scholarly journals Deterministic Mutation Rate Variation in the Human Genome

2002 ◽  
Vol 12 (9) ◽  
pp. 1350-1356 ◽  
Author(s):  
N. G.C. Smith
Keyword(s):  
Human Genome ◽  
Mutation Rate ◽  
Rate Variation ◽  
Mutation Rate Variation

scholarly journals Nucleosome positioning stability is a significant modulator of germline mutation rate variation across the human genome

2018 ◽  
Author(s):  
Cai Li ◽  
Nicholas M. Luscombe
Keyword(s):  
Human Genome ◽  
Genome Evolution ◽  
Mutation Rate ◽  
Germline Mutation ◽  
De Novo ◽  
Mutation Rates ◽  
Rate Variation ◽  
Nucleosome Organization ◽  
Local Sequence ◽  
Mutation Rate Variation

AbstractUnderstanding the patterns and genesis of germline de novo mutations is important for studying genome evolution and human diseases. Nucleosome organization is suggested to be a contributing factor to mutation rate variation across the genome. However, the small number of published de novo mutations and the low resolution of earlier nucleosome maps limited our understanding of how nucleosome organization affects germline mutation rates in the human genome. Here, we systematically investigated the relationship between nucleosome organization and fine-scale mutation rate variation by analyzing >300,000 de novo mutations from whole-genome trio sequencing and high-resolution nucleosome maps in human. We found that de novo mutation rates are elevated around strong, translationally stable nucleosomes, a previously under-appreciated aspect. We confirmed this observation having controlled for local sequence context and other potential confounding factors. Analysis of the underlying mutational processes suggests that the increased mutation rates around strong nucleosomes are shaped by a combination of low-fidelity replication, frequent DNA damage and insufficient/error-prone repair in these regions. Interestingly, strong nucleosomes are preferentially located in young SINE/LINE elements, implying frequent nucleosome re-positioning (i.e. shifting of dyad position) and their contribution to hypermutation at new retrotransposons during evolution. These findings provide novel insights into how chromatin organization affects germline mutation rates and have important implications in human genetics and genome evolution.

Minisatellite mutation rate variation associated with a flanking DNA sequence polymorphism

1994 ◽  
Vol 8 (2) ◽  
pp. 162-170 ◽  
Author(s):  
Darren G. Monckton ◽  
Rita Neumann ◽  
Tara Guram ◽  
Neale Fretwell ◽  
Keiji Tamaki ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Mutation Rate ◽  
Sequence Polymorphism ◽  
Rate Variation ◽  
Dna Sequence Polymorphism ◽  
Mutation Rate Variation

scholarly journals Reply to: Mutation rate variation in eukaryotes: evolutionary implications of site-specific mechanisms

2007 ◽  
Vol 8 (11) ◽  
pp. 902-902
Author(s):  
Charles F. Baer ◽  
Michael M. Miyamoto ◽  
Dee R. Denver
Keyword(s):  
Mutation Rate ◽  
Rate Variation ◽  
Site Specific ◽  
Mutation Rate Variation

scholarly journals The architecture of intra-organism mutation rate variation in plants

PLoS Biology ◽  
2019 ◽  
Vol 17 (4) ◽  
pp. e3000191 ◽  
Author(s):  
Long Wang ◽  
Yilun Ji ◽  
Yingwen Hu ◽  
Huaying Hu ◽  
Xianqin Jia ◽  
...  
Keyword(s):  
Mutation Rate ◽  
Rate Variation ◽  
Mutation Rate Variation
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