Accurate Long-Read RNA Sequencing Analysis Reveals the Key Pathways and Candidate Genes under Drought Stress in the Seed Germination Stage in Faba Bean
Abstract
:1. Introduction
2. Results
2.1. The Phenotypes of E1 and C105 under Drought Stress at the Germination Stage
2.2. Identification of Full-Length Transcripts and Annotation under Drought Stress
2.3. Identification of Differentially Expressed Genes (DEGs) of C105 and E1 under Drought Stress
2.4. Pathway Enrichment Analysis of DEGs at 16 h and 64 h of Drought Stress
2.5. PPI Network Analysis of DEGs at 16 h and 64 h of Drought Stress
2.6. Ectopic Overexpression of AAT Enhanced Drought Tolerance in Tobacco
3. Discussion
4. Materials and Methods
4.1. Plant Materials and Drought Stress Treatment
4.2. Library Construction for NGS
4.3. Library Construction for Pacbio SMRT Sequencing
4.4. Illumina and Pacbio SMRT Sequencing
4.5. Work Pipeline for Full-Length Transcript
4.6. GO Enrichment Analysis
4.7. Pathway Enrichment Analysis
4.8. PPI Network Analysis
4.9. qRT-PCR Analysis
4.10. Ectopic Overexpression of AAT and RT-PCR Detection
4.11. Physiological Parameter Measurements
4.12. Data 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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Wen, X.; Liu, C.; Yang, F.; Wei, Z.; Li, L.; Chen, H.; Han, X.; Jiao, C.; Sha, A. Accurate Long-Read RNA Sequencing Analysis Reveals the Key Pathways and Candidate Genes under Drought Stress in the Seed Germination Stage in Faba Bean. Int. J. Mol. Sci. 2024, 25, 8875. https://doi.org/10.3390/ijms25168875
Wen X, Liu C, Yang F, Wei Z, Li L, Chen H, Han X, Jiao C, Sha A. Accurate Long-Read RNA Sequencing Analysis Reveals the Key Pathways and Candidate Genes under Drought Stress in the Seed Germination Stage in Faba Bean. International Journal of Molecular Sciences. 2024; 25(16):8875. https://doi.org/10.3390/ijms25168875
Chicago/Turabian StyleWen, Xin, Changyan Liu, Fangwen Yang, Zhengxin Wei, Li Li, Hongwei Chen, Xuesong Han, Chunhai Jiao, and Aihua Sha. 2024. "Accurate Long-Read RNA Sequencing Analysis Reveals the Key Pathways and Candidate Genes under Drought Stress in the Seed Germination Stage in Faba Bean" International Journal of Molecular Sciences 25, no. 16: 8875. https://doi.org/10.3390/ijms25168875