Genome-Wide Identification, Expression Profile and Evolution Analysis of Karyopherin β Gene Family in Solanum tuberosum Group Phureja DM1-3 Reveals Its Roles in Abiotic Stresses
Abstract
:1. Introduction
2. Results
2.1. Genome-Wide Identification of KPNβ Genes from S. tuberosum
2.2. Chromosomal Distribution and Duplication Events among StKPNβ Genes
2.3. Gene Structure of StKPNβs
2.4. Conserved Domains and Motif Analysis of StKPNβs
2.5. Phylogenetic Analysis of StKPNβs
2.6. Expression Profiles of StKPNβs among Various Tissues and Developmental Stages
2.7. Expression Profiles of StKPNβs in Response to Biotic and Abiotic Stresses
2.8. StKPNβs Response to Various Phytohormones
2.9. Knockdown of StKPNβ3a Expression Results in Increased Susceptibility to Environmental Stresses
3. Discussion
4. Materials and Methods
4.1. Plant Material and Treatments
4.2. Identification of KPNβ Genes in S. tuberosum Group Phureja
4.3. Analysis of Gene Structure and Conserved Domains
4.4. Sequence Alignment and Phylogenetic Construction
4.5. Expression Profiling of StKPNβ Genes in Different Tissues or Under Various Stresses
4.6. RNA Extraction and Quantitative Real-Time RT-PCR
4.7. Virus-Induced Gene Silencing (VIGS) of Potato
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Gene Name a | Locus ID b | Predicted Proteins | Chromosomal Location c | Gene Models d | Putative Proteins e | ||||
---|---|---|---|---|---|---|---|---|---|
Chr | Chr_start | Chr_end | Length (aa) | pI | MW (kDa) | ||||
StKPNβ 1a | PGSC0003DMG400018525 | PGSC0003DMP400032281 | 3 | 45710853 | 45713572 | 1 | 871 | 4.61 | 96.40 |
StKPNβ 1b | PGSC0003DMG400019597 | PGSC0003DMP400034029 | 6 | 38386746 | 38389457 | 1 | 868 | 4.59 | 96.00 |
StKPNβ 1c | PGSC0003DMG400026641 | PGSC0003DMP400046282 | 9 | 10350557 | 10353269 | 1 | 873 | 4.62 | 96.22 |
StKPNβ 3a | PGSC0003DMG400015862 | PGSC0003DMP400027802 | 1 | 16901021 | 16911855 | 1 | 1111 | 4.74 | 123.08 |
StKPNβ 3b | PGSC0003DMG401004281 | PGSC0003DMP400007618 | 12 | 61091176 | 61100591 | 1 | 1021 | 4.77 | 113.87 |
StKPNβ 3c | PGSC0003DMG400023766 | PGSC0003DMP400055376 | 1 | 1281756 | 1283167 | 1 | 239 | 4.73 | 27.15 |
StKPNβ 3d | PGSC0003DMG400013325 | PGSC0003DMP400051493 | 8 | 45306052 | 45311794 | 1 | 983 | 6.10 | 109.56 |
StKPNβ 4 | PGSC0003DMG400032173 | PGSC0003DMP400041127 | 1 | 80738183 | 80745787 | 5 | 1049 | 4.87 | 115.27 |
StKAP120 | PGSC0003DMG401000117 | PGSC0003DMP400011095 | 9 | 9658233 | 9662484 | 1 | 307 | 5.28 | 33.77 |
StPLANTKAP | PGSC0003DMG400006259 | PGSC0003DMP400021286 | 1 | 34095216 | 34099108 | 1 | 438 | 4.22 | 49.23 |
StXOPT | PGSC0003DMG400012034 | PGSC0003DMP400039669 | 3 | 61569820 | 61577676 | 4 | 990 | 5.44 | 111.51 |
StXPO2 | PGSC0003DMG400022883 | PGSC0003DMP400000259 | 1 | 73593165 | 73596092 | 1 | 975 | 5.52 | 109.63 |
StXPO5 | PGSC0003DMG400022491 | PGSC0003DMP400038992 | 1 | 75806958 | 75808695 | 1 | 320 | 6.00 | 35.01 |
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Xu, Y.; Liu, L.; Zhao, P.; Tong, J.; Zhong, N.; Zhang, H.; Liu, N. Genome-Wide Identification, Expression Profile and Evolution Analysis of Karyopherin β Gene Family in Solanum tuberosum Group Phureja DM1-3 Reveals Its Roles in Abiotic Stresses. Int. J. Mol. Sci. 2020, 21, 931. https://doi.org/10.3390/ijms21030931
Xu Y, Liu L, Zhao P, Tong J, Zhong N, Zhang H, Liu N. Genome-Wide Identification, Expression Profile and Evolution Analysis of Karyopherin β Gene Family in Solanum tuberosum Group Phureja DM1-3 Reveals Its Roles in Abiotic Stresses. International Journal of Molecular Sciences. 2020; 21(3):931. https://doi.org/10.3390/ijms21030931
Chicago/Turabian StyleXu, Ya, Lu Liu, Pan Zhao, Jing Tong, Naiqin Zhong, Hongji Zhang, and Ning Liu. 2020. "Genome-Wide Identification, Expression Profile and Evolution Analysis of Karyopherin β Gene Family in Solanum tuberosum Group Phureja DM1-3 Reveals Its Roles in Abiotic Stresses" International Journal of Molecular Sciences 21, no. 3: 931. https://doi.org/10.3390/ijms21030931