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For: Keightley PD, Halligan DL. Analysis and implications of mutational variation. Genetica 2008;136:359-69. [PMID: 18663587 DOI: 10.1007/s10709-008-9304-4] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2008] [Accepted: 07/16/2008] [Indexed: 11/25/2022]
Number Cited by Other Article(s)
1
Deng MZ, Liu Q, Cui SJ, Wang YX, Zhu G, Fu H, Gan M, Xu YY, Cai X, Wang S, Sha W, Zhao GP, Fortune SM, Lyu LD. An additional proofreader contributes to DNA replication fidelity in mycobacteria. Proc Natl Acad Sci U S A 2024;121:e2322938121. [PMID: 39141351 PMCID: PMC11348249 DOI: 10.1073/pnas.2322938121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2024] [Accepted: 07/08/2024] [Indexed: 08/15/2024]  Open
2
Jiang W, Lin T, Pan J, Rivera CE, Tincher C, Wang Y, Zhang Y, Gao X, Wang Y, Tsui HCT, Winkler ME, Lynch M, Long H. Spontaneous mutations and mutational responses to penicillin treatment in the bacterial pathogen Streptococcus pneumoniae D39. MARINE LIFE SCIENCE & TECHNOLOGY 2024;6:198-211. [PMID: 38827133 PMCID: PMC11136922 DOI: 10.1007/s42995-024-00220-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/19/2023] [Accepted: 03/04/2024] [Indexed: 06/04/2024]
3
Ingram D, Stan GB. Modelling genetic stability in engineered cell populations. Nat Commun 2023;14:3471. [PMID: 37308512 DOI: 10.1038/s41467-023-38850-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 05/19/2023] [Indexed: 06/14/2023]  Open
4
Kucukyildirim S, Ozdemirel HO, Lynch M. Similar mutation rates but different mutation spectra in moderate and extremely halophilic archaea. G3 (BETHESDA, MD.) 2023;13:jkac303. [PMID: 36519377 PMCID: PMC9997560 DOI: 10.1093/g3journal/jkac303] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2022] [Revised: 07/02/2021] [Accepted: 11/03/2022] [Indexed: 12/23/2022]
5
Johri P, Aquadro CF, Beaumont M, Charlesworth B, Excoffier L, Eyre-Walker A, Keightley PD, Lynch M, McVean G, Payseur BA, Pfeifer SP, Stephan W, Jensen JD. Recommendations for improving statistical inference in population genomics. PLoS Biol 2022;20:e3001669. [PMID: 35639797 PMCID: PMC9154105 DOI: 10.1371/journal.pbio.3001669] [Citation(s) in RCA: 57] [Impact Index Per Article: 28.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]  Open
6
Loss of Heterozygosity and Base Mutation Rates Vary Among Saccharomyces cerevisiae Hybrid Strains. G3-GENES GENOMES GENETICS 2020;10:3309-3319. [PMID: 32727920 PMCID: PMC7466981 DOI: 10.1534/g3.120.401551] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
7
Estimation of the Genome-Wide Mutation Rate and Spectrum in the Archaeal Species Haloferax volcanii. Genetics 2020;215:1107-1116. [PMID: 32513815 DOI: 10.1534/genetics.120.303299] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Accepted: 05/26/2020] [Indexed: 12/26/2022]  Open
8
Park Y, Kim Y. Partial protection from cyclical selection generates a high level of polymorphism at multiple non-neutral sites. Evolution 2019;73:1564-1577. [PMID: 31273751 DOI: 10.1111/evo.13792] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2018] [Accepted: 05/14/2019] [Indexed: 10/26/2022]
9
Bertram J, Masel J. Different mechanisms drive the maintenance of polymorphism at loci subject to strong versus weak fluctuating selection. Evolution 2019;73:883-896. [DOI: 10.1111/evo.13719] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Accepted: 02/17/2019] [Indexed: 12/19/2022]
10
Spatial Vulnerabilities of the Escherichia coli Genome to Spontaneous Mutations Revealed with Improved Duplex Sequencing. Genetics 2018;210:547-558. [PMID: 30076202 DOI: 10.1534/genetics.118.301345] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2018] [Accepted: 07/31/2018] [Indexed: 12/20/2022]  Open
11
Cannataro VL, McKinley SA, St Mary CM. The evolutionary trade-off between stem cell niche size, aging, and tumorigenesis. Evol Appl 2017;10:590-602. [PMID: 28616066 PMCID: PMC5469181 DOI: 10.1111/eva.12476] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2016] [Accepted: 02/28/2017] [Indexed: 12/18/2022]  Open
12
Lee H, Doak TG, Popodi E, Foster PL, Tang H. Insertion sequence-caused large-scale rearrangements in the genome of Escherichia coli. Nucleic Acids Res 2016;44:7109-19. [PMID: 27431326 PMCID: PMC5009759 DOI: 10.1093/nar/gkw647] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2016] [Accepted: 07/08/2016] [Indexed: 12/27/2022]  Open
13
Causes of natural variation in fitness: evidence from studies of Drosophila populations. Proc Natl Acad Sci U S A 2015;112:1662-9. [PMID: 25572964 DOI: 10.1073/pnas.1423275112] [Citation(s) in RCA: 130] [Impact Index Per Article: 14.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
14
The effects of demography and long-term selection on the accuracy of genomic prediction with sequence data. Genetics 2014;198:1671-84. [PMID: 25233989 DOI: 10.1534/genetics.114.168344] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]  Open
15
Abdollahi-Arpanahi R, Pakdel A, Nejati-Javaremi A, Shahrbabak MM, Ghafouri-Kesbi F. The relation between the genetic architecture of quantitative traits and long-term genetic response. J Appl Genet 2014;55:373-81. [PMID: 24671636 DOI: 10.1007/s13353-014-0205-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2013] [Revised: 12/29/2013] [Accepted: 03/03/2014] [Indexed: 11/25/2022]
16
Lee H, Popodi E, Foster PL, Tang H. Detection of structural variants involving repetitive regions in the reference genome. J Comput Biol 2014;21:219-33. [PMID: 24552580 DOI: 10.1089/cmb.2013.0129] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]  Open
17
Awad DA, Gallina S, Bonamy C, Billiard S. The interaction between selection, demography and selfing and how it affects population viability. PLoS One 2014;9:e86125. [PMID: 24465911 PMCID: PMC3897648 DOI: 10.1371/journal.pone.0086125] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2013] [Accepted: 12/07/2013] [Indexed: 11/18/2022]  Open
18
The nature and extent of mutational pleiotropy in gene expression of male Drosophila serrata. Genetics 2014;196:911-21. [PMID: 24402375 PMCID: PMC3948815 DOI: 10.1534/genetics.114.161232] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]  Open
19
Houle D, Fierst J. Properties of spontaneous mutational variance and covariance for wing size and shape in Drosophila melanogaster. Evolution 2012;67:1116-30. [PMID: 23550760 DOI: 10.1111/j.1558-5646.2012.01838.x] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
20
Agrawal AF, Whitlock MC. Mutation Load: The Fitness of Individuals in Populations Where Deleterious Alleles Are Abundant. ANNUAL REVIEW OF ECOLOGY EVOLUTION AND SYSTEMATICS 2012. [DOI: 10.1146/annurev-ecolsys-110411-160257] [Citation(s) in RCA: 137] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
21
Hidden epistastic interactions can favour the evolution of sex and recombination. PLoS One 2012. [PMID: 23185255 PMCID: PMC3504047 DOI: 10.1371/journal.pone.0048382] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]  Open
22
Rate and molecular spectrum of spontaneous mutations in the bacterium Escherichia coli as determined by whole-genome sequencing. Proc Natl Acad Sci U S A 2012;109:E2774-83. [PMID: 22991466 DOI: 10.1073/pnas.1210309109] [Citation(s) in RCA: 469] [Impact Index Per Article: 39.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
23
A resolution of the mutation load paradox in humans. Genetics 2012;191:1321-30. [PMID: 22661324 DOI: 10.1534/genetics.112.140343] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
24
Hill WG. Quantitative genetics in the genomics era. Curr Genomics 2012;13:196-206. [PMID: 23115521 PMCID: PMC3382274 DOI: 10.2174/138920212800543110] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2011] [Revised: 09/22/2011] [Accepted: 10/01/2011] [Indexed: 01/02/2023]  Open
25
Zhang XS. Fisher's geometrical model of fitness landscape and variance in fitness within a changing environment. Evolution 2012;66:2350-68. [PMID: 22834737 DOI: 10.1111/j.1558-5646.2012.01610.x] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
26
On the pleiotropic structure of the genotype-phenotype map and the evolvability of complex organisms. Genetics 2012;190:1131-7. [PMID: 22214609 DOI: 10.1534/genetics.111.135681] [Citation(s) in RCA: 69] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]  Open
27
Mallet MA, Kimber CM, Chippindale AK. Susceptibility of the male fitness phenotype to spontaneous mutation. Biol Lett 2011;8:426-9. [PMID: 22090202 DOI: 10.1098/rsbl.2011.0977] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]  Open
28
Experimental mutation-accumulation on the X chromosome of Drosophila melanogaster reveals stronger selection on males than females. BMC Evol Biol 2011;11:156. [PMID: 21645375 PMCID: PMC3134001 DOI: 10.1186/1471-2148-11-156] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2011] [Accepted: 06/06/2011] [Indexed: 12/11/2022]  Open
29
Association of bovine CD4 and STAT5b single nucleotide polymorphisms with somatic cell scores and milk production traits in Chinese Holsteins. J DAIRY RES 2011;78:242-9. [PMID: 21435309 DOI: 10.1017/s0022029911000148] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
30
Hill WG, Kirkpatrick M. What Animal Breeding Has Taught Us about Evolution. ANNUAL REVIEW OF ECOLOGY EVOLUTION AND SYSTEMATICS 2010. [DOI: 10.1146/annurev-ecolsys-102209-144728] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
31
Barton NH. Genetic linkage and natural selection. Philos Trans R Soc Lond B Biol Sci 2010;365:2559-69. [PMID: 20643746 PMCID: PMC2935107 DOI: 10.1098/rstb.2010.0106] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
32
Loewe L, Hill WG. The population genetics of mutations: good, bad and indifferent. Philos Trans R Soc Lond B Biol Sci 2010;365:1153-67. [PMID: 20308090 DOI: 10.1098/rstb.2009.0317] [Citation(s) in RCA: 119] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]  Open
33
Kondrashov FA, Kondrashov AS. Measurements of spontaneous rates of mutations in the recent past and the near future. Philos Trans R Soc Lond B Biol Sci 2010;365:1169-76. [PMID: 20308091 PMCID: PMC2871817 DOI: 10.1098/rstb.2009.0286] [Citation(s) in RCA: 72] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]  Open
34
Hill WG. Understanding and using quantitative genetic variation. Philos Trans R Soc Lond B Biol Sci 2010;365:73-85. [PMID: 20008387 PMCID: PMC2842708 DOI: 10.1098/rstb.2009.0203] [Citation(s) in RCA: 224] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]  Open
35
Halligan DL, Keightley PD. Spontaneous Mutation Accumulation Studies in Evolutionary Genetics. ANNUAL REVIEW OF ECOLOGY EVOLUTION AND SYSTEMATICS 2009. [DOI: 10.1146/annurev.ecolsys.39.110707.173437] [Citation(s) in RCA: 320] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
36
Marques AC, Ponting CP. Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness. Genome Biol 2009;10:R124. [PMID: 19895688 PMCID: PMC3091318 DOI: 10.1186/gb-2009-10-11-r124] [Citation(s) in RCA: 209] [Impact Index Per Article: 13.9] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2009] [Revised: 10/21/2009] [Accepted: 11/06/2009] [Indexed: 12/12/2022]  Open
37
Charlesworth D, Willis JH. The genetics of inbreeding depression. Nat Rev Genet 2009;10:783-96. [PMID: 19834483 DOI: 10.1038/nrg2664] [Citation(s) in RCA: 1119] [Impact Index Per Article: 74.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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