Michael Robert Lynch - Publications

Biology Indiana University, Bloomington, Bloomington, IN, United States 

275 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Zhang Y, Li H, Wang Y, Nie M, Zhang K, Pan J, Zhang Y, Ye Z, Zufall RA, Lynch M, Long H. Mitogenomic architecture and evolution of the soil ciliates . Msystems. e0116123. PMID 38259100 DOI: 10.1128/msystems.01161-23  0.357
2023 Lin T, Pan J, Gregory C, Wang Y, Tincher C, Rivera C, Lynch M, Long H, Zhang Y. Contribution of the SOS response and the DNA repair systems to norfloxacin induced mutations in . Marine Life Science & Technology. 5: 538-550. PMID 38045542 DOI: 10.1007/s42995-023-00185-y  0.312
2023 Long H, Johri P, Gout JF, Ni J, Hao Y, Licknack T, Wang Y, Pan J, Jiménez-Marín B, Lynch M. Genetics, Genomics, and Evolution. Annual Review of Genetics. 57: 391-410. PMID 38012024 DOI: 10.1146/annurev-genet-071819-104035  0.838
2023 Ye Z, Pfrender ME, Lynch M. Evolutionary Genomics of Sister Species Differing in Effective Population Sizes and Recombination Rates. Genome Biology and Evolution. PMID 37946625 DOI: 10.1093/gbe/evad202  0.776
2023 Ye Z, Wei W, Pfrender ME, Lynch M. Evolutionary Insights from a Large-Scale Survey of Population-Genomic Variation. Molecular Biology and Evolution. 40. PMID 37863047 DOI: 10.1093/molbev/msad233  0.795
2023 Lynch M, Ali F, Lin T, Wang Y, Ni J, Long H. The divergence of mutation rates and spectra across the Tree of Life. Embo Reports. e57561. PMID 37615267 DOI: 10.15252/embr.202357561  0.481
2023 Lynch M. Mutation pressure, drift, and the pace of molecular coevolution. Proceedings of the National Academy of Sciences of the United States of America. 120: e2306741120. PMID 37364099 DOI: 10.1073/pnas.2306741120  0.374
2023 Zhou X, Pan J, Wang Y, Lynch M, Long H, Zhang Y. de novo structural variations of Escherichia coli detected by Nanopore long-read sequencing. Genome Biology and Evolution. PMID 37293824 DOI: 10.1093/gbe/evad106  0.309
2023 Ye Z, Wei W, Pfrender M, Lynch M. Evolutionary Insights from a Large-scale Survey of Population-genomic Variation. Biorxiv : the Preprint Server For Biology. PMID 37205430 DOI: 10.1101/2023.05.03.539276  0.784
2023 Devi A, Speyer G, Lynch M. The Divergence of Mean Phenotypes Under Persistent Directional Selection. Genetics. PMID 37200616 DOI: 10.1093/genetics/iyad091  0.394
2023 Lynch M, Wei W, Ye Z, Pfrender M. The Genome-wide Signature of Short-term Temporal Selection. Biorxiv : the Preprint Server For Biology. PMID 37162919 DOI: 10.1101/2023.04.28.538790  0.777
2023 Gout JF, Hao Y, Johri P, Arnaiz O, Doak TG, Bhullar S, Couloux A, Guérin F, Malinsky S, Potekhin A, Sawka N, Sperling L, Labadie K, Meyer E, Duharcourt S, ... Lynch M, et al. Dynamics of gene loss following ancient whole-genome duplication in the cryptic Paramecium complex. Molecular Biology and Evolution. PMID 37154524 DOI: 10.1093/molbev/msad107  0.795
2023 Wu K, Li H, Wang Y, Liu D, Li H, Zhang Y, Lynch M, Long H. Silver nanoparticles elevate mutagenesis of eukaryotic genomes. G3 (Bethesda, Md.). PMID 36635051 DOI: 10.1093/g3journal/jkad008  0.359
2022 Lynch M, Trickovic B, Kempes CP. Evolutionary scaling of maximum growth rate with organism size. Scientific Reports. 12: 22586. PMID 36585440 DOI: 10.1038/s41598-022-23626-7  0.336
2022 Kucukyildirim S, Ozdemirel HO, Lynch M. Similar mutation rates but different mutation spectra in moderate and extremely halophilic archaea. G3 (Bethesda, Md.). PMID 36519377 DOI: 10.1093/g3journal/jkac303  0.398
2022 Lynch M, Ye Z, Urbany L, Maruki T, Wei W. The Linkage-disequilibrium and Recombinational Landscape in Daphnia pulex. Genome Biology and Evolution. PMID 36170345 DOI: 10.1093/gbe/evac145  0.36
2022 Wei W, Ho WC, Behringer MG, Miller SF, Bcharah G, Lynch M. Rapid evolution of mutation rate and spectrum in response to environmental and population-genetic challenges. Nature Communications. 13: 4752. PMID 35963846 DOI: 10.1038/s41467-022-32353-6  0.793
2022 Harrison JF, Biewener A, Bernhardt JR, Burger JR, Brown JH, Coto ZN, Duell ME, Lynch M, Moffett ER, Norin T, Pettersen AK, Smith FA, Somjee U, Traniello JFA, Williams TM. White Paper: An Integrated Perspective on the Causes of Hypometric Metabolic Scaling in Animals. Integrative and Comparative Biology. PMID 35933126 DOI: 10.1093/icb/icac136  0.445
2022 Maruki T, Ye Z, Lynch M. Evolutionary Genomics of a Subdivided Species. Molecular Biology and Evolution. 39. PMID 35895848 DOI: 10.1093/molbev/msac152  0.426
2022 Lynch M, Schavemaker PE, Licknack TJ, Hao Y, Pezzano A. Evolutionary bioenergetics of ciliates. The Journal of Eukaryotic Microbiology. e12934. PMID 35778890 DOI: 10.1111/jeu.12934  0.505
2022 Johri P, Gout JF, Doak TG, Lynch M. A population-genetic lens into the process of gene loss following whole-genome duplication. Molecular Biology and Evolution. PMID 35639978 DOI: 10.1093/molbev/msac118  0.786
2022 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 Biology. 20: e3001669. PMID 35639797 DOI: 10.1371/journal.pbio.3001669  0.815
2022 Behringer MG, Ho WC, Meraz JC, Miller SF, Boyer GF, Stone CJ, Andersen M, Lynch M. Complex Ecotype Dynamics Evolve in Response to Fluctuating Resources. Mbio. e0346721. PMID 35575545 DOI: 10.1128/mbio.03467-21  0.764
2022 Pan J, Li W, Ni J, Wu K, Konigsberg I, Rivera CE, Tincher C, Gregory C, Zhou X, Doak TG, Lee H, Wang Y, Gao X, Lynch M, Long H. Rates of mutations and transcript errors in the foodborne pathogen Salmonella enterica subsp. enterica. Molecular Biology and Evolution. PMID 35446958 DOI: 10.1093/molbev/msac081  0.399
2022 Ye Z, Zhao C, Raborn RT, Lin M, Wei W, Hao Y, Lynch M. Genetic Diversity, Heteroplasmy, and Recombination in Mitochondrial Genomes of Daphnia pulex, Daphnia pulicaria, and Daphnia obtusa. Molecular Biology and Evolution. 39. PMID 35325186 DOI: 10.1093/molbev/msac059  0.836
2021 Kucukyildirim S, Miller SF, Lynch M. Low base-substitution mutation rate and predominance of insertion-deletion events in the acidophilic bacterium . Ecology and Evolution. 11: 17609-17614. PMID 35003627 DOI: 10.1002/ece3.8429  0.387
2021 Ho WC, Behringer MG, Miller SF, Gonzales J, Nguyen A, Allahwerdy M, Boyer GF, Lynch M. Evolutionary Dynamics of Asexual Hypermutators Adapting to a Novel Environment. Genome Biology and Evolution. 13. PMID 34864972 DOI: 10.1093/gbe/evab257  0.806
2021 Ye Z, Jiang X, Pfrender ME, Lynch M. Genome-Wide Allele-Specific Expression in Obligately Asexual Daphnia pulex and the Implications for the Genetic Basis of Asexuality. Genome Biology and Evolution. 13. PMID 34726699 DOI: 10.1093/gbe/evab243  0.794
2021 Keith N, Jackson CE, Glaholt SP, Young K, Lynch M, Shaw JR. Genome-Wide Analysis of Cadmium-Induced, Germline Mutations in a Long-Term Mutation-Accumulation Experiment. Environmental Health Perspectives. 129: 107003. PMID 34623885 DOI: 10.1289/EHP8932  0.359
2021 Johri P, Charlesworth B, Howell EK, Lynch M, Jensen JD. Revisiting the Notion of Deleterious Sweeps. Genetics. PMID 34125884 DOI: 10.1093/genetics/iyab094  0.829
2021 Johri P, Charlesworth B, Howell EK, Lynch M, Jensen JD. Revisiting the Notion of Deleterious Sweeps. Genetics. PMID 34125884 DOI: 10.1093/genetics/iyab094  0.829
2021 Pan J, Williams E, Sung W, Lynch M, Long H. The insect-killing bacterium has the lowest mutation rate among bacteria. Marine Life Science & Technology. 3: 20-27. PMID 33791681 DOI: 10.1007/s42995-020-00060-0  0.355
2021 Zheng W, Wang C, Lynch M, Gao S. The Compact Macronuclear Genome of the Ciliate Halteria grandinella: A Transcriptome-Like Genome with 23,000 Nanochromosomes. Mbio. 12. PMID 33500338 DOI: 10.1128/mBio.01964-20  0.315
2020 Nguyen DT, Wu B, Long H, Zhang N, Patterson C, Simpson S, Morris K, Thomas WK, Lynch M, Hao W. Variable Spontaneous Mutation and Loss of Heterozygosity among Heterozygous Genomes in Yeast. Molecular Biology and Evolution. 37: 3118-3130. PMID 33219379 DOI: 10.1093/Molbev/Msaa150  0.502
2020 Jensen JD, Stikeleather RA, Kowalik TF, Lynch M. Imposed mutational meltdown as an antiviral strategy. Evolution; International Journal of Organic Evolution. PMID 33047822 DOI: 10.1111/evo.14107  0.557
2020 Fritts RK, Bird JT, Behringer MG, Lipzen A, Martin J, Lynch M, McKinlay JB. Enhanced nutrient uptake is sufficient to drive emergent cross-feeding between bacteria in a synthetic community. The Isme Journal. PMID 32788711 DOI: 10.1038/S41396-020-00737-5  0.712
2020 Kucukyildirim S, Behringer M, Sung W, Brock DA, Doak TG, Mergen H, Queller DC, Strassmann JC, Lynch M. Low Base-Substitution Mutation Rate but High Rate of Slippage Mutations in the Sequence Repeat-Rich Genome of . G3 (Bethesda, Md.). PMID 32732307 DOI: 10.1534/G3.120.401578  0.811
2020 Kucukyildirim S, Behringer M, Williams EM, Doak TG, Lynch M. Estimation of the Genome-Wide Mutation Rate and Spectrum in the Archaeal Species . Genetics. PMID 32513815 DOI: 10.1534/Genetics.120.303299  0.815
2020 Li W, Lynch M. Universally high transcript error rates in bacteria. Elife. 9. PMID 32469307 DOI: 10.7554/Elife.54898  0.319
2020 Lynch M. The evolutionary scaling of cellular traits imposed by the drift barrier. Proceedings of the National Academy of Sciences of the United States of America. PMID 32345718 DOI: 10.1073/Pnas.2000446117  0.474
2020 Jensen JD, Lynch M. Considering mutational meltdown as a potential SARS-CoV-2 treatment strategy. Heredity. PMID 32251365 DOI: 10.1038/S41437-020-0314-Z  0.594
2020 Lynch M, Ho WC. The Limits to Estimating Population-genetic Parameters with Temporal Data. Genome Biology and Evolution. PMID 32181820 DOI: 10.1093/Gbe/Evaa056  0.417
2020 Lynch M, Trickovic B. A Theoretical Framework for Evolutionary Cell Biology. Journal of Molecular Biology. PMID 32087200 DOI: 10.1016/J.Jmb.2020.02.006  0.399
2019 Lynch M, Haubold B, Pfaffelhuber P, Maruki T. Inference of Historical Population-Size Changes with Allele-Frequency Data. G3 (Bethesda, Md.). PMID 31699776 DOI: 10.1534/G3.119.400854  0.399
2019 Ye Z, Molinier C, Zhao C, Haag CR, Lynch M. Genetic control of male production in . Proceedings of the National Academy of Sciences of the United States of America. PMID 31320584 DOI: 10.1073/Pnas.1903553116  0.417
2019 Johri P, Marinov GK, Doak TG, Lynch M. Population genetics of Paramecium mitochondrial genomes: recombination, mutation spectrum, and efficacy of selection. Genome Biology and Evolution. PMID 30980669 DOI: 10.1093/Gbe/Evz081  0.798
2018 Jensen JD, Payseur BA, Stephan W, Aquadro CF, Lynch M, Charlesworth D, Charlesworth B. The importance of the neutral theory in 1968 and 50 years on: a response to Kern & Hahn 2018. Evolution; International Journal of Organic Evolution. PMID 30460993 DOI: 10.1111/Evo.13650  0.669
2018 Bright LJ, Lynch M. The Rab7 subfamily across Paramecium aurelia species; evidence of high conservation in sequence and function. Small Gtpases. 1-9. PMID 30156960 DOI: 10.1080/21541248.2018.1502056  0.412
2018 Dillon MM, Sung W, Lynch M, Cooper VS. Periodic Variation of Mutation Rates in Bacterial Genomes Associated with Replication Timing. Mbio. 9. PMID 30131359 DOI: 10.1128/Mbio.01371-18  0.512
2018 Jiang X, Tang H, Mohammed Ismail W, Lynch M. A maximum-likelihood approach to estimating the insertion frequencies of transposable elements from population sequencing data. Molecular Biology and Evolution. PMID 30099533 DOI: 10.1093/Molbev/Msy152  0.453
2018 Long H, Miller SF, Williams E, Lynch M. Specificity of the DNA mismatch repair system (MMR) and mutagenesis bias in bacteria. Molecular Biology and Evolution. PMID 29939310 DOI: 10.1093/Molbev/Msy134  0.445
2018 Lynch M. Phylogenetic divergence of cell biological features. Elife. 7. PMID 29927740 DOI: 10.7554/Elife.34820  0.43
2018 Long H, Doak TG, Lynch M. Limited Mutation-Rate Variation Within the Species Complex. G3 (Bethesda, Md.). PMID 29794165 DOI: 10.1534/G3.118.200420  0.49
2018 McCully AL, Behringer MG, Gliessman JR, Pilipenko EV, Mazny JL, Lynch M, Drummond DA, McKinlay JB. An nitrogen starvation response is important for mutualistic coexistence with . Applied and Environmental Microbiology. PMID 29728387 DOI: 10.1128/Aem.00404-18  0.745
2018 Behringer MG, Choi BI, Miller SF, Doak TG, Karty JA, Guo W, Lynch M. cultures maintain stable subpopulation structure during long-term evolution. Proceedings of the National Academy of Sciences of the United States of America. PMID 29712844 DOI: 10.1073/Pnas.1708371115  0.784
2018 Warren WC, García-Pérez R, Xu S, Lampert KP, Chalopin D, Stöck M, Loewe L, Lu Y, Kuderna L, Minx P, Montague MJ, Tomlinson C, Hillier LW, Murphy DN, Wang J, ... ... Lynch M, et al. Clonal polymorphism and high heterozygosity in the celibate genome of the Amazon molly. Nature Ecology & Evolution. PMID 29434351 DOI: 10.1038/S41559-018-0473-Y  0.478
2018 Senra MVX, Sung W, Ackerman M, Miller SF, Lynch M, Soares CAG. An unbiased genome-wide view of the mutation rate and spectrum of the endosymbiotic bacterium Teredinibacter turnerae. Genome Biology and Evolution. PMID 29415256 DOI: 10.1093/Gbe/Evy027  0.537
2018 Long H, Sung W, Kucukyildirim S, Williams E, Miller SF, Guo W, Patterson C, Gregory C, Strauss C, Stone C, Berne C, Kysela D, Shoemaker WR, Muscarella ME, Luo H, ... ... Lynch M, et al. Evolutionary determinants of genome-wide nucleotide composition. Nature Ecology & Evolution. PMID 29292397 DOI: 10.1038/S41559-017-0425-Y  0.682
2017 Gout JF, Li W, Fritsch C, Li A, Haroon S, Singh L, Hua D, Fazelinia H, Smith Z, Seeholzer S, Thomas K, Lynch M, Vermulst M. The landscape of transcription errors in eukaryotic cells. Science Advances. 3: e1701484. PMID 29062891 DOI: 10.1126/Sciadv.1701484  0.324
2017 Tincher C, Long H, Behringer M, Walker N, Lynch M. The Glyphosate-Based Herbicide Roundup Does not Elevate Genome-Wide Mutagenesis of Escherichia coli. G3 (Bethesda, Md.). 7: 3331-3335. PMID 28983068 DOI: 10.1534/G3.117.300133  0.788
2017 Strauss C, Long H, Patterson CE, Te R, Lynch M. Genome-Wide Mutation Rate Response to pH Change in the Coral Reef Pathogen Vibrio shilonii AK1. Mbio. 8. PMID 28830944 DOI: 10.1128/Mbio.01021-17  0.489
2017 Tincher C, Long H, Behringer MG, Walker N, Lynch M. The Glyphosate-Based Herbicide Roundup® Does Not Elevate Genome-Wide Mutagenesis of Escherichia coli. G3 (Bethesda, Md.). PMID 28794063 DOI: 10.1534/g3.117.300133  0.775
2017 Ackerman MS, Johri P, Spitze K, Xu S, Doak TG, Young K, Lynch M. Estimating Seven Coefficients of Pairwise Relatedness Using Population Genomic Data. Genetics. PMID 28341647 DOI: 10.1534/Genetics.116.190660  0.747
2017 Sun Y, Powell KE, Sung W, Lynch M, Moran MA, Luo H. Spontaneous mutations of a model heterotrophic marine bacterium. The Isme Journal. PMID 28323279 DOI: 10.1038/Ismej.2017.20  0.544
2017 Bright LJ, Gout JF, Lynch M. Early stages of functional diversification in the Rab GTPase gene family revealed by genomic and localization studies in Paramecium species. Molecular Biology of the Cell. PMID 28251922 DOI: 10.1091/Mbc.E16-06-0361  0.391
2017 Ye Z, Xu S, Spitze K, Asselman J, Jiang X, Ackerman MS, Lopez J, Harker B, Raborn RT, Thomas WK, Ramsdell J, Pfrender ME, Lynch M. A New Reference Genome Assembly for the Microcrustacean Daphnia pulex. G3 (Bethesda, Md.). PMID 28235826 DOI: 10.1534/G3.116.038638  0.824
2017 Johri P, Krenek S, Marinov K, Doak TG, Berendonk TU, Lynch M. Population genomics of Paramecium species. Molecular Biology and Evolution. PMID 28204679 DOI: 10.1093/Molbev/Msx074  0.793
2017 Maruki T, Lynch M. Genotype Calling from Population-Genomic Sequencing Data. G3 (Bethesda, Md.). PMID 28108551 DOI: 10.1534/G3.117.039008  0.378
2017 Jiang X, Tang H, Ye Z, Lynch M. Insertion polymorphisms of mobile genetic elements in sexual and asexual populations of Daphnia pulex. Genome Biology and Evolution. PMID 28057730 DOI: 10.1093/Gbe/Evw302  0.376
2016 Long H, Behringer MG, Williams E, Te R, Lynch M. Similar Mutation Rates but Highly Diverse Mutation Spectra in Ascomycete and Basidiomycete Yeasts. Genome Biology and Evolution. 8: 3815-3821. PMID 28173099 DOI: 10.1093/Gbe/Evw286  0.8
2016 Lynch M, Gutenkunst R, Ackerman M, Spitze K, Ye Z, Maruki T, Jia Z. Population Genomics of Daphnia pulex. Genetics. PMID 27932545 DOI: 10.1534/Genetics.116.190611  0.522
2016 Dillon MM, Sung W, Sebra R, Lynch M, Cooper VS. Genome-wide biases in the rate and molecular spectrum of spontaneous mutations in Vibrio cholerae and Vibrio fischeri. Molecular Biology and Evolution. PMID 27744412 DOI: 10.1093/Molbev/Msw224  0.537
2016 Lynch M, Ackerman MS, Gout JF, Long H, Sung W, Thomas WK, Foster PL. Genetic drift, selection and the evolution of the mutation rate. Nature Reviews. Genetics. 17: 704-714. PMID 27739533 DOI: 10.1038/Nrg.2016.104  0.496
2016 Lynch M. Mutation, Eugenics, and the Boundaries of Science. Genetics. 204: 825-827. PMID 27729497 DOI: 10.1534/Genetics.116.194621  0.359
2016 Long H, Winter DJ, Chang AY, Sung W, Wu SH, Balboa M, Azevedo RB, Cartwright RA, Lynch M, Zufall RA. Low base-substitution mutation rate in the germline genome of the ciliate Tetrahymena thermophila. Genome Biology and Evolution. PMID 27635054 DOI: 10.1093/Gbe/Evw223  0.479
2016 Raborn RT, Spitze K, Brendel VP, Lynch M. Promoter Architecture and Sex-Specific Gene Expression in Daphnia pulex. Genetics. PMID 27585846 DOI: 10.1534/Genetics.116.193334  0.779
2016 Sung W, Ackerman MS, Dillon MM, Platt TG, Fuqua C, Cooper VS, Lynch M. Evolution of the Insertion-Deletion Mutation Rate Across the Tree of Life. G3 (Bethesda, Md.). PMID 27317782 DOI: 10.1534/G3.116.030890  0.535
2016 Kucukyildirim S, Long H, Sung W, Miller SF, Doak TG, Lynch M. The Rate and Spectrum of Spontaneous Mutations in Mycobacterium smegmatis, a Bacterium Naturally Devoid of the Post-replicative Mismatch Repair Pathway. G3 (Bethesda, Md.). PMID 27194804 DOI: 10.1534/G3.116.030130  0.405
2016 Long H, Miller SF, Strauss C, Zhao C, Cheng L, Ye Z, Griffin K, Te R, Lee H, Chen CC, Lynch M. Antibiotic treatment enhances the genome-wide mutation rate of target cells. Proceedings of the National Academy of Sciences of the United States of America. PMID 27091991 DOI: 10.1073/Pnas.1601208113  0.481
2016 Marinov GK, Lynch M. Conservation and divergence of the histone code in nucleomorphs. Biology Direct. 11: 18. PMID 27048461 DOI: 10.1186/S13062-016-0119-4  0.383
2016 Lynch M. Mutation and Human Exceptionalism: Our Future Genetic Load. Genetics. 202: 869-75. PMID 26953265 DOI: 10.1534/Genetics.115.180471  0.486
2015 Lynch M, Marinov GK. The bioenergetic costs of a gene. Proceedings of the National Academy of Sciences of the United States of America. PMID 26575626 DOI: 10.1073/Pnas.1514974112  0.485
2015 Suzuki H, Dapper AL, Jackson CE, Lee H, Pejaver V, Doak TG, Lynch M, Preer JR. Draft Genome Sequence of Caedibacter varicaedens, a Kappa Killer Endosymbiont Bacterium of the Ciliate Paramecium biaurelia. Genome Announcements. 3. PMID 26543129 DOI: 10.1128/Genomea.01310-15  0.372
2015 Keith N, Tucker AE, Jackson CE, Sung W, Lledó JI, Schrider DR, Schaack S, Dudycha JL, Ackerman MS, Younge AJ, Shaw JR, Lynch M. High mutational rates of large-scale duplication and deletion in Daphnia pulex. Genome Research. PMID 26518480 DOI: 10.1101/Gr.191338.115  0.842
2015 Xu S, Spitze K, Ackerman MS, Ye Z, Bright L, Keith N, Jackson CE, Shaw JR, Lynch M. Hybridization and the origin of contagious asexuality in Daphnia pulex. Molecular Biology and Evolution. PMID 26351296 DOI: 10.1093/Molbev/Msv190  0.41
2015 Farlow A, Long H, Arnoux S, Sung W, Doak TG, Nordborg M, Lynch M. The Spontaneous Mutation Rate in the Fission Yeast Schizosaccharomyces pombe. Genetics. 201: 737-44. PMID 26265703 DOI: 10.1534/Genetics.115.177329  0.491
2015 Maruki T, Lynch M. Genotype-Frequency Estimation from High-Throughput Sequencing Data. Genetics. 201: 473-86. PMID 26224735 DOI: 10.1534/Genetics.115.179077  0.385
2015 Lynch M. Genetics: Feedforward loop for diversity. Nature. 523: 414-6. PMID 26176917 DOI: 10.1038/Nature14634  0.517
2015 Xu S, Ackerman MS, Long H, Bright L, Spitze K, Ramsdell JS, Thomas WK, Lynch M. A Male-Specific Genetic Map of the Microcrustacean Daphnia pulex Based on Single Sperm Whole-Genome Sequencing. Genetics. PMID 26116153 DOI: 10.1534/Genetics.115.179028  0.384
2015 Long H, Kucukyildirim S, Sung W, Williams E, Lee H, Ackerman M, Doak TG, Tang H, Lynch M. Background Mutational Features of the Radiation-Resistant Bacterium Deinococcus radiodurans. Molecular Biology and Evolution. PMID 25976352 DOI: 10.1093/Molbev/Msv119  0.364
2015 Dillon MM, Sung W, Lynch M, Cooper VS. The Rate and Molecular Spectrum of Spontaneous Mutations in the GC-Rich Multichromosome Genome of Burkholderia cenocepacia. Genetics. 200: 935-46. PMID 25971664 DOI: 10.1534/Genetics.115.176834  0.512
2015 Gout JF, Lynch M. Maintenance and Loss of Duplicated Genes by Dosage Subfunctionalization. Molecular Biology and Evolution. 32: 2141-8. PMID 25908670 DOI: 10.1093/Molbev/Msv095  0.403
2015 Sung W, Ackerman MS, Gout JF, Miller SF, Williams E, Foster PL, Lynch M. Asymmetric Context-Dependent Mutation Patterns Revealed through Mutation-Accumulation Experiments. Molecular Biology and Evolution. 32: 1672-83. PMID 25750180 DOI: 10.1093/Molbev/Msv055  0.46
2015 Long H, Sung W, Miller SF, Ackerman MS, Doak TG, Lynch M. Mutation rate, spectrum, topology, and context-dependency in the DNA mismatch repair-deficient Pseudomonas fluorescens ATCC948. Genome Biology and Evolution. 7: 262-71. PMID 25539726 DOI: 10.1093/Gbe/Evu284  0.492
2015 Lynch M, Hagner K. Evolutionary meandering of intermolecular interactions along the drift barrier. Proceedings of the National Academy of Sciences of the United States of America. 112: E30-8. PMID 25535374 DOI: 10.1073/Pnas.1421641112  0.341
2014 Sazer S, Lynch M, Needleman D. Deciphering the evolutionary history of open and closed mitosis. Current Biology : Cb. 24: R1099-103. PMID 25458223 DOI: 10.1016/J.Cub.2014.10.011  0.366
2014 Lynch M, Field MC, Goodson HV, Malik HS, Pereira-Leal JB, Roos DS, Turkewitz AP, Sazer S. Evolutionary cell biology: two origins, one objective. Proceedings of the National Academy of Sciences of the United States of America. 111: 16990-4. PMID 25404324 DOI: 10.1073/Pnas.1415861111  0.344
2014 Li W, Kuzoff R, Wong CK, Tucker A, Lynch M. Characterization of newly gained introns in Daphnia populations. Genome Biology and Evolution. 6: 2218-34. PMID 25123113 DOI: 10.1093/Gbe/Evu174  0.614
2014 McGrath CL, Gout JF, Johri P, Doak TG, Lynch M. Differential retention and divergent resolution of duplicate genes following whole-genome duplication. Genome Research. 24: 1665-75. PMID 25085612 DOI: 10.1101/Gr.173740.114  0.802
2014 Lynch M, Xu S, Maruki T, Jiang X, Pfaffelhuber P, Haubold B. Genome-wide linkage-disequilibrium profiles from single individuals. Genetics. 198: 269-81. PMID 24948778 DOI: 10.1534/Genetics.114.166843  0.484
2014 Maruki T, Lynch M. Genome-wide estimation of linkage disequilibrium from population-level high-throughput sequencing data. Genetics. 197: 1303-13. PMID 24875187 DOI: 10.1534/Genetics.114.165514  0.388
2014 McGrath CL, Gout JF, Doak TG, Yanagi A, Lynch M. Insights into three whole-genome duplications gleaned from the Paramecium caudatum genome sequence. Genetics. 197: 1417-28. PMID 24840360 DOI: 10.1534/Genetics.114.163287  0.741
2014 Lynch M, Bost D, Wilson S, Maruki T, Harrison S. Population-genetic inference from pooled-sequencing data. Genome Biology and Evolution. 6: 1210-8. PMID 24787620 DOI: 10.1093/Gbe/Evu085  0.378
2013 Gout JF, Thomas WK, Smith Z, Okamoto K, Lynch M. Large-scale detection of in vivo transcription errors. Proceedings of the National Academy of Sciences of the United States of America. 110: 18584-9. PMID 24167253 DOI: 10.1073/Pnas.1309843110  0.38
2013 Boscaro V, Felletti M, Vannini C, Ackerman MS, Chain PS, Malfatti S, Vergez LM, Shin M, Doak TG, Lynch M, Petroni G. Polynucleobacter necessarius, a model for genome reduction in both free-living and symbiotic bacteria. Proceedings of the National Academy of Sciences of the United States of America. 110: 18590-5. PMID 24167248 DOI: 10.1073/Pnas.1316687110  0.404
2013 Tucker AE, Ackerman MS, Eads BD, Xu S, Lynch M. Population-genomic insights into the evolutionary origin and fate of obligately asexual Daphnia pulex. Proceedings of the National Academy of Sciences of the United States of America. 110: 15740-5. PMID 23959868 DOI: 10.1073/Pnas.1313388110  0.55
2013 Xu S, Innes DJ, Lynch M, Cristescu ME. The role of hybridization in the origin and spread of asexuality in Daphnia. Molecular Ecology. 22: 4549-61. PMID 23879327 DOI: 10.1111/Mec.12407  0.353
2013 Lynch M. Evolutionary diversification of the multimeric states of proteins. Proceedings of the National Academy of Sciences of the United States of America. 110: E2821-8. PMID 23836639 DOI: 10.1073/Pnas.1310980110  0.389
2013 Catania F, McGrath CL, Doak TG, Lynch M. Spliced DNA sequences in the Paramecium germline: their properties and evolutionary potential. Genome Biology and Evolution. 5: 1200-11. PMID 23737328 DOI: 10.1093/Gbe/Evt087  0.723
2013 Schrider DR, Houle D, Lynch M, Hahn MW. Rates and genomic consequences of spontaneous mutational events in Drosophila melanogaster. Genetics. 194: 937-54. PMID 23733788 DOI: 10.1534/Genetics.113.151670  0.525
2013 Ibarra-Laclette E, Lyons E, Hernández-Guzmán G, Pérez-Torres CA, Carretero-Paulet L, Chang TH, Lan T, Welch AJ, Juárez MJ, Simpson J, Fernández-Cortés A, Arteaga-Vázquez M, Góngora-Castillo E, Acevedo-Hernández G, Schuster SC, ... ... Lynch M, et al. Architecture and evolution of a minute plant genome. Nature. 498: 94-8. PMID 23665961 DOI: 10.1038/Nature12132  0.405
2013 Sung W, Ackerman MS, Miller SF, Doak TG, Lynch M. Reply to Massey: Drift does influence mutation-rate evolution. Proceedings of the National Academy of Sciences of the United States of America. 110: E860. PMID 23593647 DOI: 10.1073/Pnas.1220650110  0.449
2013 Catania F, Lynch M. A simple model to explain evolutionary trends of eukaryotic gene architecture and expression: how competition between splicing and cleavage/polyadenylation factors may affect gene expression and splice-site recognition in eukaryotes. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 35: 561-70. PMID 23568225 DOI: 10.1002/Bies.201200127  0.344
2013 Raymann K, Bobay LM, Doak TG, Lynch M, Gribaldo S. A genomic survey of Reb homologs suggests widespread occurrence of R-bodies in proteobacteria. G3 (Bethesda, Md.). 3: 505-16. PMID 23450193 DOI: 10.1534/G3.112.005231  0.303
2013 Schaack S, Allen DE, Latta LC, Morgan KK, Lynch M. The effect of spontaneous mutations on competitive ability. Journal of Evolutionary Biology. 26: 451-6. PMID 23252614 DOI: 10.1111/Jeb.12058  0.816
2013 Latta LC, Morgan KK, Weaver CS, Allen D, Schaack S, Lynch M. Genomic background and generation time influence deleterious mutation rates in Daphnia. Genetics. 193: 539-44. PMID 23183667 DOI: 10.1534/Genetics.112.146571  0.823
2013 McGrath CL, Lynch M. Evolutionary significance of whole-genome duplication Polyploidy and Genome Evolution. 1-20. DOI: 10.1007/978-3-642-31442-1_1  0.72
2012 Sung W, Tucker AE, Doak TG, Choi E, Thomas WK, Lynch M. Extraordinary genome stability in the ciliate Paramecium tetraurelia. Proceedings of the National Academy of Sciences of the United States of America. 109: 19339-44. PMID 23129619 DOI: 10.1073/Pnas.1210663109  0.528
2012 Lynch M. Evolutionary layering and the limits to cellular perfection. Proceedings of the National Academy of Sciences of the United States of America. 109: 18851-6. PMID 23115338 DOI: 10.1073/Pnas.1216130109  0.396
2012 Sung W, Ackerman MS, Miller SF, Doak TG, Lynch M. Drift-barrier hypothesis and mutation-rate evolution. Proceedings of the National Academy of Sciences of the United States of America. 109: 18488-92. PMID 23077252 DOI: 10.1073/Pnas.1216223109  0.522
2012 Allen DE, Lynch M. The effect of variable frequency of sexual reproduction on the genetic structure of natural populations of a cyclical parthenogen. Evolution; International Journal of Organic Evolution. 66: 919-26. PMID 22380451 DOI: 10.1111/J.1558-5646.2011.01488.X  0.612
2012 Eads BD, Tsuchiya D, Andrews J, Lynch M, Zolan ME. The spread of a transposon insertion in Rec8 is associated with obligate asexuality in Daphnia. Proceedings of the National Academy of Sciences of the United States of America. 109: 858-63. PMID 22215604 DOI: 10.1073/Pnas.1119667109  0.431
2012 Lynch M. The evolution of multimeric protein assemblages. Molecular Biology and Evolution. 29: 1353-66. PMID 22144639 DOI: 10.1093/Molbev/Msr300  0.39
2012 Xu S, Schaack S, Seyfert A, Choi E, Lynch M, Cristescu ME. High mutation rates in the mitochondrial genomes of Daphnia pulex. Molecular Biology and Evolution. 29: 763-9. PMID 21998274 DOI: 10.1093/Molbev/Msr243  0.834
2012 Toline CA, Lynch M. Mutational divergence of life-history traits in an obligate parthenogen. Genome. 37: 33-5. PMID 18470059 DOI: 10.1139/G94-005  0.328
2011 Lynch M. The lower bound to the evolution of mutation rates. Genome Biology and Evolution. 3: 1107-18. PMID 21821597 DOI: 10.1093/Gbe/Evr066  0.475
2011 Lynch M, Bobay LM, Catania F, Gout JF, Rho M. The repatterning of eukaryotic genomes by random genetic drift. Annual Review of Genomics and Human Genetics. 12: 347-66. PMID 21756106 DOI: 10.1146/Annurev-Genom-082410-101412  0.527
2011 Lynch M. Statistical inference on the mechanisms of genome evolution. Plos Genetics. 7: e1001389. PMID 21695228 DOI: 10.1371/Journal.Pgen.1001389  0.537
2011 Fernández A, Lynch M. Non-adaptive origins of interactome complexity. Nature. 474: 502-5. PMID 21593762 DOI: 10.1038/Nature09992  0.481
2011 Lipinski KJ, Farslow JC, Fitzpatrick KA, Lynch M, Katju V, Bergthorsson U. High spontaneous rate of gene duplication in Caenorhabditis elegans. Current Biology : Cb. 21: 306-10. PMID 21295484 DOI: 10.1016/J.Cub.2011.01.026  0.784
2011 Colbourne JK, Pfrender ME, Gilbert D, Thomas WK, Tucker A, Oakley TH, Tokishita S, Aerts A, Arnold GJ, Basu MK, Bauer DJ, Cáceres CE, Carmel L, Casola C, Choi JH, ... ... Lynch M, et al. The ecoresponsive genome of Daphnia pulex. Science (New York, N.Y.). 331: 555-61. PMID 21292972 DOI: 10.1126/Science.1197761  0.789
2011 Lucas-Lledó JI, Maddamsetti R, Lynch M. Phylogenomic analysis of the uracil-DNA glycosylase superfamily. Molecular Biology and Evolution. 28: 1307-17. PMID 21135150 DOI: 10.1093/Molbev/Msq318  0.453
2010 Sung W, Tucker A, Bergeron RD, Lynch M, Thomas WK. Simple sequence repeat variation in the Daphnia pulex genome. Bmc Genomics. 11: 691. PMID 21129182 DOI: 10.1186/1471-2164-11-691  0.483
2010 Lynch M. Scaling expectations for the time to establishment of complex adaptations. Proceedings of the National Academy of Sciences of the United States of America. 107: 16577-82. PMID 20823237 DOI: 10.1073/Pnas.1010836107  0.466
2010 Rho M, Schaack S, Gao X, Kim S, Lynch M, Tang H. LTR retroelements in the genome of Daphnia pulex. Bmc Genomics. 11: 425. PMID 20618961 DOI: 10.1186/1471-2164-11-425  0.821
2010 Lynch M. Evolution of the mutation rate. Trends in Genetics : Tig. 26: 345-52. PMID 20594608 DOI: 10.1016/J.Tig.2010.05.003  0.517
2010 Gleick PH, Adams RM, Amasino RM, Anders E, Anderson DJ, Anderson WW, Anselin LE, Arroyo MK, Asfaw B, Ayala FJ, Bax A, Bebbington AJ, Bell G, Bennett MV, Bennetzen JL, ... ... Lynch M, et al. Climate change and the integrity of science. Science (New York, N.Y.). 328: 689-90. PMID 20448167 DOI: 10.1126/Science.328.5979.689  0.394
2010 Catania F, Lynch M. Evolutionary dynamics of a conserved sequence motif in the ribosomal genes of the ciliate Paramecium. Bmc Evolutionary Biology. 10: 129. PMID 20441586 DOI: 10.1186/1471-2148-10-129  0.373
2010 Schaack S, Choi E, Lynch M, Pritham EJ. DNA transposons and the role of recombination in mutation accumulation in Daphnia pulex. Genome Biology. 11: R46. PMID 20433697 DOI: 10.1186/Gb-2010-11-4-R46  0.812
2010 Schaack S, Pritham EJ, Wolf A, Lynch M. DNA transposon dynamics in populations of Daphnia pulex with and without sex. Proceedings. Biological Sciences / the Royal Society. 277: 2381-7. PMID 20356890 DOI: 10.1098/Rspb.2009.2253  0.802
2010 Haubold B, Pfaffelhuber P, Lynch M. mlRho - a program for estimating the population mutation and recombination rates from shotgun-sequenced diploid genomes. Molecular Ecology. 19: 277-84. PMID 20331786 DOI: 10.1111/J.1365-294X.2009.04482.X  0.437
2010 Lynch M, Abegg A. The rate of establishment of complex adaptations. Molecular Biology and Evolution. 27: 1404-14. PMID 20118190 DOI: 10.1093/Molbev/Msq020  0.492
2010 Lynch M. Rate, molecular spectrum, and consequences of human mutation Proceedings of the National Academy of Sciences of the United States of America. 107: 961-968. PMID 20080596 DOI: 10.1073/Pnas.0912629107  0.504
2010 Ossowski S, Schneeberger K, Lucas-Lledó JI, Warthmann N, Clark RM, Shaw RG, Weigel D, Lynch M. The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana. Science (New York, N.Y.). 327: 92-4. PMID 20044577 DOI: 10.1126/Science.1180677  0.464
2009 Rho M, Zhou M, Gao X, Kim S, Tang H, Lynch M. Independent mammalian genome contractions following the KT boundary. Genome Biology and Evolution. 1: 2-12. PMID 20333172 DOI: 10.1093/Gbe/Evp007  0.453
2009 Li W, Tucker AE, Sung W, Thomas WK, Lynch M. Extensive, recent intron gains in Daphnia populations. Science (New York, N.Y.). 326: 1260-2. PMID 19965475 DOI: 10.1126/Science.1179302  0.649
2009 Gao X, Lynch M. Ubiquitous internal gene duplication and intron creation in eukaryotes Proceedings of the National Academy of Sciences of the United States of America. 106: 20818-20823. PMID 19926850 DOI: 10.1073/Pnas.0911093106  0.407
2009 Denver DR, Dolan PC, Wilhelm LJ, Sung W, Lucas-Lledó JI, Howe DK, Lewis SC, Okamoto K, Thomas WK, Lynch M, Baer CF. A genome-wide view of Caenorhabditis elegans base-substitution mutation processes. Proceedings of the National Academy of Sciences of the United States of America. 106: 16310-4. PMID 19805298 DOI: 10.1073/Pnas.0904895106  0.771
2009 Peñalva-Arana DC, Lynch M, Robertson HM. The chemoreceptor genes of the waterflea Daphnia pulex: many Grs but no Ors. Bmc Evolutionary Biology. 9: 79. PMID 19383158 DOI: 10.1186/1471-2148-9-79  0.4
2009 Omilian AR, Lynch M. Patterns of intraspecific DNA variation in the Daphnia nuclear genome. Genetics. 182: 325-36. PMID 19304589 DOI: 10.1534/Genetics.108.099549  0.747
2009 Lynch M. Estimation of allele frequencies from high-coverage genome-sequencing projects. Genetics. 182: 295-301. PMID 19293142 DOI: 10.1534/Genetics.109.100479  0.424
2009 Lucas-Lledó JI, Lynch M. Evolution of mutation rates: phylogenomic analysis of the photolyase/cryptochrome family. Molecular Biology and Evolution. 26: 1143-53. PMID 19228922 DOI: 10.1093/Molbev/Msp029  0.478
2009 Catania F, Lynch M. Where do introns come from? Plos Biology. 6: e283. PMID 19067485 DOI: 10.1371/Journal.Pbio.0060283  0.436
2009 Catania F, Wurmser F, Potekhin AA, Przyboś E, Lynch M. Genetic diversity in the Paramecium aurelia species complex Molecular Biology and Evolution. 26: 421-431. PMID 19023087 DOI: 10.1093/Molbev/Msn266  0.378
2008 Lynch M. The cellular, developmental and population-genetic determinants of mutation-rate evolution. Genetics. 180: 933-43. PMID 18757919 DOI: 10.1534/Genetics.108.090456  0.498
2008 Lynch M. Estimation of nucleotide diversity, disequilibrium coefficients, and mutation rates from high-coverage genome-sequencing projects. Molecular Biology and Evolution. 25: 2409-19. PMID 18725384 DOI: 10.1093/Molbev/Msn185  0.501
2008 Haag-Liautard C, Coffey N, Houle D, Lynch M, Charlesworth B, Keightley PD. Direct estimation of the mitochondrial DNA mutation rate in Drosophila melanogaster. Plos Biology. 6: e204. PMID 18715119 DOI: 10.1371/Journal.Pbio.0060204  0.49
2008 Lynch M, Seyfert A, Eads B, Williams E. Localization of the genetic determinants of meiosis suppression in Daphnia pulex. Genetics. 180: 317-27. PMID 18689898 DOI: 10.1534/Genetics.107.084657  0.386
2008 Omilian AR, Scofield DG, Lynch M. Intron presence-absence polymorphisms in Daphnia. Molecular Biology and Evolution. 25: 2129-39. PMID 18667441 DOI: 10.1093/Molbev/Msn164  0.712
2008 Lynch M, Sung W, Morris K, Coffey N, Landry CR, Dopman EB, Dickinson WJ, Okamoto K, Kulkarni S, Hartl DL, Thomas WK. A genome-wide view of the spectrum of spontaneous mutations in yeast. Proceedings of the National Academy of Sciences of the United States of America. 105: 9272-7. PMID 18583475 DOI: 10.1073/Pnas.0803466105  0.543
2008 Allen DE, Lynch M. Both costs and benefits of sex correlate with relative frequency of asexual reproduction in cyclically parthenogenic Daphnia pulicaria populations. Genetics. 179: 1497-502. PMID 18562659 DOI: 10.1534/Genetics.107.082479  0.631
2008 Seyfert AL, Cristescu ME, Frisse L, Schaack S, Thomas WK, Lynch M. The rate and spectrum of microsatellite mutation in Caenorhabditis elegans and Daphnia pulex. Genetics. 178: 2113-21. PMID 18430937 DOI: 10.1534/Genetics.107.081927  0.825
2007 Lynch M. The evolution of genetic networks by non-adaptive processes Nature Reviews Genetics. 8: 803-813. PMID 17878896 DOI: 10.1038/Nrg2192  0.371
2007 Lynch M. The frailty of adaptive hypotheses for the origins of organismal complexity Proceedings of the National Academy of Sciences of the United States of America. 104: 8597-8604. PMID 17494740 DOI: 10.1073/Pnas.0702207104  0.518
2007 Rho M, Choi JH, Kim S, Lynch M, Tang H. De novo identification of LTR retrotransposons in eukaryotic genomes Bmc Genomics. 8. PMID 17407597 DOI: 10.1186/1471-2164-8-90  0.357
2007 Scofield DG, Hong X, Lynch M. Position of the final intron in full-length transcripts: Determined by NMD? Molecular Biology and Evolution. 24: 896-899. PMID 17244600 DOI: 10.1093/Molbev/Msm010  0.337
2007 Omilian AR, Cristescu MEA, Dudycha JL, Lynch M. Erratum: Ameiotic recombination in asexual lineages of Daphnia (Proceedings of the National Academy of Sciences of the United States of America (December 5, 2006) 103, 49 (18638-18643) DOI: 10.1073/pnas.0606435103) Proceedings of the National Academy of Sciences of the United States of America. 104. DOI: 10.1073/Pnas.0611148104  0.6
2006 Omilian AR, Cristescu ME, Dudycha JL, Lynch M. Ameiotic recombination in asexual lineages of Daphnia. Proceedings of the National Academy of Sciences of the United States of America. 103: 18638-43. PMID 17121990 DOI: 10.1073/Pnas.0606435103  0.738
2006 Snoke MS, Berendonk TU, Barth D, Lynch M. Large global effective population sizes in Paramecium Molecular Biology and Evolution. 23: 2474-2479. PMID 16987953 DOI: 10.1093/Molbev/Msl128  0.367
2006 Hong X, Scofield DG, Lynch M. Intron size, abundance, and distribution within untranslated regions of genes Molecular Biology and Evolution. 23: 2392-2404. PMID 16980575 DOI: 10.1093/Molbev/Msl111  0.407
2006 Lynch M. Streamlining and simplification of microbial genome architecture Annual Review of Microbiology. 60: 327-349. PMID 16824010 DOI: 10.1146/Annurev.Micro.60.080805.142300  0.536
2006 Denver DR, Feinberg S, Steding C, Durbin M, Lynch M. The relative roles of three DNA repair pathways in preventing Caenorhabditis elegans mutation accumulation Genetics. 174: 57-65. PMID 16783005 DOI: 10.1534/Genetics.106.059840  0.432
2006 Cristescu MEA, Colbourne JK, Radivojac J, Lynch M. A microsatellite-based genetic linkage map of the waterflea, Daphnia pulex: On the prospect of crustacean genomics Genomics. 88: 415-430. PMID 16624519 DOI: 10.1016/J.Ygeno.2006.03.007  0.341
2006 Lynch M, Koskella B, Schaack S. Mutation pressure and the evolution of organelle genomic architecture. Science (New York, N.Y.). 311: 1727-30. PMID 16556832 DOI: 10.1126/Science.1118884  0.846
2006 Katju V, Lynch M. On the formation of novel genes by duplication in the Caenorhabditis elegans genome. Molecular Biology and Evolution. 23: 1056-67. PMID 16500928 DOI: 10.1093/Molbev/Msj114  0.755
2006 Paland S, Lynch M. Transitions to asexuality result in excess amino acid substitutions Science. 311: 990-992. PMID 16484491 DOI: 10.1126/Science.1118152  0.436
2006 Lynch M. The origins of eukaryotic gene structure Molecular Biology and Evolution. 23: 450-468. PMID 16280547 DOI: 10.1093/Molbev/Msj050  0.538
2006 Paland S, Lynch M. Response to Comment on ``Transitions to Asexuality Result in Excess Amino Acid Substitutions'' Science. 313: 1389-1389. DOI: 10.1126/Science.1128745  0.402
2005 Lynch M, Behe MJ, Snoke DW. Simple evolutionary pathways to complex proteins Protein Science. 14: 2217-2227. PMID 16131652 DOI: 10.1110/Ps.041171805  0.365
2005 Denver DR, Morris K, Streelman JT, Kim SK, Lynch M, Thomas WK. The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans Nature Genetics. 37: 544-548. PMID 15852004 DOI: 10.1038/Ng1554  0.452
2005 Ajie BC, Estes S, Lynch M, Phillips PC. Behavioral degradation under mutation accumulation in Caenorhabditis elegans. Genetics. 170: 655-60. PMID 15834141 DOI: 10.1534/Genetics.104.040014  0.48
2005 Estes S, Ajie BC, Lynch M, Phillips PC. Spontaneous mutational correlations for life-history, morphological and behavioral characters in Caenorhabditis elegans. Genetics. 170: 645-53. PMID 15834140 DOI: 10.1534/Genetics.104.040022  0.458
2005 Baer CF, Shaw F, Steding C, Baumgartner M, Hawkins A, Houppert A, Mason N, Reed M, Simonelic K, Woodard W, Lynch M. Comparative evolutionary genetics of spontaneous mutations affecting fitness in rhabditid nematodes. Proceedings of the National Academy of Sciences of the United States of America. 102: 5785-90. PMID 15809433 DOI: 10.1073/Pnas.0406056102  0.759
2005 Force A, Cresko WA, Pickett FB, Proulx SR, Amemiya C, Lynch M. The origin of subfunctions and modular gene regulation. Genetics. 170: 433-46. PMID 15781713 DOI: 10.1534/Genetics.104.027607  0.511
2005 Denver DR, Feinberg S, Estes S, Thomas WK, Lynch M. Mutation rates, spectra and hotspots in mismatch repair-deficient Caenorhabditis elegans. Genetics. 170: 107-13. PMID 15716493 DOI: 10.1534/Genetics.104.038521  0.476
2005 Lynch M, Scofield DG, Hong X. The evolution of transcription-initiation sites Molecular Biology and Evolution. 22: 1137-1146. PMID 15689525 DOI: 10.1093/Molbev/Msi100  0.489
2005 Paland S, Colbourne JK, Lynch M. EVOLUTIONARY HISTORY OF CONTAGIOUS ASEXUALITY IN DAPHNIA PULEX Evolution. 59: 800. DOI: 10.1111/J.0014-3820.2005.Tb01754.X  0.379
2004 Lynch M, Katju V. The altered evolutionary trajectories of gene duplicates. Trends in Genetics : Tig. 20: 544-9. PMID 15475113 DOI: 10.1016/J.Tig.2004.09.001  0.775
2004 Denver DR, Morris K, Lynch M, Thomas WK. High mutation rate and predominance of insertions in the Caenohabditis elegans nuclear genome Nature. 430: 679-682. PMID 15295601 DOI: 10.1038/Nature02697  0.516
2004 Denver DR, Morris K, Kewalramani A, Harris KE, Chow A, Estes S, Lynch M, Thomas WK. Abundance, distribution, and mutation rates of homopolymeric nucleotide runs in the genome of Caenorhabditis elegans. Journal of Molecular Evolution. 58: 584-95. PMID 15170261 DOI: 10.1007/S00239-004-2580-4  0.436
2004 Estes S, Phillips PC, Denver DR, Thomas WK, Lynch M. Mutation accumulation in populations of varying size: the distribution of mutational effects for fitness correlates in Caenorhabditis elegans. Genetics. 166: 1269-79. PMID 15082546 DOI: 10.1534/Genetics.166.3.1269  0.491
2004 Pfrender ME, Hicks J, Lynch M. Biogeographic patterns and current distribution of molecular-genetic variation among populations of speckled dace, Rhinichthys osculus (Girard). Molecular Phylogenetics and Evolution. 30: 490-502. PMID 15012934 DOI: 10.1016/S1055-7903(03)00242-2  0.773
2004 Housworth EA, Martins EP, Lynch M. The phylogenetic mixed model. The American Naturalist. 163: 84-96. PMID 14767838 DOI: 10.1086/380570  0.6
2004 Lynch M. Response to Comment on "The Origins of Genome Complexity" Science. 306: 978b-978b. DOI: 10.1126/Science.1100559  0.352
2004 Colbourne JK, Robison B, Bogart K, Lynch M. Five hundred and twenty-eight microsatellite markers for ecological genomic investigations using Daphnia Molecular Ecology Notes. 4: 485-490. DOI: 10.1111/J.1471-8286.2004.00721.X  0.47
2003 Katju V, Lynch M. The structure and early evolution of recently arisen gene duplicates in the Caenorhabditis elegans genome. Genetics. 165: 1793-803. PMID 14704166  0.742
2003 Lynch M, Conery JS. The Origins of Genome Complexity Science. 302: 1401-1404. PMID 14631042 DOI: 10.1126/Science.1089370  0.486
2003 Baer CF, Lynch M. Correlated evolution of life-history with size at maturity in Daphnia pulicaria: patterns within and between populations. Genetical Research. 81: 123-32. PMID 12872914 DOI: 10.1017/S0016672303006098  0.728
2003 Estes S, Lynch M. Rapid fitness recovery in mutationally degraded lines of Caenorhabditis elegans. Evolution; International Journal of Organic Evolution. 57: 1022-30. PMID 12836820 DOI: 10.1111/J.0014-3820.2003.Tb00313.X  0.47
2003 Lynch M, Conery JS. The evolutionary demography of duplicate genes Journal of Structural and Functional Genomics. 3: 35-44. PMID 12836683 DOI: 10.1023/A:1022696612931  0.453
2003 Denver DR, Swenson SL, Lynch M. An evolutionary analysis of the helix-hairpin-helix superfamily of DNA repair glycosylases. Molecular Biology and Evolution. 20: 1603-11. PMID 12832627 DOI: 10.1093/molbev/msg177  0.322
2003 Keightley PD, Lynch M. Toward a realistic model of mutations affecting fitness Evolution. 57: 683-685. PMID 12703958 DOI: 10.1111/J.0014-3820.2003.Tb01561.X  0.407
2003 Lynch M, Kewalramani A. Messenger RNA surveillance and the evolutionary proliferation of introns Molecular Biology and Evolution. 20: 563-571. PMID 12654936 DOI: 10.1093/Molbev/Msg068  0.41
2003 Denver DR, Swenson SL, Lynch M. An evolutionary analysis of the helix-hairpin-helix superfamily of DNA repair glycosylases Molecular Biology and Evolution. 20: 1603-1611. DOI: 10.1093/Molbev/Msg177  0.434
2002 Lynch M, Richardson AO. The evolution of spliceosomal introns. Current Opinion in Genetics & Development. 12: 701-10. PMID 12433585 DOI: 10.1016/S0959-437X(02)00360-X  0.512
2002 Azevedo RB, Keightley PD, Laurén-Määttä C, Vassilieva LL, Lynch M, Leroi AM. Spontaneous mutational variation for body size in Caenorhabditis elegans. Genetics. 162: 755-65. PMID 12399386  0.365
2002 Lynch M. Genomics: Gene duplication and evolution Science. 297: 945-947. PMID 12169715 DOI: 10.1126/Science.1075472  0.379
2002 Lynch M. Intron evolution as a population-genetic process Proceedings of the National Academy of Sciences of the United States of America. 99: 6118-6123. PMID 11983904 DOI: 10.1073/Pnas.092595699  0.517
2002 Jackson RB, Linder CR, Lynch M, Purugganan M, Somerville S, Thayer SS. Linking molecular insight and ecological research Trends in Ecology and Evolution. 17: 409-414. DOI: 10.1016/S0169-5347(02)02571-5  0.385
2001 Morgan KK, Hicks J, Spitze K, Latta L, Pfrender ME, Weaver CS, Ottone M, Lynch M. Patterns of genetic architecture for life-history traits and molecular markers in a subdivided species. Evolution; International Journal of Organic Evolution. 55: 1753-61. PMID 11681731 DOI: 10.1111/J.0014-3820.2001.Tb00825.X  0.809
2001 Higgins K, Lynch M. Metapopulation extinction caused by mutation accumulation Proceedings of the National Academy of Sciences of the United States of America. 98: 2928-2933. PMID 11226343 DOI: 10.1073/Pnas.031358898  0.459
2001 Lynch M, O'Hely M. Captive breeding and the genetic fitness of natural populations Conservation Genetics. 2: 363-378. DOI: 10.1023/A:1012550620717  0.423
2001 Lynch M. The molecular natural history of the human genome Trends in Ecology and Evolution. 16: 420-422. DOI: 10.1016/S0169-5347(01)02242-X  0.387
2000 Lynch M, Force AG. The Origin of Interspecific Genomic Incompatibility via Gene Duplication. The American Naturalist. 156: 590-605. PMID 29592543 DOI: 10.1086/316992  0.48
2000 Pfrender ME, Lynch M. Quantitative genetic variation in Daphnia: temporal changes in genetic architecture. Evolution; International Journal of Organic Evolution. 54: 1502-9. PMID 11108579 DOI: 10.1111/J.0014-3820.2000.Tb00696.X  0.764
2000 Lynch M, Conery JS. The evolutionary fate and consequences of duplicate genes Science. 290: 1151-1155. PMID 11073452 DOI: 10.1126/Science.290.5494.1151  0.388
2000 Denver DR, Morris K, Lynch M, Vassilieva LL, Thomas WK. High direct estimate of the mutation rate in the mitochondrial genome of Caenorhabditis elegans Science. 289: 2342-2344. PMID 11009418 DOI: 10.1126/Science.289.5488.2342  0.507
2000 Vassilieva LL, Hook AM, Lynch M. The fitness effects of spontaneous mutations in Caenorhabditis elegans Evolution. 54: 1234-1246. PMID 11005291 DOI: 10.1111/J.0014-3820.2000.Tb00557.X  0.503
2000 Blanchard JL, Lynch M. Organellar genes. Why do they end up in the nucleus? Trends in Genetics. 16: 315-320. PMID 10858662 DOI: 10.1016/S0168-9525(00)02053-9  0.383
2000 Pfrender ME, Spitze K, Hicks J, Morgan K, Latta L, Lynch M. Lack of concordance between genetic diversity estimates at the molecular and quantitative-trait levels Conservation Genetics. 1: 263-269. DOI: 10.1023/A:1011518125488  0.8
1999 Lynch M, Blanchard J, Houle D, Kibota T, Schultz S, Vassilieva L, Willis J. PERSPECTIVE: SPONTANEOUS DELETERIOUS MUTATION. Evolution; International Journal of Organic Evolution. 53: 645-663. PMID 28565627 DOI: 10.1111/J.1558-5646.1999.Tb05361.X  0.7
1999 Lynch M. The age and relationships of the major animal phyla Evolution. 53: 319-325. PMID 28565434 DOI: 10.1111/J.1558-5646.1999.Tb03768.X  0.36
1999 Lynch M, Pfrender M, Spitze K, Lehman N, Hicks J, Allen D, Latta L, Ottene M, Bogue F, Colbourne J. THE QUANTITATIVE AND MOLECULAR GENETIC ARCHITECTURE OF A SUBDIVIDED SPECIES. Evolution; International Journal of Organic Evolution. 53: 100-110. PMID 28565177 DOI: 10.1111/J.1558-5646.1999.Tb05336.X  0.819
1999 Lynch M. Estimating genetic correlations in natural populations Genetical Research. 74: 255-264. PMID 10689802 DOI: 10.1017/S0016672399004243  0.386
1999 Schultz ST, Lynch M, Willis JH. Spontaneous deleterious mutation in Arabidopsis thaliana. Proceedings of the National Academy of Sciences of the United States of America. 96: 11393-8. PMID 10500187 DOI: 10.1073/Pnas.96.20.11393  0.657
1999 Conery JS, Lynch M. Genetic Simulation Library Bioinformatics. 15: 85-86. PMID 10068695 DOI: 10.1093/Bioinformatics/15.1.85  0.365
1999 Mackay TFC, Lynch M, Walsh B. Quantitative Genetics Evolution. 53: 307. DOI: 10.2307/2640946  0.331
1998 Lynch M, Latta L, Hicks J, Giorgianni M. MUTATION, SELECTION, AND THE MAINTENANCE OF LIFE-HISTORY VARIATION IN A NATURAL POPULATION. Evolution; International Journal of Organic Evolution. 52: 727-733. PMID 28565240 DOI: 10.1111/J.1558-5646.1998.Tb03697.X  0.838
1998 Lynch M, Lande R. The critical effective size for a genetically secure population Animal Conservation. 1: 70-72. DOI: 10.1111/J.1469-1795.1998.Tb00229.X  0.385
1998 Lynch M, Blanchard JL. Deleterious mutation accumulation in organelle genomes Genetica. 102: 29-39. DOI: 10.1023/A:1017022522486  0.547
1998 Deng HW, Fu YX, Lynch M. Inferring the major genomic mode of dominance and overdominance Genetica. 102: 559-567. DOI: 10.1007/978-94-011-5210-5_42  0.434
1997 Schultz ST, Lynch M. MUTATION AND EXTINCTION: THE ROLE OF VARIABLE MUTATIONAL EFFECTS, SYNERGISTIC EPISTASIS, BENEFICIAL MUTATIONS, AND DEGREE OF OUTCROSSING. Evolution; International Journal of Organic Evolution. 51: 1363-1371. PMID 28568635 DOI: 10.1111/J.1558-5646.1997.Tb01459.X  0.467
1997 Lynch M. Mutation accumulation in nuclear, organelle, and prokaryotic transfer RNA genes. Molecular Biology and Evolution. 14: 914-925. PMID 9287424 DOI: 10.1093/Oxfordjournals.Molbev.A025834  0.513
1997 Crease TJ, Lee SK, Yu SL, Spitze K, Lehman N, Lynch M. Allozyme and mtDNA variation in populations of the Daphnia pulex complex from both sides of the Rocky Mountains Heredity. 79: 242-251. DOI: 10.1038/Hdy.1997.151  0.361
1996 Kibota TT, Lynch M. Estimate of the genomic mutation rate deleterious to overall fitness in E. coli. Nature. 381: 694-6. PMID 8649513 DOI: 10.1038/381694A0  0.518
1996 Lynch M. Mutation accumulation in transfer RNAs: molecular evidence for Muller's ratchet in mitochondrial genomes. Molecular Biology and Evolution. 13: 209-220. PMID 8583893 DOI: 10.1093/Oxfordjournals.Molbev.A025557  0.447
1995 Bürger R, Lynch M. EVOLUTION AND EXTINCTION IN A CHANGING ENVIRONMENT: A QUANTITATIVE-GENETIC ANALYSIS. Evolution; International Journal of Organic Evolution. 49: 151-163. PMID 28593664 DOI: 10.1111/J.1558-5646.1995.Tb05967.X  0.474
1995 Lynch M, Conery J, Bürger R. MUTATIONAL MELTDOWNS IN SEXUAL POPULATIONS. Evolution; International Journal of Organic Evolution. 49: 1067-1080. PMID 28568521 DOI: 10.1111/J.1558-5646.1995.Tb04434.X  0.473
1995 Lehman N, Pfrender ME, Morin PA, Crease TJ, Lynch M. A hierarchical molecular phylogeny within the genus Daphnia. Molecular Phylogenetics and Evolution. 4: 395-407. PMID 8747296 DOI: 10.1006/Mpev.1995.1037  0.752
1995 Lynch M, Conery J, Burger R. Mutation accumulation and the extinction of small populations American Naturalist. 146: 489-518. DOI: 10.1086/285812  0.485
1994 Lynch M, Milligan BG. Analysis of population genetic structure with RAPD markers. Molecular Ecology. 3: 91-9. PMID 8019690 DOI: 10.1111/J.1365-294X.1994.Tb00109.X  0.377
1994 Lynch M, Deng H. Genetic Slippage in Response to Sex The American Naturalist. 144: 242-261. DOI: 10.1086/285673  0.379
1993 Gabriel W, Lynch M, Bürger R. Muller'S Ratchet And Mutational Meltdowns. Evolution. 47: 1744-1757. PMID 28567994 DOI: 10.1111/J.1558-5646.1993.Tb01266.X  0.478
1993 Lynch M, Bürger R, Butcher D, Gabriel W. The mutational meltdown in asexual populations Journal of Heredity. 84: 339-344. PMID 8409355 DOI: 10.1093/Oxfordjournals.Jhered.A111354  0.455
1991 Lynch M. The Genetic Interpretation Of Inbreeding Depression And Outbreeding Depression. Evolution. 45: 622-629. PMID 28568822 DOI: 10.1111/J.1558-5646.1991.Tb04333.X  0.39
1991 Spitze K, Burnson J, Lynch M. The Covariance Structure Of Life-History Characters In Daphnia Pulex Evolution. 45: 1081-1090. PMID 28564186 DOI: 10.1111/J.1558-5646.1991.Tb04376.X  0.443
1991 Lynch M. Methods For The Analysis Of Comparative Data In Evolutionary Biology. Evolution. 45: 1065-1080. PMID 28564168 DOI: 10.1111/J.1558-5646.1991.Tb04375.X  0.38
1991 Lynch M. Analysis of population genetic structure by DNA fingerprinting Exs. 58: 113-126. PMID 1831155 DOI: 10.1007/978-3-0348-7312-3_9  0.388
1991 Lynch M, Gabriel W, Wood AM. Adaptive and demographic responses of plankton populations to environmental change Limnology and Oceanography. 36: 1301-1312. DOI: 10.4319/Lo.1991.36.7.1301  0.395
1990 Lynch M, Gabriel W. Mutation Load and the Survival of Small Populations Evolution. 44: 1725-1737. PMID 28567811 DOI: 10.1111/J.1558-5646.1990.Tb05244.X  0.483
1990 Lynch M. The similarity index and DNA fingerprinting Molecular Biology and Evolution. 7: 478-484. PMID 2263197 DOI: 10.1093/Oxfordjournals.Molbev.A040620  0.356
1990 Crease TJ, Lynch M, Spitze K. Hierarchical analysis of population genetic variation in mitochondrial and nuclear genes of Daphnia pulex. Molecular Biology and Evolution. 7: 444-458. PMID 2263195 DOI: 10.1093/Oxfordjournals.Molbev.A040618  0.459
1990 Lynch M, Crease TJ. The analysis of population survey data on DNA sequence variation. Molecular Biology and Evolution. 7: 377-394. PMID 1974693 DOI: 10.1093/Oxfordjournals.Molbev.A040607  0.42
1990 Lynch M. The rate of morphological evolution in mammals from the standpoint of the neutral expectation American Naturalist. 136: 727-741. DOI: 10.1086/285128  0.438
1989 Lynch M. Phylogenetic hypotheses under the assumption of neutral quantitative-genetic variation Evolution. 43: 1-17. PMID 28568497 DOI: 10.1111/J.1558-5646.1989.Tb04203.X  0.466
1989 Lynch M, Spitze K, Crease T. The Distribution Of Life-History Variation In The Daphnia Pulex Complex. Evolution. 43: 1724-1736. PMID 28564335 DOI: 10.1111/J.1558-5646.1989.Tb02622.X  0.385
1988 Lynch M. The Divergence Of Neutral Quantitative Characters Among Partially Isolated Populations. Evolution. 42: 455-466. PMID 28564001 DOI: 10.1111/J.1558-5646.1988.Tb04152.X  0.48
1988 Lynch M. The rate of polygenic mutation Genetical Research. 51: 137-148. PMID 3410317 DOI: 10.1017/S0016672300024150  0.478
1988 Lynch M. Estimation of relatedness by DNA fingerprinting Molecular Biology and Evolution. 5: 584-599. PMID 3193879 DOI: 10.1093/Oxfordjournals.Molbev.A040518  0.355
1987 Lynch M. Evolution of intrafamilial interactions Proceedings of the National Academy of Sciences of the United States of America. 84: 8507-8511. PMID 3479804 DOI: 10.1073/Pnas.84.23.8507  0.385
1986 Lynch M. Random Drift, Uniform Selection, And The Degree Of Population Differentiation. Evolution. 40: 640-643. PMID 28556342 DOI: 10.1111/J.1558-5646.1986.Tb00515.X  0.339
1986 Lynch M, Hill WG. PHENOTYPIC EVOLUTION BY NEUTRAL MUTATION. Evolution; International Journal of Organic Evolution. 40: 915-935. PMID 28556213 DOI: 10.1111/J.1558-5646.1986.Tb00561.X  0.506
1986 Lynch M, Weider LJ, Lampert W. Measurement of the carbon balance in Daphnia 1 Limnology and Oceanography. 31: 17-34. DOI: 10.4319/Lo.1986.31.1.0017  0.603
1985 Lynch M. Spontaneous Mutations For Life-History Characters In An Obligate Parthenogen. Evolution. 39: 804-818. PMID 28561346 DOI: 10.1111/J.1558-5646.1985.Tb00422.X  0.466
1984 Lynch M. The Genetic Structure Of A Cyclical Parthenogen. Evolution. 38: 186-203. PMID 28556076 DOI: 10.1111/J.1558-5646.1984.Tb00271.X  0.313
1984 Lynch M. The Limits to Life History Evolution in Daphnia Evolution. 38: 465-482. PMID 28555980 DOI: 10.1111/J.1558-5646.1984.Tb00312.X  0.469
1984 Lynch M. Destabilizing Hybridization, General-Purpose Genotypes and Geographic Parthenogenesis The Quarterly Review of Biology. 59: 257-290. DOI: 10.1086/413902  0.389
1983 Lynch M. Ecological Genetics Of Daphnia Pulex. Evolution. 37: 358-374. PMID 28568368 DOI: 10.1111/J.1558-5646.1983.Tb05545.X  0.35
1983 Lynch M. Estimation of size‐specific mortality rates in zooplankton populations by periodic sampling1 Limnology and Oceanography. 28: 533-545. DOI: 10.4319/Lo.1983.28.3.0533  0.331
1983 Lynch M, Gabriel W. Phenotypic Evolution And Parthenogenesis The American Naturalist. 122: 745-764. DOI: 10.1086/284169  0.481
1982 Lynch M. How Well Does the Edmonson-Paloheimo Model Approximate Instantaneous Birth Rates? Ecology. 63: 12-18. DOI: 10.2307/1937025  0.32
1981 Lynch M, Shapiro J. Predation, enrichment, and phytoplankton community structure1 Limnology and Oceanography. 26: 86-102. DOI: 10.4319/Lo.1981.26.1.0086  0.48
1980 Lynch M. The Evolution of Cladoceran Life Histories The Quarterly Review of Biology. 55: 23-42. DOI: 10.1086/411614  0.303
1977 Lynch M. Fitness and Optimal Body Size in Zooplankton Population Ecology. 58: 763-774. DOI: 10.2307/1936212  0.36
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