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The repetitivelandscape of thechicken genome Thomas WickerJon S. RobertsonStefan Schulze2004 год

The repetitive landscape of the chicken genome
статья из журнала

Полный текстСтраница публикацииПубликация в OpenAlex
Аннотация: Cot-based cloning and sequencing (CBCS) is a powerful tool for isolating and characterizing the various repetitive components of any genome, combining the established principles of DNA reassociation kinetics with high-throughput sequencing. CBCS was used to generate sequence libraries representing the high, middle, and low-copy fractions of the chicken genome. Sequencing high-copy DNA of chicken to about 2.7 x coverage of its estimated sequence complexity led to the initial identification of several new repeat families, which were then used for a survey of the newly released first draft of the complete chicken genome. The analysis provided insight into the diversity and biology of known repeat structures such as CR1 and CNM, for which only limited sequence data had previously been available. Cot sequence data also resulted in the identification of four novel repeats (Birddawg, Hitchcock, Kronos, and Soprano), two new subfamilies of CR1 repeats, and many elements absent from the chicken genome assembly. Multiple autonomous elements were found for a novel Mariner-like transposon, Galluhop, in addition to nonautonomous deletion derivatives. Phylogenetic analysis of the high-copy repeats CR1, Galluhop, and Birddawg provided insight into two distinct genome dispersion strategies. This study also exemplifies the power of the CBCS method to create representative databases for the repetitive fractions of genomes for which only limited sequence data is available.
Год издания: 2004
Авторы: Thomas Wicker, Jon S. Robertson, Stefan Schulze, F. Alex Feltus, Vincent Magrini, Jason A. Morrison, Elaine R. Mardis, Richard K. Wilson, Daniel G. Peterson, Andrew H. Paterson, Robert Ivarie
Издательство: Cold Spring Harbor Laboratory Press
Источник: Genome Research
Ключевые слова: Genomics and Phylogenetic Studies, Chromosomal and Genetic Variations, RNA and protein synthesis mechanisms
Другие ссылки: Genome Research (PDF)
Genome Research (HTML)
Europe PMC (PubMed Central) (PDF)
Europe PMC (PubMed Central) (HTML)
PubMed (HTML)