Please use this identifier to cite or link to this item:
http://bura.brunel.ac.uk/handle/2438/16068
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DC Field | Value | Language |
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dc.contributor.author | Roller, M | - |
dc.contributor.author | Navarro, FCP | - |
dc.contributor.author | Fiddes, I | - |
dc.contributor.author | Streeter, I | - |
dc.contributor.author | Feig, C | - |
dc.contributor.author | Martin-Galvez, D | - |
dc.contributor.author | Kolmogorov, M | - |
dc.contributor.author | Janoušek, V | - |
dc.contributor.author | Akanni, W | - |
dc.contributor.author | Aken, B | - |
dc.contributor.author | Aldridge, S | - |
dc.contributor.author | Chakrapani, V | - |
dc.contributor.author | Chow, W | - |
dc.contributor.author | Clarke, L | - |
dc.contributor.author | Cummins, C | - |
dc.contributor.author | Doran, A | - |
dc.contributor.author | Dunn, M | - |
dc.contributor.author | Goodstadt, L | - |
dc.contributor.author | Howe, K | - |
dc.contributor.author | Howell, M | - |
dc.contributor.author | Josselin, A-A | - |
dc.contributor.author | Karn, RC | - |
dc.contributor.author | Laukaitis, CM | - |
dc.contributor.author | Jingtao, L | - |
dc.contributor.author | Martin, F | - |
dc.contributor.author | Muffato, M | - |
dc.contributor.author | Nachtweide, S | - |
dc.contributor.author | Quail, MA | - |
dc.contributor.author | Sisu, C | - |
dc.contributor.author | Stanke, M | - |
dc.contributor.author | Stefflova, K | - |
dc.contributor.author | Van Oosterhout, C | - |
dc.contributor.author | Veyrunes, F | - |
dc.contributor.author | Ward, B | - |
dc.contributor.author | Yang, F | - |
dc.contributor.author | Yazdanifar, G | - |
dc.contributor.author | Zadissa, A | - |
dc.contributor.author | Adams, DJ | - |
dc.contributor.author | Brazma, A | - |
dc.contributor.author | Gerstein, M | - |
dc.contributor.author | Paten, B | - |
dc.contributor.author | Pham, S | - |
dc.contributor.author | Keane, TM | - |
dc.contributor.author | Odom, DT | - |
dc.contributor.author | Flicek, P | - |
dc.coverage.spatial | United States | - |
dc.date.accessioned | 2018-04-06T10:03:07Z | - |
dc.date.available | 2018-03-21 | - |
dc.date.available | 2018-04-06T10:03:07Z | - |
dc.date.issued | 2018 | - |
dc.identifier.citation | Genome Res, 2018 | en_US |
dc.identifier.issn | https://www.ncbi.nlm.nih.gov/pubmed/29563166 | - |
dc.identifier.issn | gr.234096.117 | - |
dc.identifier.issn | https://www.ncbi.nlm.nih.gov/pubmed/29563166 | - |
dc.identifier.issn | gr.234096.117 | - |
dc.identifier.issn | 1549-5469 | - |
dc.identifier.uri | http://bura.brunel.ac.uk/handle/2438/16068 | - |
dc.description.abstract | Understanding the mechanisms driving lineage-specific evolution in both primates and rodents has been hindered by the lack of sister clades with a similar phylogenetic structure having high-quality genome assemblies. Here, we have created chromosome-level assemblies of theMus caroliandMus paharigenomes. Together with theMus musculusandRattus norvegicusgenomes, this set of rodent genomes is similar in divergence times to the Hominidae (human-chimpanzee-gorilla-orangutan). By comparing the evolutionary dynamics between the Muridae and Hominidae, we identified punctate events of chromosome reshuffling that shaped the ancestral karyotype ofMus musculusandMus carolibetween 3 and 6 million yr ago, but that are absent in the Hominidae. Hominidae show between four- and sevenfold lower rates of nucleotide change and feature turnover in both neutral and functional sequences, suggesting an underlying coherence to the Muridae acceleration. Our system of matched, high-quality genome assemblies revealed how specific classes of repeats can play lineage-specific roles in related species. Recent LINE activity has remodeled protein-coding loci to a greater extent across the Muridae than the Hominidae, with functional consequences at the species level such as reproductive isolation. Furthermore, we charted a Muridae-specific retrotransposon expansion at unprecedented resolution, revealing how a single nucleotide mutation transformed a specific SINE element into an active CTCF binding site carrier specifically inMus caroli, which resulted in thousands of novel, species-specific CTCF binding sites. Our results show that the comparison of matched phylogenetic sets of genomes will be an increasingly powerful strategy for understanding mammalian biology. | en_US |
dc.language | eng | - |
dc.language.iso | en | en_US |
dc.title | Repeat associated mechanisms of genome evolution and function revealed by theMus caroliandMus paharigenomes. | en_US |
dc.type | Article | en_US |
dc.identifier.doi | http://dx.doi.org/10.1101/gr.234096.117 | - |
dc.relation.isPartOf | Genome Res | - |
pubs.publication-status | Published online | - |
Appears in Collections: | Dept of Life Sciences Research Papers |
Files in This Item:
File | Description | Size | Format | |
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Fulltext.pdf | 3.96 MB | Adobe PDF | View/Open |
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