High-resolution array comparative genomic hybridization analysis reveals unanticipated complexity of genetic deficiencies on chromosome V in <Emphasis Type="Italic">Caenorhabditis elegans</Emphasis> |
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Authors: | Martin R Jones Shu Yi Chua Nigel J O’Neil Robert C Johnsen Ann M Rose David L Baillie |
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Institution: | (1) Department of Medical Genetics, Life Sciences Centre, University of British Columbia, Vancouver, BC, Canada;(2) Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, V5A 1S6, Canada |
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Abstract: | Genomic rearrangements are widely used in Caenorhabditis elegans research but many remain incompletely characterized at the physical level. We have used oligo-array comparative genomic analysis
to assess the physical structure of 20 deficiencies and a single duplication of chromosome V. We find that while deletions
internal to the chromosome appear simple in structure, terminal deletions are complex, containing duplications in addition
to the deletion. Additionally, we confirm that transposon-induced deficiencies contain breakpoints that initiate at Tc1 elements.
Finally, 13 of these deficiencies are known to suppress recombination far beyond the extent of the deletion. These deficiencies
fall into two classes: strong and weak suppressors of adjacent recombination. Analysis of the deleted regions in these deficiencies
reveals no common physical sites to explain the observed differences in recombination suppression. However, we find a strong
correlation between the size of the rearranged chromosome and the severity of recombination suppression. Rearranged chromosomes
that have a minor effect on recombination fall within 2% of normal chromosome size. Our observations highlight the use of
array-based approaches for the analysis of rearranged genomes, revealing previously unidentified deficiency characteristics
and addressing biologically relevant questions. |
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Keywords: | C elegans Array-CGH Deficiencies Recombination |
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