Genome-Wide Identification and Characterization of the NF-YA Gene Family and Its Expression in Response to Different Nitrogen Forms in Populus × canescens
Abstract
:1. Introduction
2. Results
2.1. Identification of NF-YA Genes and Characterization of NF-YA Proteins in P. × canescens
2.2. Phylogenetic and Multiple Sepuence Alignment Analyses and Tertiary Structure Prediction of PcNF-YAs
2.3. Gene Structure and Protein Motif Analyses of PcNF-YAs
2.4. Chromosome Localization, Gene Duplication and Synteny Analysis of PcNF-YA Genes
2.5. Analysis of Cis-Acting Regulatory Elements of PcNF-YA Genes
2.6. miR169 Family Members in P. × canescens and Their Target Sites in PcNF-YA Genes
2.7. Expression Patterns of PcNF-YA Genes in Different Tissues
2.8. Expression Pattern Analysis of PcNF-YA Genes in Response to Different Nitrogen Forms
2.9. MiR169d Expression Promoted Root Growth of Transgenic Poplar
3. Discussion
4. Materials and Methods
4.1. Sequence Retrieval of NF-YA Family Members in P. × canescens
4.2. Phylogenetic, Multiple Sequence Alignment, Gene Structure and Protein Motif Analyses of PcNF-YA Proteins
4.3. Chromosomal Distribution and Synteny Analysis of PcNF-YA Proteins
4.4. Identification of Cis-Regulatory Elements in Promoter Regions
4.5. Prediction of PcNF-YAs Targeted by miR169
4.6. Plant Materials, Growth Conditions, and Different Nitrogen Form Treatments
4.7. Total RNA Extraction and RT-qPCR
4.8. Populus Transformation
5. Conclusions
Supplementary Materials
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 | Chr | The Number of Introns | The Number of Exons | Amino Acid Length (aa) | Protein Mol. Wt. (kDa) | pI | Subcellular Localization |
---|---|---|---|---|---|---|---|---|
PcNF-YA1 | potri.009G060600 | 9 | 5 | 6 | 377 | 41.31805 | 7.83 | Nucleus |
PcNF-YA2 | potri.018G064700 | 18 | 4 | 5 | 337 | 37.23665 | 8.94 | Nucleus |
PcNF-YA3 | potri.001G266000 | 1 | 5 | 6 | 313 | 34.32908 | 8.84 | Nucleus |
PcNF-YA4 | potri.001G372100 | 1 | 3 | 4 | 210 | 23.21267 | 7.13 | Nucleus |
PcNF-YA5 | potri.009G052900 | 9 | 4 | 5 | 347 | 38.17855 | 6.35 | Nucleus |
PcNF-YA6 | potri.006G145100 | 6 | 4 | 5 | 341 | 37.15937 | 9.05 | Nucleus |
PcNF-YA7 | potri.006G201900 | 6 | 4 | 5 | 323 | 35.00364 | 9.26 | Nucleus |
PcNF-YA8 | potri.016G068200 | 16 | 4 | 5 | 319 | 34.99273 | 9.28 | Nucleus |
PcNF-YA9 | potri.011G101000 | 11 | 4 | 5 | 208 | 22.83747 | 9.15 | Nucleus |
PcNF-YA10 | potri.006G053500 | 6 | 3 | 4 | 300 | 33.37344 | 9.42 | Nucleus |
PcNF-YA11 | potri.001G257600 | 1 | 4 | 5 | 309 | 33.92788 | 8.76 | Nucleus |
PcNF-YA12 | potri.011G098400 | 11 | 4 | 5 | 208 | 22.83747 | 9.15 | Nucleus |
PcNF-YA13 | potri.016G054100 | 16 | 0 | 1 | 53 | 5.802 | 11.47 | Nucleus |
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Zhou, J.; Yang, L.; Chen, X.; Zhou, M.; Shi, W.; Deng, S.; Luo, Z. Genome-Wide Identification and Characterization of the NF-YA Gene Family and Its Expression in Response to Different Nitrogen Forms in Populus × canescens. Int. J. Mol. Sci. 2022, 23, 11217. https://doi.org/10.3390/ijms231911217
Zhou J, Yang L, Chen X, Zhou M, Shi W, Deng S, Luo Z. Genome-Wide Identification and Characterization of the NF-YA Gene Family and Its Expression in Response to Different Nitrogen Forms in Populus × canescens. International Journal of Molecular Sciences. 2022; 23(19):11217. https://doi.org/10.3390/ijms231911217
Chicago/Turabian StyleZhou, Jing, Lingyu Yang, Xin Chen, Mengyan Zhou, Wenguang Shi, Shurong Deng, and Zhibin Luo. 2022. "Genome-Wide Identification and Characterization of the NF-YA Gene Family and Its Expression in Response to Different Nitrogen Forms in Populus × canescens" International Journal of Molecular Sciences 23, no. 19: 11217. https://doi.org/10.3390/ijms231911217