Genome-Wide Identification of the SQUAMOSA Promoter-Binding Protein-like (SPL) Transcription Factor Family in Sweet Cherry Fruit
Abstract
:1. Introduction
2. Results
2.1. Identification and Classification of SPL Genes in Sweet Cherry
2.2. Chromosome Distribution and Synteny Analysis of the PavSPL Family
2.3. Sequence Alignments and Phylogenetic Analysis of SPL Genes
2.4. Conserved Motifs and Structure Analysis of the PavSPL Genes
2.5. Cis-Acting Elements in the Promoters of PavSPL Genes
2.6. Expression Analysis of the PavSPL Genes in Different Tissues and in Fruit Development
2.7. Expression Analysis of the PavSPL Genes during Hormone Treatment
2.8. Subcellular Localization of PavSPLs
3. Discussion
3.1. Bioinformatics Analysis of SPL Gene Family in Sweet Cherry
3.2. Expression Profiles of PavSPLs in Sweet Cherry Development
3.3. Expression Profiles of PavSPLs in Plant Responses to Multiple Hormones
4. Materials and Methods
4.1. Plant Materials and Hormone Treatments
4.2. Identification of SPL Genes in Sweet Cherry
4.3. Sequence Alignments, Phylogenetic Analyses, and Gene Structure Analysis
4.4. Cis-Acting Element Prediction and Chromosomal Localization Analysis
4.5. Expression Analysis of PavSPLs
4.6. Subcellular Localization Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Gene Name | Accession Number | Protein /AA | Chrom. | Chr Start | Chr End | MW (Da) |
---|---|---|---|---|---|---|
PavSPL1 | Pav_sc0000065.1_g080.1 | 1034 | Chr1 | 6612478 | 6619865 | 115029.50 |
PavSPL2 | Pav_sc0000065.1_g070.1 | 1009 | Chr1 | 6620405 | 6626786 | 112292.00 |
PavSPL3 | Pav_sc0000091.1_g140.1 | 316 | Chr1 | 18093845 | 18097381 | 34624.93 |
PavSPL4 | Pav_sc0000091.1_g350.1 | 443 | Chr1 | 18230101 | 18234634 | 48283.35 |
PavSPL5 | Pav_sc0000120.1_g190.1 | 434 | Chr2 | 12784392 | 12787547 | 47451.18 |
PavSPL6 | Pav_sc0001080.1_g880.1 | 217 | Chr3 | 21876290 | 21878055 | 25097.53 |
PavSPL7 | Pav_sc0001305.1_g910.1 | 162 | Chr4 | 3003020 | 3004866 | 18563.10 |
PavSPL8 | Pav_sc0000600.1_g500.1 | 1069 | Chr4 | 5991293 | 5997912 | 118373.64 |
PavSPL9 | Pav_sc0000975.1_g210.1 | 162 | Chr4 | 13389781 | 13391094 | 18440.52 |
PavSPL10 | Pav_sc0000740.1_g280.1 | 401 | Chr5 | 11637365 | 11640898 | 43899.78 |
PavSPL11 | Pav_sc0000358.1_g620.1 | 559 | Chr5 | 15069897 | 15073721 | 61412.26 |
PavSPL12 | Pav_sc0001280.1_g530.1 | 383 | Chr6 | 17835832 | 17840241 | 41097.72 |
Gene 1 | Gene 2 | Ka | Ks | Ka/Ks | Gene Duplication |
---|---|---|---|---|---|
PavSPL3 | PavSPL6 | 0.462 | 1.551 | 0.298 | Segmental |
PavSPL3 | PavSPL10 | 0.406 | 2.133 | 0.190 | Segmental |
PavSPL6 | PavSPL10 | 0.400 | NaN | NaN | Segmental |
PavSPL7 | PavSPL9 | 0.343 | 1.379 | 0.249 | Segmental |
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Sun, Y.; Wang, Y.; Xiao, Y.; Zhang, X.; Du, B.; Turupu, M.; Wang, C.; Yao, Q.; Gai, S.; Huang, J.; et al. Genome-Wide Identification of the SQUAMOSA Promoter-Binding Protein-like (SPL) Transcription Factor Family in Sweet Cherry Fruit. Int. J. Mol. Sci. 2023, 24, 2880. https://doi.org/10.3390/ijms24032880
Sun Y, Wang Y, Xiao Y, Zhang X, Du B, Turupu M, Wang C, Yao Q, Gai S, Huang J, et al. Genome-Wide Identification of the SQUAMOSA Promoter-Binding Protein-like (SPL) Transcription Factor Family in Sweet Cherry Fruit. International Journal of Molecular Sciences. 2023; 24(3):2880. https://doi.org/10.3390/ijms24032880
Chicago/Turabian StyleSun, Yueting, Yanyan Wang, Yuqin Xiao, Xiang Zhang, Bingyang Du, Maihemuti Turupu, Chao Wang, Qisheng Yao, Shilin Gai, Jing Huang, and et al. 2023. "Genome-Wide Identification of the SQUAMOSA Promoter-Binding Protein-like (SPL) Transcription Factor Family in Sweet Cherry Fruit" International Journal of Molecular Sciences 24, no. 3: 2880. https://doi.org/10.3390/ijms24032880