Genome–Wide Identification and Functional Characterization of Auxin Response Factor (ARF) Genes in Eggplant
Abstract
:1. Introduction
2. Results
2.1. Identification and Sequence Analysis of ARF Genes in Eggplant
2.2. Phylogenetic Tree Analysis and Grouping of Auxin Response Factor (ARF) Genes in Eggplant
2.3. Motif Analysis
2.4. Prediction of Cis–Acting Elements in Promoters
2.5. Subcellular Localization of SmARFs
2.6. Expression Patterns of SmARF Genes in Eggplant
2.7. Expression Analysis of SmARF Genes in Response to 2,4–D
2.8. Expression Analysis of SmARF Genes in Response to Salt Stress
3. Discussion
4. Materials and Methods
4.1. Identification of ARFs in the Eggplant Genome
4.2. Phylogenetic Analysis of ARF Genes
4.3. Structural Characterization
4.4. Subcellular Localization
4.5. Growth Conditions and Treatments
4.6. RNA Extraction and qRT–PCR Analysis
4.7. Statistical Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Gene Name | Gene ID | Amino Acids 1 | PI 2 | MW (kDa) 3 | Domains | localization | Tomato Gene Name |
---|---|---|---|---|---|---|---|
SmARF1A | SMEL4.1_00g004780.1 | 766 | 6 | 85,257.51 | Auxin_resp,B3,AUX_IAA | nucleus | SlARF1 |
SmARF1B | SMEL4.1_01g001560.1 | 766 | 6 | 85,257.51 | Auxin_resp,B3,AUX_IAA | nucleus | SlARF1 |
SmARF2A | SMEL4.1_03g029420.1 | 869 | 6.7 | 96,739.8 | Auxin_resp,B3,AUX_IAA | nucleus | SlARF2A |
SmARF2B | SMEL4.1_05g012510.1 | 845 | 6.13 | 94,413.39 | Auxin_resp,B3,AUX_IAA | nucleus | SlARF2B |
SmARF5 | SMEL4.1_04g022210.1 | 960 | 5.44 | 105,837.03 | Auxin_resp,B3,AUX_IAA | nucleus | SlARF5 |
SmARF7B | SMEL4.1_05g024900.1 | 1153 | 5.92 | 126,924.92 | Auxin_resp,B3, AUX_IAA | nucleus | SlARF7B |
SmARF7A | SMEL4.1_07g007960.1 | 1168 | 6.24 | 129,081.62 | Auxin_resp,B3,AUX_IAA | nucleus | SlARF7A |
SmARF18 | SMEL4.1_01g014290.1 | 748 | 5.86 | 83,734.67 | Auxin_resp,B3,AUX_IAA(2) | nucleus | SlARF18 |
SmARF3 | SMEL4.1_02g015730.1 | 807 | 6.75 | 87,259.21 | Auxin_resp,B3 | nucleus | SlARF3 |
SmARF4 | SMEL4.1_12g016970.1 | 872 | 5.71 | 96,722.79 | Auxin_resp,B3 | nucleus | SlARF4 |
SmARF6A | SMEL4.1_12g018390.1 | 390 | 8.06 | 43,089.19 | Auxin_resp,B3 | nucleus | AtARF6 |
SmARF6B | SMEL4.1_07g013780.1 | 951 | 6.12 | 105,092.18 | Auxin_resp,B3 | nucleus | SlARF6 |
SmARF8A | SMEL4.1_03g001710.1 | 1052 | 6.23 | 116,913.79 | Auxin_resp,B3 | nucleus | SlARF8A |
SmARF10A | SMEL4.1_12g017320.1 | 784 | 7.51 | 86,474.58 | Auxin_resp,B3 | nucleus | SlARF10A |
SmARF10B | SMEL4.1_06g026750.1 | 737 | 6.8 | 82,152.63 | Auxin_resp,WD40(2),B3 | nucleus | SlARF10B |
SmARF16A | SMEL4.1_09g002600.1 | 751 | 6.48 | 82,665.52 | Auxin_resp,B3 | nucleus | SlARF16A |
SmARF16B | SMEL4.1_01g009500.1 | 669 | 6.08 | 74,853.8 | Auxin_resp,B3 | nucleus | SlARF16B |
SmARF17 | SMEL4.1_04g010090.1 | 407 | 7.72 | 44,721.66 | Auxin_resp,B3 | nucleus | SlARF17 |
SmARF24 | SMEL4.1_08g000470.1 | 379 | 6.1 | 43,518.47 | Auxin_resp,B3 | nucleus | SlARF24 |
SmARF19 | SMEL4.1_07g012550.1 | 1423 | 6.25 | 158,498.05 | Auxin_resp, AUX_IAA | nucleus | SlARF19 |
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Chen, J.; Wang, S.; Wu, F.; Wei, M.; Li, J.; Yang, F. Genome–Wide Identification and Functional Characterization of Auxin Response Factor (ARF) Genes in Eggplant. Int. J. Mol. Sci. 2022, 23, 6219. https://doi.org/10.3390/ijms23116219
Chen J, Wang S, Wu F, Wei M, Li J, Yang F. Genome–Wide Identification and Functional Characterization of Auxin Response Factor (ARF) Genes in Eggplant. International Journal of Molecular Sciences. 2022; 23(11):6219. https://doi.org/10.3390/ijms23116219
Chicago/Turabian StyleChen, Jing, Shijie Wang, Fengling Wu, Min Wei, Jing Li, and Fengjuan Yang. 2022. "Genome–Wide Identification and Functional Characterization of Auxin Response Factor (ARF) Genes in Eggplant" International Journal of Molecular Sciences 23, no. 11: 6219. https://doi.org/10.3390/ijms23116219