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Patterns of damage in genomic DNA sequences from a Neandertal.
| Content Provider | Semantic Scholar |
|---|---|
| Author | Briggs, Adrian W. Stenzel, Udo Johnson, Philip L. F. Green, Richard E. Kelso, Janet Prüfer, Kay Meyer, Matthias Krause, Johannes Ronan, Michael T. Lachmann, Michael Pääbo, Svante |
| Copyright Year | 2007 |
| Abstract | High-throughput direct sequencing techniques have recently opened the possibility to sequence genomes from Pleistocene organisms. Here we analyze DNA sequences determined from a Neandertal, a mammoth, and a cave bear. We show that purines are overrepresented at positions adjacent to the breaks in the ancient DNA, suggesting that depurination has contributed to its degradation. We furthermore show that substitutions resulting from miscoding cytosine residues are vastly overrepresented in the DNA sequences and drastically clustered in the ends of the molecules, whereas other substitutions are rare. We present a model where the observed substitution patterns are used to estimate the rate of deamination of cytosine residues in single- and double-stranded portions of the DNA, the length of single-stranded ends, and the frequency of nicks. The results suggest that reliable genome sequences can be obtained from Pleistocene organisms. |
| Starting Page | 23 |
| Ending Page | 31 |
| Page Count | 9 |
| File Format | PDF HTM / HTML |
| Alternate Webpage(s) | http://tuvalu.santafe.edu/~lachmann/papers/Neandertal_damage_2007.pdf |
| Alternate Webpage(s) | https://www.eva.mpg.de/documents/NatlAcadSciences/Briggs_Patterns_PNAS_2007_1554768.pdf |
| Alternate Webpage(s) | http://www.geo.uni-tuebingen.de/fileadmin/website/arbeitsbereich/ufg/umweltarchaeologie/ufg_paleogenetik/publications/2007/Briggs_PNAS_2007.pdf |
| Alternate Webpage(s) | http://www.pnas.org/content/104/37/14616.full.pdf?with-ds=yes |
| PubMed reference number | 17715061v1 |
| Volume Number | 104 |
| Issue Number | 37 |
| Journal | Proceedings of the National Academy of Sciences of the United States of America |
| Language | English |
| Access Restriction | Open |
| Subject Keyword | Cytosine DNA, Ancient DNA-Directed DNA Polymerase Deamination Depurination Direct Sequencing Genome Neanderthals mammoth |
| Content Type | Text |
| Resource Type | Article |
