期刊
GENOME BIOLOGY AND EVOLUTION
卷 1, 期 -, 页码 119-130出版社
OXFORD UNIV PRESS
DOI: 10.1093/gbe/evp014
关键词
CR1 repeats; comparative genomics; chicken genome
资金
- Cooperative State Research, Education, and Extension Service, United States Department of Agriculture [2007-35205-17869]
- Agriculture Research Service, United States Department of Agriculture [1265-31000-099-00D]
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.
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