Investigating the mechanism of chromosomal deletion: characterization of 39 deletion breakpoints in introns 47 and 48 of the human dystrophin gene
Abstract
The region of the dystrophin gene containing introns 45-50 is characterized by a high rate of recombination events that give rise to large deletions causing dystrophinopathy. The nucleotide sequence of this intronic region has recently been released in GenBank. With the aim of further understanding the mechanism favoring the occurrence of these deletions, we have characterized the distribution of introns 47 and 48 deletion endpoints in 39 dystrophinopathy patients. In 14 of these patients we were able to sequence the break junction. On these sequences we were able to identify several intronic motifs that could predispose to DNA double-strand breaks. Our results, combined with other literature data, show that unequal homologous recombination is a very poorly represented event in the dystrophin gene, whereas junction features are suggestive of a model of recombination in which DNA double-strand breaks are incorrectly repaired by a nonhomologous end-joining mechanism. The correlation among recombination rate, deletion frequency, and percentage of repetitive elements is discussed.
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CNV breakpoints formed by NHEJ are often located within repetitive elements such as LTRs, SINEs, LINEs, and MIRs.
“The breakpoints of CNVs formed by NHEJ are frequently observed within repetitive elements, such as long terminal repeats (LTRs), short interspersed repeat elements (SINEs), long interspersed nuclear elements (LINEs), and mammalian interspersed repeats (MIRs).”
From CNVs: Harbingers of a Rare Variant Revolution in Psychiatric Genetics (2012) · cites this paper as Toffolatti et al., 2002
NHEJ may be promoted by certain genomic architectures but does not require extensive sequence homology.
“This suggests that NHEJ may be stimulated by certain genomic architectures, but extensive sequence homology is not required (Toffolatti et al., 2002).”
From CNVs: Harbingers of a Rare Variant Revolution in Psychiatric Genetics (2012) · cites this paper as Toffolatti et al., 2002
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- Authors
- Toffolatti, L., Cardazzo, B., Nobile, C., Danieli, G. A., Gualandi, F., Muntoni, F., Abbs, S., Zanetti, P., Angelini, C., Ferlini, A., Fanin, M., & Patarnello, T.
- Affiliations
- University of Padua (IT)
- University of Ferrara (IT)
- Corresponding author
- Patarnello, Tomaso
- ORCID
- Venue
- Genomics
- Publisher
- Elsevier BV
- Published
- 2002-11
- Volume
- 80
- Issue
- 5
- Pages
- 523-530
- ISSN
- 0888-7543 (ISSN-L)
- OpenAlex
- W2034526956
- Cited by
- 80
- References
- 33
- Citations by year
- 2025: 4 · 2024: 1 · 2023: 1 · 2022: 2 · 2021: 1 · 2020: 2 · 2018: 1 · 2017: 2 · 2016: 1 · 2015: 2 · 2014: 6 · 2013: 5 · 2012: 7
- FWCI
- 1.27
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Genomics (publishedVersion)
- PubMed (publishedVersion)
- UCL Discovery (University College London) (submittedVersion)
- Institutional Research Information System University of Ferrara (University of Ferrara) (submittedVersion)
- Padua Research Archive (University of Padova) (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Muscle Physiology and Disorders
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomic variations and chromosomal abnormalities
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA Repair Mechanisms
- Keywords
- dystrophin gene, dystrophinopathy, chromosomal deletion, deletion breakpoints, non-homologous end joining, DNA double-strand breaks, recombination hotspots, repetitive elements, recombination rate
- MeSH terms
- Amino Acid Sequence, Base Sequence, Humans, Introns, Molecular Sequence Data, Muscular Dystrophies, Recombination, Genetic, Repetitive Sequences, Nucleic Acid, Sequence Homology, Nucleic Acid, Dystrophin, Gene Deletion, Chromosome Breakage
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