Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco
Grafting is an important agricultural practice to control soil-borne diseases, alleviate continuous cropping problems and improve stress tolerance in vegetable industry, but it is relatively less applied in pepper production. A recent study has revealed the key roles of β-1, 4-glucanase in graft sur...
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| Format: | Article |
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MDPI AG
2022-08-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/11/16/2092 |
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| author | Guangbao Luo Xinran Huang Jiawei Chen Jinying Luo Yufei Liu Yunfei Tang Mu Xiong Yongen Lu Yuan Huang Bo Ouyang |
| author_facet | Guangbao Luo Xinran Huang Jiawei Chen Jinying Luo Yufei Liu Yunfei Tang Mu Xiong Yongen Lu Yuan Huang Bo Ouyang |
| author_sort | Guangbao Luo |
| collection | DOAJ |
| description | Grafting is an important agricultural practice to control soil-borne diseases, alleviate continuous cropping problems and improve stress tolerance in vegetable industry, but it is relatively less applied in pepper production. A recent study has revealed the key roles of β-1, 4-glucanase in graft survival. We speculated that the GH9 family gene encoding glucanase may be involved in the obstacles of pepper grafting. Therefore, we performed a systematic analysis of the GH9 family in pepper, tomato and tobacco. A total of 25, 24 and 42 GH9 genes were identified from these three species. Compared with the orthologues of other solanaceous crops, the deduced pepper GH9B3 protein lacks a conserved motif (Motif 5). Promoter cis-element analysis revealed that a wound-responsive element exists in the promoter of tobacco <i>NbGH9B3</i>, but it is absent in the GH9B3 promoter of most solanaceous crops. The auxin-responsive related element is absent in <i>CaGH9B3</i> promoter, but it presents in the promoter of tobacco, tomato, potato and petunia GH9B3. Tissue and induction expression profiles indicated that GH9 family genes are functionally differentiated. Nine GH9 genes, including <i>CaGH9B3</i>, were detected expressing in pepper stem. The expression patterns of <i>NbGH9B3</i> and <i>CaGH9B3</i> in grafting were different in our test condition, with obvious induction in tobacco but repression in pepper. Furthermore, weighted correlation network analysis (WGCNA) revealed 58 transcription factor genes highly co-expressed with <i>NbGH9B3</i>. Eight WRKY binding sites were detected in the promoter of <i>NbGH9B3</i>, and several <i>NbWRKYs</i> were highly co-expressed with <i>NbGH9B3</i>. In conclusion, the missing of Motif 5 in CaGH9B3, and lacking of wound- and auxin-responsive elements in the gene promoter are the potential causes of grafting-related problems in pepper. <i>WRKY</i> family transcription factors could be important regulator of <i>NbGH9B3</i> in tobacco grafting. Our analysis points out the putative regulators of <i>NbGH9B3</i>, which would be helpful to the functional validation and the study of signal pathways related to grafting in the future. |
| first_indexed | 2024-03-09T03:56:24Z |
| format | Article |
| id | doaj.art-422bf4c48ab54b67b43a503e9a894fb2 |
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| language | English |
| last_indexed | 2024-03-09T03:56:24Z |
| publishDate | 2022-08-01 |
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| spelling | doaj.art-422bf4c48ab54b67b43a503e9a894fb22023-12-03T14:19:06ZengMDPI AGPlants2223-77472022-08-011116209210.3390/plants11162092Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and TobaccoGuangbao Luo0Xinran Huang1Jiawei Chen2Jinying Luo3Yufei Liu4Yunfei Tang5Mu Xiong6Yongen Lu7Yuan Huang8Bo Ouyang9Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaKey Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, ChinaGrafting is an important agricultural practice to control soil-borne diseases, alleviate continuous cropping problems and improve stress tolerance in vegetable industry, but it is relatively less applied in pepper production. A recent study has revealed the key roles of β-1, 4-glucanase in graft survival. We speculated that the GH9 family gene encoding glucanase may be involved in the obstacles of pepper grafting. Therefore, we performed a systematic analysis of the GH9 family in pepper, tomato and tobacco. A total of 25, 24 and 42 GH9 genes were identified from these three species. Compared with the orthologues of other solanaceous crops, the deduced pepper GH9B3 protein lacks a conserved motif (Motif 5). Promoter cis-element analysis revealed that a wound-responsive element exists in the promoter of tobacco <i>NbGH9B3</i>, but it is absent in the GH9B3 promoter of most solanaceous crops. The auxin-responsive related element is absent in <i>CaGH9B3</i> promoter, but it presents in the promoter of tobacco, tomato, potato and petunia GH9B3. Tissue and induction expression profiles indicated that GH9 family genes are functionally differentiated. Nine GH9 genes, including <i>CaGH9B3</i>, were detected expressing in pepper stem. The expression patterns of <i>NbGH9B3</i> and <i>CaGH9B3</i> in grafting were different in our test condition, with obvious induction in tobacco but repression in pepper. Furthermore, weighted correlation network analysis (WGCNA) revealed 58 transcription factor genes highly co-expressed with <i>NbGH9B3</i>. Eight WRKY binding sites were detected in the promoter of <i>NbGH9B3</i>, and several <i>NbWRKYs</i> were highly co-expressed with <i>NbGH9B3</i>. In conclusion, the missing of Motif 5 in CaGH9B3, and lacking of wound- and auxin-responsive elements in the gene promoter are the potential causes of grafting-related problems in pepper. <i>WRKY</i> family transcription factors could be important regulator of <i>NbGH9B3</i> in tobacco grafting. Our analysis points out the putative regulators of <i>NbGH9B3</i>, which would be helpful to the functional validation and the study of signal pathways related to grafting in the future.https://www.mdpi.com/2223-7747/11/16/2092peppergraftingGH9 familyconserved motifwound responsiveauxin responsive |
| spellingShingle | Guangbao Luo Xinran Huang Jiawei Chen Jinying Luo Yufei Liu Yunfei Tang Mu Xiong Yongen Lu Yuan Huang Bo Ouyang Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco Plants pepper grafting GH9 family conserved motif wound responsive auxin responsive |
| title | Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco |
| title_full | Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco |
| title_fullStr | Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco |
| title_full_unstemmed | Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco |
| title_short | Systematic Analysis of the Grafting-Related Glucanase-Encoding GH9 Family Genes in Pepper, Tomato and Tobacco |
| title_sort | systematic analysis of the grafting related glucanase encoding gh9 family genes in pepper tomato and tobacco |
| topic | pepper grafting GH9 family conserved motif wound responsive auxin responsive |
| url | https://www.mdpi.com/2223-7747/11/16/2092 |
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