Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses
PLATZ (plant AT-rich sequence and zinc-binding) family proteins with two conserved zinc-dependent DNA-binding motifs are transcription factors specific to the plant kingdom. The functions of PLATZ proteins in growth, development, and adaptation to multiple abiotic stresses have been investigated in...
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MDPI AG
2022-11-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/11/22/3112 |
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| author | Antt Htet Wai Md Mustafizur Rahman Muhammad Waseem Lae-Hyeon Cho Aung Htay Naing Jong-Seong Jeon Do-jin Lee Chang-Kil Kim Mi-Young Chung |
| author_facet | Antt Htet Wai Md Mustafizur Rahman Muhammad Waseem Lae-Hyeon Cho Aung Htay Naing Jong-Seong Jeon Do-jin Lee Chang-Kil Kim Mi-Young Chung |
| author_sort | Antt Htet Wai |
| collection | DOAJ |
| description | PLATZ (plant AT-rich sequence and zinc-binding) family proteins with two conserved zinc-dependent DNA-binding motifs are transcription factors specific to the plant kingdom. The functions of PLATZ proteins in growth, development, and adaptation to multiple abiotic stresses have been investigated in various plant species, but their role in tomato has not been explored yet. In the present work, 20 non-redundant <i>Solanum lycopersicum PLATZ</i> (<i>SlPLATZ</i>) genes with three segmentally duplicated gene pairs and four tandemly duplicated gene pairs were identified on eight tomato chromosomes. The comparative modeling and gene ontology (GO) annotations of tomato PLATZ proteins indicated their probable roles in defense response, transcriptional regulation, and protein metabolic processes as well as their binding affinity for various ligands, including nucleic acids, peptides, and zinc. <i>SlPLATZ10</i> and <i>SlPLATZ17</i> were only expressed in 1 cm fruits and flowers, respectively, indicating their preferential involvement in the development of these organs. The expression of <i>SlPLATZ1</i>, <i>SlPLATZ12</i>, and <i>SlPLATZ19</i> was up- or down-regulated following exposure to various abiotic stresses, whereas that of <i>SlPLATZ11</i> was induced under temperature stresses (i.e., cold and heat stress), revealing their probable function in the abiotic stress tolerance of tomato. Weighted gene co-expression network analysis corroborated the aforementioned findings by spotlighting the co-expression of several stress-associated genes with <i>SlPLATZ</i> genes. Confocal fluorescence microscopy revealed the localization of SlPLATZ–GFP fusion proteins in the nucleus, hinting at their functions as transcription factors. These findings provide a foundation for a better understanding of the structure and function of <i>PLATZ</i> genes and should assist in the selection of potential candidate genes involved in the development and abiotic stress adaptation in tomato. |
| first_indexed | 2024-03-09T18:03:34Z |
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| id | doaj.art-06278723680a40d78cad3d32f6dafdf5 |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-09T18:03:34Z |
| publishDate | 2022-11-01 |
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| spelling | doaj.art-06278723680a40d78cad3d32f6dafdf52023-11-24T09:39:49ZengMDPI AGPlants2223-77472022-11-011122311210.3390/plants11223112Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic StressesAntt Htet Wai0Md Mustafizur Rahman1Muhammad Waseem2Lae-Hyeon Cho3Aung Htay Naing4Jong-Seong Jeon5Do-jin Lee6Chang-Kil Kim7Mi-Young Chung8Department of Agricultural Education, Sunchon National University, 413 Jungangno, Suncheon 57922, Republic of KoreaGraduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin 17104, Republic of KoreaDepartment of Botany, University of Narowal, Narowal 51600, PakistanDepartment of Plant Bioscience, College of Natural Resources and Life Science, Pusan National University, Miryang-si 50463, Gyeongsangnam-do, Republic of KoreaDepartment of Horticulture, Kyungpook National University, Daegu 41566, Republic of KoreaGraduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin 17104, Republic of KoreaDepartment of Agricultural Education, Sunchon National University, 413 Jungangno, Suncheon 57922, Republic of KoreaDepartment of Horticulture, Kyungpook National University, Daegu 41566, Republic of KoreaDepartment of Agricultural Education, Sunchon National University, 413 Jungangno, Suncheon 57922, Republic of KoreaPLATZ (plant AT-rich sequence and zinc-binding) family proteins with two conserved zinc-dependent DNA-binding motifs are transcription factors specific to the plant kingdom. The functions of PLATZ proteins in growth, development, and adaptation to multiple abiotic stresses have been investigated in various plant species, but their role in tomato has not been explored yet. In the present work, 20 non-redundant <i>Solanum lycopersicum PLATZ</i> (<i>SlPLATZ</i>) genes with three segmentally duplicated gene pairs and four tandemly duplicated gene pairs were identified on eight tomato chromosomes. The comparative modeling and gene ontology (GO) annotations of tomato PLATZ proteins indicated their probable roles in defense response, transcriptional regulation, and protein metabolic processes as well as their binding affinity for various ligands, including nucleic acids, peptides, and zinc. <i>SlPLATZ10</i> and <i>SlPLATZ17</i> were only expressed in 1 cm fruits and flowers, respectively, indicating their preferential involvement in the development of these organs. The expression of <i>SlPLATZ1</i>, <i>SlPLATZ12</i>, and <i>SlPLATZ19</i> was up- or down-regulated following exposure to various abiotic stresses, whereas that of <i>SlPLATZ11</i> was induced under temperature stresses (i.e., cold and heat stress), revealing their probable function in the abiotic stress tolerance of tomato. Weighted gene co-expression network analysis corroborated the aforementioned findings by spotlighting the co-expression of several stress-associated genes with <i>SlPLATZ</i> genes. Confocal fluorescence microscopy revealed the localization of SlPLATZ–GFP fusion proteins in the nucleus, hinting at their functions as transcription factors. These findings provide a foundation for a better understanding of the structure and function of <i>PLATZ</i> genes and should assist in the selection of potential candidate genes involved in the development and abiotic stress adaptation in tomato.https://www.mdpi.com/2223-7747/11/22/3112PLATZtomatotranscription factorsabiotic stressexpression analysissubcellular localization |
| spellingShingle | Antt Htet Wai Md Mustafizur Rahman Muhammad Waseem Lae-Hyeon Cho Aung Htay Naing Jong-Seong Jeon Do-jin Lee Chang-Kil Kim Mi-Young Chung Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses Plants PLATZ tomato transcription factors abiotic stress expression analysis subcellular localization |
| title | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses |
| title_full | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses |
| title_fullStr | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses |
| title_full_unstemmed | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses |
| title_short | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of <i>PLATZ</i> Gene Family Members in <i>Solanum Lycopersicum</i> L. under Multiple Abiotic Stresses |
| title_sort | comprehensive genome wide analysis and expression pattern profiling of i platz i gene family members in i solanum lycopersicum i l under multiple abiotic stresses |
| topic | PLATZ tomato transcription factors abiotic stress expression analysis subcellular localization |
| url | https://www.mdpi.com/2223-7747/11/22/3112 |
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