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- Title
Calibration of Mutation Rates Reveals Diverse Subfamily Structure of Galliform CR1 Repeats.
- Authors
Liu, George E.; Lu Jiang; Fei Tian; Bin Zhu; Jiuzhou Song
- Abstract
Chicken Repeat 1 (CR1) repeats are the most abundant family of repeats in the chicken genome, with more than 200,000 copies accounting for ∼80% of the chicken interspersed repeats. CR1 repeats are believed to have arisen from the retrotransposition of a small number of master elements, which gave rise to the 22 CR1 subfamilies as previously reported in Repbase. We performed a global assessment of the divergence distributions, phylogenies, and consensus sequences of CR1 repeats in the chicken genome. We identified and validated 57 chicken CR1 subfamilies and further analyzed the correlation between these subfamilies and their regional GC contents. We also discovered one novel lineage-specific CR1 subfamilies in turkeys when compared with chickens. We built an evolutionary tree of these subfamilies and concluded that CR1 repeats may play an important role in reshaping the structure of bird genomes.
- Subjects
GENETIC mutation; GALLIFORMES; CHICKENS; GENOMES; BIOLOGICAL divergence; GENETIC research
- Publication
Genome Biology & Evolution, 2009, Vol 1, p119
- ISSN
1759-6653
- Publication type
Article
- DOI
10.1093/gbe/evp014