Identification of Apple Flower Development-Related Gene Families and Analysis of Transcriptional Regulation
Abstract
:1. Introduction
2. Results
2.1. Identification of C2H2, DELLA, and FKF1 Gene Families in the Apple Genome
2.2. Phylogenetic Analysis of the C2H2, DELLA, and FKF1 Gene Families
2.3. Gene Structure and Conserved Protein Motif Analysis of the C2H2, DELLA, and FKF1 Gene Families
2.4. Chromosomal Distribution and Covariance Analysis of C2H2, DELLA, and FKF1 Genes in Apples
2.5. Expression Profiles of C2H2, DELLA, and FKF1 Genes in Apple Flower Buds
2.6. Subcellular Localization of Apple C2H2, DELLA, and FKF1 Proteins
2.7. Yeast Two-Hybrid Validation
3. Materials and Methods
3.1. Test Materials
3.2. Identification and Prediction of Physicochemical Properties of C2H2, DELLA, and FKF1 Genes in Apples
3.3. Gene Structure, Analysis, and Phylogenetic Tree Construction
3.4. Chromosome Distribution and Co-Linearity Analysis
3.5. Quantitative Fluorescence Analysis
3.6. Subcellular Localization
3.7. Yeast Hybridization
4. Discussion
5. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Gene Name | Gene ID | Chromosome Location | Length of CDS (bp) | Physicochemical Properties | Subcellular Localization | |||
---|---|---|---|---|---|---|---|---|
No. | Mw | pI | GRAVY | |||||
MdC2H2-1 | MD02G1048300 | Chr2 | 2716 | 473 | 53,935.18 | 8.58 | −0.785 | nucl |
MdC2H2-3 | MD02G1313400 | Chr2 | 2983 | 365 | 40,796.93 | 8.8 | −0.608 | nucl |
MdC2H2-2 | MD02G1151700 | Chr2 | 3781 | 520 | 54,260.67 | 8.83 | −0.495 | nucl |
MdC2H2-4 | MD03G1258200 | Chr3 | 3533 | 464 | 50,955.33 | 9.16 | −0.637 | nucl |
MdC2H2-5 | MD03G1283900 | Chr3 | 2591 | 534 | 58,928.67 | 8.82 | −0.818 | nucl |
MdC2H2-6 | MD04G1203000 | Chr4 | 3703 | 522 | 57,092.7 | 8.99 | −0.746 | nucl |
MdC2H2 7 | MD06G1234600 | Chr6 | 3271 | 503 | 56,383.07 | 8.94 | −0.884 | nucl |
MdC2H2 8 | MD07G1008700 | Chr7 | 3170 | 389 | 43,693.48 | 7.04 | −0.797 | nucl |
MdC2H2-11 | MD08G1239600 | Chr8 | 5069 | 373 | 42,921.8 | 6.24 | −1.145 | cyto |
MdC2H2-10 | MD08G1063600 | Chr8 | 3377 | 488 | 54,409.49 | 8.86 | −0.18 | nucl |
MdC2H2-9 | MD08G1033100 | Chr8 | 4082 | 535 | 55,755.13 | 8.81 | −0.437 | nucl |
MdC2H2-12 | MD11G1278800 | Chr11 | 3430 | 466 | 51,228.26 | 9.2 | −0.691 | nucl |
MdC2H2-13 | MD12G1120300 | Chr12 | 2650 | 530 | 58,194.12 | 9.23 | −0.666 | nucl |
MdC2H2-14 | MD13G1013100 | Chr13 | 6347 | 600 | 64,123.49 | 9.29 | −0.717 | nucl |
MdC2H2-15 | MD13G1015000 | Chr13 | 3018 | 483 | 52,950.02 | 8.94 | −0.784 | nucl |
MdC2H2-16 | MD14G1241600 | Chr14 | 3364 | 503 | 56,507.32 | 9.02 | −0.881 | nucl |
MdC2H2-23 | MD15G1431100 | Chr15 | 4846 | 294 | 34,436.24 | 7.92 | −0.773 | nucl |
MdC2H2-17 | MD15G1029700 | Chr15 | 3481 | 541 | 56,410.92 | 8.62 | −0.445 | nucl |
MdC2H2-18 | MD15G1058000 | Chr15 | 3342 | 533 | 58,976.45 | 8.54 | −0.798 | cyto |
MdC2H2-20 | MD15G1266200 | Chr15 | 3521 | 528 | 55,077.62 | 9.04 | −0.481 | nucl |
MdC2H2-21 | MD15G1323400 | Chr15 | 1076 | 358 | 40,054.06 | 5.73 | −0.636 | nucl |
MdC2H2-19 | MD15G1186600 | Chr15 | 1835 | 363 | 41,314.08 | 9.16 | −0.684 | nucl |
MdC2H2-22 | MD15G1411000 | Chr15 | 2708 | 369 | 42,755.28 | 8.34 | −0.932 | nucl |
MdC2H2-24 | MD17G1186000 | Chr17 | 2471 | 521 | 56,980.48 | 8.34 | −0.668 | nucl |
MdDELLA3 | MD13G1022100 | Chr13 | 1947 | 635 | 69,734.67 | 5.3 | −0.28 | nucl |
MdDELLA5 | MD16G1023300 | Chr16 | 1919 | 639 | 70,235.28 | 5.25 | −0.287 | nucl |
MdDELLA6 | MD17G1260700 | Chr17 | 1754 | 584 | 63,697.47 | 4.95 | −0.289 | nucl |
MdDELLA2 | MD09G1264800 | Chr09 | 1742 | 580 | 63,166.16 | 5.09 | −0.215 | chlo |
MdDELLA1 | MD02G1039600 | Chr02 | 1640 | 546 | 59,826.8 | 5.63 | −0.114 | chlo |
MdDELLA4 | MD15G1180500 | Chr15 | 1643 | 547 | 59,896.09 | 5.53 | −0.091 | nucl |
MdFKF1-2 | MD13G1117000 | Chr13 | 3505 | 371 | 41,108.05 | 5.75 | −0.138 | nucl |
MdFKF1-1 | MD03G1007500 | Chr3 | 2972 | 437 | 49,203.71 | 9.47 | −0.243 | cyto |
MdFKF1-5 | MD16G1117600 | Chr16 | 3235 | 386 | 43,284.64 | 6.2 | −0.21 | cyto |
MdFKF1-4 | MD16G1018000 | Chr16 | 2898 | 632 | 70,550.83 | 5.53 | −0.351 | nucl |
MdFKF1-6 | MD16G1255700 | Chr16 | 6558 | 623 | 67,868.46 | 5.29 | −0.112 | nucl |
MdFKF1-3 | MD13G1249400 | Chr13 | 5468 | 623 | 68,016.72 | 5.34 | −0.107 | nucl |
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Mei, C.; Li, X.; Yan, P.; Feng, B.; Mamat, A.; Wang, J.; Li, N. Identification of Apple Flower Development-Related Gene Families and Analysis of Transcriptional Regulation. Int. J. Mol. Sci. 2024, 25, 7510. https://doi.org/10.3390/ijms25147510
Mei C, Li X, Yan P, Feng B, Mamat A, Wang J, Li N. Identification of Apple Flower Development-Related Gene Families and Analysis of Transcriptional Regulation. International Journal of Molecular Sciences. 2024; 25(14):7510. https://doi.org/10.3390/ijms25147510
Chicago/Turabian StyleMei, Chuang, Xianguo Li, Peng Yan, Beibei Feng, Aisajan Mamat, Jixun Wang, and Ning Li. 2024. "Identification of Apple Flower Development-Related Gene Families and Analysis of Transcriptional Regulation" International Journal of Molecular Sciences 25, no. 14: 7510. https://doi.org/10.3390/ijms25147510