Transcriptional Response of Silkworm (Bombyx mori) Eggs to O2 or HCl Treatment
Abstract
:1. Introduction
2. Results
2.1. RNA-Sequencing and General Transcription Patterns
2.2. Differentially Expressed Genes (DEGs) in O2-Treated and HCl-Treated Eggs
2.3. Common DEGs between O2-Treated and HCl-Treated Eggs
2.4. GO and KEGG Enrichment Analysis of DEGs
2.5. Validation of RNA-seq Data by qRT-PCR
3. Discussion
3.1. Trehalose Synthesis and Transportation
3.2. Proteins Involved in Polyols
3.3. Heat Shock Proteins (HSPs)
3.4. Cytochrome P450 (CYP)
3.5. Growth-Arrest and DNA Damage Inducible 45 (GADD45)
3.6. Ribosome Biogenesis and Spliceosome
4. Materials and Methods
4.1. Sample preparation
4.2. RNA Sequencing
4.3. Data Analysis
4.4. GO Annotation and Enrichment Analysis
4.5. Validation of DEGs by Quantitative Real-Time Polymerase Chain Reaction (qRT-PCR)
5. Conclusions
Supplementary Materials
Acknowledgments
Author Contributions
Conflicts of Interest
Abbreviations
HSP | Heat shock protein |
DGE | Digital gene expression |
DEGs | Differentially expressed genes |
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Sample Name | Raw Reads | Clean Reads | Clean Bases | Total Mapped | Error Rate (%) | Q20 (%) | Q30 (%) | GC Content (%) |
---|---|---|---|---|---|---|---|---|
O2-treated_1 | 12,984,364 | 12,920,255 | 0.65 G | 12,360,505 (95.67%) | 0.01 | 97.9 | 94.07 | 43.13 |
O2-treated_2 | 11,192,761 | 11,131,963 | 0.56 G | 10,740,908 (96.49%) | 0.01 | 98.84 | 96.07 | 43.38 |
HCl-treated_1 | 13,670,896 | 13,598,605 | 0.68 G | 13,068,581 (96.1%) | 0.01 | 97.92 | 94.13 | 43.44 |
HCl-treated_2 | 13,595,227 | 13,514,169 | 0.68 G | 12,993,548 (96.15%) | 0.01 | 98.64 | 95.87 | 45.03 |
Non-treated_1 | 12,361,440 | 12,313,326 | 0.62 G | 11,827,559 (96.05%) | 0.01 | 97.91 | 94.12 | 43.15 |
Non-treated_2 | 12,559,734 | 12,506,248 | 0.63 G | 11,993,516 (95.9%) | 0.01 | 98.16 | 94.66 | 43.5 |
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Gong, J.; Tian, S.; Zhou, X.; Yang, H.; Zhu, Y.; Hou, Y. Transcriptional Response of Silkworm (Bombyx mori) Eggs to O2 or HCl Treatment. Int. J. Mol. Sci. 2016, 17, 1838. https://doi.org/10.3390/ijms17121838
Gong J, Tian S, Zhou X, Yang H, Zhu Y, Hou Y. Transcriptional Response of Silkworm (Bombyx mori) Eggs to O2 or HCl Treatment. International Journal of Molecular Sciences. 2016; 17(12):1838. https://doi.org/10.3390/ijms17121838
Chicago/Turabian StyleGong, Jing, Sha Tian, Xia Zhou, Huan Yang, Yong Zhu, and Yong Hou. 2016. "Transcriptional Response of Silkworm (Bombyx mori) Eggs to O2 or HCl Treatment" International Journal of Molecular Sciences 17, no. 12: 1838. https://doi.org/10.3390/ijms17121838