responsible for regulating the genes involved in the development of plant-specific organs and response systems for adaptation to terrestrial environments. This includes the development of efficient water transport systems, efficient reproductive organs, and the ability to withstand the effects of terrestrial factors, such as UV radiation, temperature fluctuations, and soil-related stress factors, and evolutionary advantages over land predators. In rice and Arabidopsis, INDETERMINATE DOMAIN (IDD) TFs are plant-specific TFs with crucial functions, such as development, reproduction, and stress response. However, in tomatoes, IDD TFs remain uncharacterized. Here, we examined the presence, distribution, structure, characteristics, and expression patterns of SlIDDs. Database searches, multiple alignments, and motif alignments suggested that 24 TFs were related to Arabidopsis IDDs. 18 IDDs had two characteristic C2H2 domains and two C2HC domains in their coding regions. Expression analyses suggest that some IDDs exhibit multi-stress responsive properties and can respond to specific stress conditions, while others can respond to multiple stress conditions in shoots and roots, either in a tissue-specific or universal manner. Moreover, co-expression database analyses suggested potential interaction partners within IDD family and other proteins. This study functionally characterized SlIDDs, which can be studied using molecular and bioinformatics methods for crop improvement. |
| first_indexed | 2024-04-24T12:41:06Z |
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| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-04-24T12:41:06Z |
| publishDate | 2024-04-01 |
| publisher | Nature Portfolio |
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| series | Scientific Reports |
| spelling | doaj.art-07bc9797a4b741239b8b4331e6c0d5072024-04-07T11:14:21ZengNature PortfolioScientific Reports2045-23222024-04-0114111610.1038/s41598-024-58903-0Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.)Sujeevan Rajendran0Yu Mi Kang1In Been Yang2Hye Bhin Eo3Kyung Lyung Baek4Seonghoe Jang5Assaf Eybishitz6Ho Cheol Kim7Byeong Il Je8Soon Ju Park9Chul Min Kim10Department of Horticulture Industry, Wonkwang UniversityDepartment of Horticultural and Life Science, Pusan National UniversityDepartment of Horticulture Industry, Wonkwang UniversityDepartment of Horticulture Industry, Wonkwang UniversityDepartment of Horticulture Industry, Wonkwang UniversityWorld Vegetable Center Korea Office (WKO)World Vegetable CenterDepartment of Horticulture Industry, Wonkwang UniversityDepartment of Horticultural and Life Science, Pusan National UniversityDivision of Applied Life Science (BK21 Four), Plant Molecular Biology and Biotechnology Research Center (PMBBRC), Gyeongsang National UniversityDepartment of Horticulture Industry, Wonkwang UniversityAbstract Plant-specific transcription factors (TFs) are responsible for regulating the genes involved in the development of plant-specific organs and response systems for adaptation to terrestrial environments. This includes the development of efficient water transport systems, efficient reproductive organs, and the ability to withstand the effects of terrestrial factors, such as UV radiation, temperature fluctuations, and soil-related stress factors, and evolutionary advantages over land predators. In rice and Arabidopsis, INDETERMINATE DOMAIN (IDD) TFs are plant-specific TFs with crucial functions, such as development, reproduction, and stress response. However, in tomatoes, IDD TFs remain uncharacterized. Here, we examined the presence, distribution, structure, characteristics, and expression patterns of SlIDDs. Database searches, multiple alignments, and motif alignments suggested that 24 TFs were related to Arabidopsis IDDs. 18 IDDs had two characteristic C2H2 domains and two C2HC domains in their coding regions. Expression analyses suggest that some IDDs exhibit multi-stress responsive properties and can respond to specific stress conditions, while others can respond to multiple stress conditions in shoots and roots, either in a tissue-specific or universal manner. Moreover, co-expression database analyses suggested potential interaction partners within IDD family and other proteins. This study functionally characterized SlIDDs, which can be studied using molecular and bioinformatics methods for crop improvement.https://doi.org/10.1038/s41598-024-58903-0TomatoTranscription factorIndeterminate DomainDevelopmentStress response |
| spellingShingle | Sujeevan Rajendran Yu Mi Kang In Been Yang Hye Bhin Eo Kyung Lyung Baek Seonghoe Jang Assaf Eybishitz Ho Cheol Kim Byeong Il Je Soon Ju Park Chul Min Kim Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.) Scientific Reports Tomato Transcription factor Indeterminate Domain Development Stress response |
| title | Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.) |
| title_full | Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.) |
| title_fullStr | Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.) |
| title_full_unstemmed | Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.) |
| title_short | Functional characterization of plant specific Indeterminate Domain (IDD) transcription factors in tomato (Solanum lycopersicum L.) |
| title_sort | functional characterization of plant specific indeterminate domain idd transcription factors in tomato solanum lycopersicum l |
| topic | Tomato Transcription factor Indeterminate Domain Development Stress response |
| url | https://doi.org/10.1038/s41598-024-58903-0 |
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