Genome-Wide Identification and Expression Analysis of the SWEET Gene Family in Capsicum annuum L.
Abstract
:1. Introduction
2. Results
2.1. Identification and Phylogenetic Analysis of CaSWEETs
2.2. CaSWEETs Chromosomal Distribution
2.3. SWEET Family Members Exhibit Evolutionary Conservation
2.4. Gene Structure and Conserved Motif Analysis of CaSWEETs
2.5. CaSWEET Protein Characterization and Three-Dimensional Structure Analysis
2.6. CaSWEETs Contain Versatility Cis-Regulatory Elements
2.7. Transcriptomic Analysis Revealed Multiple CaSWEET Expression Patterns
2.8. MicroRNA (miRNA) Regulates The Post-Transcriptional Expression of CaSWEETs
2.9. Subcellular Localization Analysis of CaSWEET16/22/31
2.10. CaSWEET16/22 Promote and CaSWEET31 Represses Pathogen Colonization
3. Discussion
4. Materials and Methods
4.1. Identification of the SWEET Gene Family Members in Pepper
4.2. Phylogenetic Analysis of SWEET
4.3. Chromosomal Localization of CaSWEETs
4.4. Interspecific Evolutionary Analysis of SWEETs
4.5. CaSWEETS Gene Structure and Conserved Motif Analysis
4.6. Protein Characterization and Three-Dimensional Homology Modeling of CaSWEETs
4.7. CaSWEET Promoter Cis-Acting Elements Analysis
4.8. CaSWEET Expression Pattern Analysis
4.9. Prediction of miRNA Targeting Relationships with CaSWEETs
4.10. Subcellular Localization Analysis of CaSWEET16/22/31
4.11. Pathogen Inoculation Assay
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Conflicts of Interest
References
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Name | Gene ID | Len. | MW. | Pi. | Ins. | GRAVY | Sub. |
---|---|---|---|---|---|---|---|
Capana00g002536 | CaSWEET1 | 264 | 29.75 | 9.44 | 36.89 | 0.872 | Cell membrane |
Capana00g002537 | CaSWEET2 | 296 | 33.35 | 9.37 | 29.38 | 0.604 | Cell membrane |
Capana00g002538 | CaSWEET3 | 300 | 33.49 | 9.28 | 31.03 | 0.691 | Cell membrane |
Capana00g002539 | CaSWEET4 | 301 | 33.48 | 9.18 | 31.45 | 0.704 | Cell membrane |
Capana00g002540 | CaSWEET5 | 298 | 33.55 | 8.99 | 41.64 | 0.635 | Cell membrane Chloroplast |
Capana00g002541 | CaSWEET6 | 295 | 33.39 | 8.91 | 35.61 | 0.744 | Cell membrane |
Capana01g000092 | CaSWEET7 | 254 | 28.30 | 9.66 | 37.25 | 0.714 | Cell membrane |
Capana02g000800 | CaSWEET8 | 227 | 25.48 | 9.41 | 32.43 | 0.47 | Cell membrane |
Capana02g001619 | CaSWEET9 | 829 | 93.21 | 8.72 | 46.16 | −0.227 | Nucleus |
Capana02g003486 | CaSWEET10 | 622 | 68.21 | 5.41 | 34.45 | 0.239 | Chloroplast |
Capana03g000977 | CaSWEET11 | 236 | 26.76 | 9.47 | 35.85 | 0.765 | Cell membrane |
Capana03g001611 | CaSWEET12 | 298 | 33.25 | 9.43 | 39.32 | 0.7 | Cell membrane |
Capana03g001663 | CaSWEET13 | 245 | 27.41 | 8.88 | 31.38 | 0.558 | Cell membrane |
Capana03g002056 | CaSWEET14 | 224 | 25.32 | 8.42 | 34.05 | 0.36 | Cell membrane |
Capana03g003556 | CaSWEET15 | 286 | 32.91 | 7.65 | 37.24 | 0.416 | Cell membrane Chloroplast |
Capana04g001408 | CaSWEET16 | 225 | 25.14 | 9.38 | 36.98 | 0.643 | Cell membrane Chloroplast Peroxisome |
Capana04g001409 | CaSWEET17 | 150 | 16.92 | 8.47 | 37.62 | 0.515 | Chloroplast |
Capana04g001457 | CaSWEET18 | 240 | 26.41 | 9.56 | 39.85 | 0.411 | Cell membrane Chloroplast Golgi apparatus Peroxisome |
Capana04g001460 | CaSWEET19 | 221 | 24.05 | 9.71 | 27.53 | 0.654 | Cell membrane |
Capana04g002805 | CaSWEET20 | 220 | 24.81 | 9.48 | 53.11 | 0.841 | Cell membrane |
Capana05g002066 | CaSWEET21 | 146 | 15.97 | 8.96 | 38.11 | 0.838 | Cell membrane Chloroplast Golgi apparatus Peroxisome |
Capana06g000792 | CaSWEET22 | 282 | 31.91 | 9.25 | 39.17 | 0.662 | Cell membrane |
Capana06g000793 | CaSWEET23 | 290 | 32.91 | 8.08 | 45.41 | 0.685 | Cell membrane Chloroplast |
Capana06g000794 | CaSWEET24 | 222 | 25.38 | 8.77 | 34.71 | 0.69 | Cell membrane Chloroplast |
Capana06g000962 | CaSWEET25 | 195 | 21.95 | 7.78 | 33.69 | 0.835 | Cell membrane Chloroplast |
Capana06g001685 | CaSWEET26 | 239 | 26.75 | 9.26 | 41.52 | 0.535 | Cell membrane |
Capana07g000747 | CaSWEET27 | 135 | 15.59 | 9.3 | 44.94 | 0.015 | Chloroplast |
Capana08g001545 | CaSWEET28 | 156 | 17.22 | 9.42 | 38.59 | 0.585 | Cell membrane |
Capana08g001547 | CaSWEET29 | 240 | 26.62 | 6.72 | 38.43 | 0.604 | Cell membrane |
Capana08g001548 | CaSWEET30 | 296 | 32.56 | 9.67 | 32.29 | 0.319 | Cell membrane Chloroplast |
Capana11g001074 | CaSWEET31 | 304 | 33.96 | 7.64 | 40.67 | 0.649 | Cell membrane |
Capana12g001058 | CaSWEET32 | 178 | 20.16 | 9.87 | 46.67 | 0.942 | Cell membrane |
Capana12g001557 | CaSWEET33 | 138 | 15.66 | 8.83 | 36.89 | 0.162 | Cell membrane |
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Han, X.; Han, S.; Zhu, Y.; Liu, Y.; Gao, S.; Yin, J.; Wang, F.; Yao, M. Genome-Wide Identification and Expression Analysis of the SWEET Gene Family in Capsicum annuum L. Int. J. Mol. Sci. 2023, 24, 17408. https://doi.org/10.3390/ijms242417408
Han X, Han S, Zhu Y, Liu Y, Gao S, Yin J, Wang F, Yao M. Genome-Wide Identification and Expression Analysis of the SWEET Gene Family in Capsicum annuum L. International Journal of Molecular Sciences. 2023; 24(24):17408. https://doi.org/10.3390/ijms242417408
Chicago/Turabian StyleHan, Xiaowen, Shuo Han, Yongxing Zhu, Yiqing Liu, Shenghua Gao, Junliang Yin, Fei Wang, and Minghua Yao. 2023. "Genome-Wide Identification and Expression Analysis of the SWEET Gene Family in Capsicum annuum L." International Journal of Molecular Sciences 24, no. 24: 17408. https://doi.org/10.3390/ijms242417408