Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato
HVA22 family proteins with a conserved TB2/DP1/HVA22 domain are ubiquitous in eukaryotes. <i>HVA22</i> family genes have been identified in a variety of plant species. However, there has been no comprehensive genome-wide analysis of <i>HVA22</i> family genes in tomato (<i&...
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MDPI AG
2022-10-01
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| Series: | International Journal of Molecular Sciences |
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| author | Antt Htet Wai Muhammad Waseem Lae-Hyeon Cho Sang-Tae Kim Do-jin Lee Chang-Kil Kim Mi-Young Chung |
| author_facet | Antt Htet Wai Muhammad Waseem Lae-Hyeon Cho Sang-Tae Kim Do-jin Lee Chang-Kil Kim Mi-Young Chung |
| author_sort | Antt Htet Wai |
| collection | DOAJ |
| description | HVA22 family proteins with a conserved TB2/DP1/HVA22 domain are ubiquitous in eukaryotes. <i>HVA22</i> family genes have been identified in a variety of plant species. However, there has been no comprehensive genome-wide analysis of <i>HVA22</i> family genes in tomato (<i>Solanum lycopersicum</i> L.). Here, we identified 15 non-redundant <i>SlHVA22</i> genes with three segmentally duplicated gene pairs on 8 of the 12 tomato chromosomes. The predicted three-dimensional (3D) models and gene ontology (GO) annotations of SlHVA22 proteins pointed to their putative transporter activity and ability to bind to diverse ligands. The co-expression of <i>SlHVA22</i> genes with various genes implicated in multiple metabolic pathways and the localization of SlHVA22-GFP fused proteins to the endoplasmic reticulum suggested that they might have a variety of biological functions, including vesicular transport in stressed cells. Comprehensive expression analysis revealed that <i>SlHVA22</i> genes were differentially expressed in various organs and in response to abiotic stress conditions. The predominant expression of <i>SlHVA22i</i> at the ripening stage and that of <i>SlHVA22g</i>, <i>SlHVA22k</i>, and <i>SlHVA22l</i> in fruits at most developmental stages suggested their probable involvement in tomato fruit development and ripening. Moreover, the transcript expression of most tomato <i>HVA22</i> genes, particularly <i>SlHVA22b</i>, <i>SlHVA22i</i>, <i>SlHVA22k</i>, <i>SlHVA22l</i>, <i>SlHVA22m</i>, and <i>SlHVA22n</i>, was affected by abscisic acid (ABA) and diverse abiotic stress treatments, indicating the likely involvement of these genes in tomato abiotic stress responses in an ABA-dependent manner. Overall, our findings provide a foundation to better understand the structures and functional roles of <i>SlHVA22</i> genes, many of which might be useful to improve the abiotic stress tolerance and fruit quality of tomato through marker-assisted backcrossing or transgenic approaches. |
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| id | doaj.art-3a96e04fbc4a47baa0f4c3186ff79a29 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
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| last_indexed | 2024-03-09T20:06:35Z |
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| spelling | doaj.art-3a96e04fbc4a47baa0f4c3186ff79a292023-11-24T00:29:35ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-10-0123201222210.3390/ijms232012222Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of TomatoAntt Htet Wai0Muhammad Waseem1Lae-Hyeon Cho2Sang-Tae Kim3Do-jin Lee4Chang-Kil Kim5Mi-Young Chung6Department of Agricultural Education, Sunchon National University, 413 Jungangno, Suncheon 57922, 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, KoreaDepartment of Medical and Biological Sciences, The Catholic University of Korea, Bucheon 14662, KoreaDepartment of Agricultural Education, Sunchon National University, 413 Jungangno, Suncheon 57922, KoreaDepartment of Horticulture, Kyungpook National University, Daegu 41566, KoreaDepartment of Agricultural Education, Sunchon National University, 413 Jungangno, Suncheon 57922, KoreaHVA22 family proteins with a conserved TB2/DP1/HVA22 domain are ubiquitous in eukaryotes. <i>HVA22</i> family genes have been identified in a variety of plant species. However, there has been no comprehensive genome-wide analysis of <i>HVA22</i> family genes in tomato (<i>Solanum lycopersicum</i> L.). Here, we identified 15 non-redundant <i>SlHVA22</i> genes with three segmentally duplicated gene pairs on 8 of the 12 tomato chromosomes. The predicted three-dimensional (3D) models and gene ontology (GO) annotations of SlHVA22 proteins pointed to their putative transporter activity and ability to bind to diverse ligands. The co-expression of <i>SlHVA22</i> genes with various genes implicated in multiple metabolic pathways and the localization of SlHVA22-GFP fused proteins to the endoplasmic reticulum suggested that they might have a variety of biological functions, including vesicular transport in stressed cells. Comprehensive expression analysis revealed that <i>SlHVA22</i> genes were differentially expressed in various organs and in response to abiotic stress conditions. The predominant expression of <i>SlHVA22i</i> at the ripening stage and that of <i>SlHVA22g</i>, <i>SlHVA22k</i>, and <i>SlHVA22l</i> in fruits at most developmental stages suggested their probable involvement in tomato fruit development and ripening. Moreover, the transcript expression of most tomato <i>HVA22</i> genes, particularly <i>SlHVA22b</i>, <i>SlHVA22i</i>, <i>SlHVA22k</i>, <i>SlHVA22l</i>, <i>SlHVA22m</i>, and <i>SlHVA22n</i>, was affected by abscisic acid (ABA) and diverse abiotic stress treatments, indicating the likely involvement of these genes in tomato abiotic stress responses in an ABA-dependent manner. Overall, our findings provide a foundation to better understand the structures and functional roles of <i>SlHVA22</i> genes, many of which might be useful to improve the abiotic stress tolerance and fruit quality of tomato through marker-assisted backcrossing or transgenic approaches.https://www.mdpi.com/1422-0067/23/20/12222<i>HVA22</i> genes<i>Solanum lycopersicum</i>stress responsesubcellular localizationgene co-expression network3D structure |
| spellingShingle | Antt Htet Wai Muhammad Waseem Lae-Hyeon Cho Sang-Tae Kim Do-jin Lee Chang-Kil Kim Mi-Young Chung Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato International Journal of Molecular Sciences <i>HVA22</i> genes <i>Solanum lycopersicum</i> stress response subcellular localization gene co-expression network 3D structure |
| title | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato |
| title_full | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato |
| title_fullStr | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato |
| title_full_unstemmed | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato |
| title_short | Comprehensive Genome-Wide Analysis and Expression Pattern Profiling of the <i>SlHVA22</i> Gene Family Unravels Their Likely Involvement in the Abiotic Stress Adaptation of Tomato |
| title_sort | comprehensive genome wide analysis and expression pattern profiling of the i slhva22 i gene family unravels their likely involvement in the abiotic stress adaptation of tomato |
| topic | <i>HVA22</i> genes <i>Solanum lycopersicum</i> stress response subcellular localization gene co-expression network 3D structure |
| url | https://www.mdpi.com/1422-0067/23/20/12222 |
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