DNA Methylation Patterns in the Social Spider, Stegodyphus dumicola
Abstract
:1. Introduction
2. Materials and Methods
2.1. Study Species
2.2. Sample Collections and Datasets
2.3. Whole Genome Sequencing, Assembly, and Annotation
2.3.1. DNA Extraction and Sequencing
2.3.2. Genome Assembly
2.3.3. Genome Annotation
2.4. Gene Expression
RNA Extraction and Sequencing
2.5. Whole Genome Bisulfite Sequencing
2.5.1. DNA Extraction and Sequencing
2.5.2. Mapping and Methylation Calling
2.6. Differential Gene Expression and Methylation of Lab Acclimated Spiders
2.7. DNA Methylation and Stability of Gene Expression
2.8. DNA Methylation in Two Social Stegodyphus Species
2.9. Comparative Analyses of DNA Methylation in Chelicerates
3. Results
3.1. Genome Assembly and Annotation
3.2. Methylation Pattern in Stegodyphus dumicola
3.2.1. DNA Methylation and Gene Expression
3.2.2. DNA Methylation and Stability of Expression
3.2.3. DNA Methylation in Two Social Stegodyphus Species
3.3. Comparative Analyses of DNA Methylation in Chelicerates
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgements
Conflicts of Interest
Data Accessibility
References
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Estimated genome length | 4,287,877,091 |
Sequence coverage | 50 |
Assembled genome length | 2,551,871,755 |
Number of sequences | 16,532 |
N50 | 254,130 |
Largest | 1,740,957 |
GC content | 3326% |
Number of protein-coding genes | 37601 |
Exon length | 381 |
Intron length | 5453 |
Repeat content | 51,41% |
RNA TEs | 11,4% |
DNA TEs | 1487% |
Unclassified | 2396% |
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Liu, S.; Aagaard, A.; Bechsgaard, J.; Bilde, T. DNA Methylation Patterns in the Social Spider, Stegodyphus dumicola. Genes 2019, 10, 137. https://doi.org/10.3390/genes10020137
Liu S, Aagaard A, Bechsgaard J, Bilde T. DNA Methylation Patterns in the Social Spider, Stegodyphus dumicola. Genes. 2019; 10(2):137. https://doi.org/10.3390/genes10020137
Chicago/Turabian StyleLiu, Shenglin, Anne Aagaard, Jesper Bechsgaard, and Trine Bilde. 2019. "DNA Methylation Patterns in the Social Spider, Stegodyphus dumicola" Genes 10, no. 2: 137. https://doi.org/10.3390/genes10020137