Searching journal content for articles similar to Waldvogel and Pfenninger 31 (9): 1582.

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Research: Modest increase in the de novo single-nucleotide mutation rate in house mice born by assisted reproduction
- Laura Blanco-Berdugo,
- Alexis Garretson,
- and Beth L. Dumont
Genome Res. January 2026 36: 50-60; Published in Advance November 13, 2025, doi:10.1101/gr.281180.125
....5%–56%) increase in the dnSNV rate with ART compared with naturally conceived mice (P = 0.017). Analysis of the dnSNV mutation spectrum identifies signatures attributable to germline DNA repair activity but reveals no differentially enriched signatures between cohorts. We observe no enrichment of dn...
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Research: Colibactin leads to a bacteria-specific mutation pattern and self-inflicted DNA damage
- Emily Lowry,
- Yiqing Wang,
- Tal Dagan,
- and Amir Mitchell
Genome Res. August 2024 34: 1154-1164; Published in Advance August 16, 2024, doi:10.1101/gr.279517.124
...colonies were selected randomly in each cycle, observed mutations are not expected to be adaptive ones but should reflect the pattern of spontaneous mutation induced by colibactin exposure.View larger version: In this window In a new window Figure 3. Colibactin induces a bacteria-specific mutational...
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Research: Evolution and genomic signatures of spontaneous somatic mutation in Drosophila intestinal stem cells
- Nick Riddiford,
- Katarzyna Siudeja,
- Marius van den Beek,
- Benjamin Boumard,
- and Allison J. Bardin
Genome Res. August 2021 31: 1419-1432; Published in Advance June 24, 2021, doi:10.1101/gr.268441.120
...Nick Riddiford, Katarzyna Siudeja, Marius van den Beek, Benjamin Boumard and Allison J. Bardin Institut Curie, PSL Research University, CNRS UMR 3215, INSERM U934, Stem Cells and Tissue Homeostasis Group, 75005 Paris, France Corresponding author: allison.bardin@curie.frAbstractSpontaneous mutations...
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Research: Chromatin structure influences rate and spectrum of spontaneous mutations in Neurospora crassa
- Mariana Villalba de la Peña,
- Pauliina A.M. Summanen,
- Martta Liukkonen,
- and Ilkka Kronholm
Genome Res. April 2023 33: 599-611; Published in Advance March 15, 2023, doi:10.1101/gr.276992.122
...the into account.New mutations are the source of all genetic diversity, and evolutionary change ultimately depends on the input of new mutations into the population. However, organisms also pay a substantial cost for their ability to evolve, as deleterious mutations are more common than beneficial mutations (Eyre...
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Research: Variation in mutation, recombination, and transposition rates in Drosophila melanogaster and Drosophila simulans
- Yiguan Wang,
- Paul McNeil,
- Rashidatu Abdulazeez,
- Marta Pascual,
- Susan E. Johnston,
- Peter D. Keightley,
- and Darren J. Obbard
Genome Res. April 2023 33: 587-598; Published in Advance April 10, 2023, doi:10.1101/gr.277383.122
...Departament de Genètica, Microbiologia i Estadística and IRBio, Universitat de Barcelona, 08028 Barcelona, Spain Corresponding author: yiguan.wang@ed.ac.ukAbstractThe rates of mutation, recombination, and transposition are core parameters in models of evolution. They impact genetic diversity, responses...
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Research: Thermal stress accelerates Arabidopsis thaliana mutation rate
- Eric J. Belfield,
- Carly Brown,
- Zhong Jie Ding,
- Lottie Chapman,
- Mengqian Luo,
- Eleanor Hinde,
- Sam W. van Es,
- Sophie Johnson,
- Youzheng Ning,
- Shao Jian Zheng,
- Aziz Mithani,
- and Nicholas P. Harberd
Genome Res. January 2021 31: 40-50; Published in Advance December 17, 2020, doi:10.1101/gr.259853.119
...in multiple additional environmental variables that are themselves affected by temperature rise (e.g., drought, flood, wind, etc.) (Fu et al. 2019). In addition, robust detection of mutation requires a known pedigree tracing back over generations from an ancestor of known genomic DNA sequence.A dependency...
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Method: De novo mutation rates at the single-mutation resolution in a human HBB gene region associated with adaptation and genetic disease
- Daniel Melamed,
- Yuval Nov,
- Assaf Malik,
- Michael B. Yakass,
- Evgeni Bolotin,
- Revital Shemer,
- Edem K. Hiadzi,
- Karl L. Skorecki,
- and Adi Livnat
Genome Res. March 2022 32: 488-498; Published in Advance January 14, 2022, doi:10.1101/gr.276103.121
...latter rate being ∼163× faster than expected; P = 2.23 × 10−10, 95% CI 7.27 × 10−8–5.23 × 10−7, two-sided binomial exact test). Note that the evolutionarily relevant mutation rate depends on the fraction of the mutation in sperm per se, not on whether it repeats because of independent originations...
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Research: DNA mismatch repair preferentially protects genes from mutation
- Eric J. Belfield,
- Zhong Jie Ding,
- Fiona J.C. Jamieson,
- Anne M. Visscher,
- Shao Jian Zheng,
- Aziz Mithani,
- and Nicholas P. Harberd
Genome Res. January 2018 28: 66-74; Published in Advance December 12, 2017, doi:10.1101/gr.219303.116
...disproportionately increases the numbers of SNVs in genes, rather than in nongenic regions of the . This latter observation indicates that MMR preferentially protects genes from mutation and has important consequences for understanding the evolution of s during both natural selection and human tumor growth.Spontaneous...
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Research: Paternal age in rhesus macaques is positively associated with germline mutation accumulation but not with measures of offspring sociability
- Richard J. Wang,
- Gregg W.C. Thomas,
- Muthuswamy Raveendran,
- R. Alan Harris,
- Harshavardhan Doddapaneni,
- Donna M. Muzny,
- John P. Capitanio,
- Predrag Radivojac,
- Jeffrey Rogers,
- and Matthew W. Hahn
Genome Res. June 2020 30: 826-834; Published in Advance May 27, 2020, doi:10.1101/gr.255174.119
..., such a model is difficult to reconcile with the differences in substitution rates seen across primates. A damage-dependent model also need not be independent of the rate of cell division, as both the male mutation bias and paternal age effect can be explained if the accumulation of spontaneous mutations relies...
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Method: Quantification of somatic mutation flow across individual cell division events by lineage sequencing
- Yehuda Brody,
- Robert J. Kimmerling,
- Yosef E. Maruvka,
- David Benjamin,
- Juniper J. Elacqua,
- Nicholas J. Haradhvala,
- Jaegil Kim,
- Kent W. Mouw,
- Kristjana Frangaj,
- Amnon Koren,
- Gad Getz,
- Scott R. Manalis,
- and Paul C. Blainey
Genome Res. December 2018 28: 1901-1918; Published in Advance November 20, 2018, doi:10.1101/gr.238543.118
...dependencies between mutations, and to suggest mechanistic links between certain mutation sets.ResultsApplication of lineage sequencing to cultured human cellsTo demonstrate the lineage sequencing concept (Fig. 1), we selected two cell lines expected to exhibit different mutation rates and spectra. The human...
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