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Ohno's dilemma: Evolution of new genes under continuous selection
Open accessAbstract
New genes with novel functions arise by duplication and divergence, but the process poses a problem. After duplication, an extra gene copy must rise to sufficiently high frequency in the population and remain free of common inactivating lesions long enough to acquire the rare mutations that provide a new selectable function. Maintaining a duplicated gene by selection for the original function would restrict the freedom to diverge. (We refer to this problem as Ohno's dilemma). A model is described by which selection continuously favors both maintenance of the duplicate copy and divergence of that copy from the parent gene. Before duplication, the original gene has a trace side activity (the innovation) in addition to its original function. When an altered ecological niche makes the minor innovation valuable, selection favors increases in its level (the amplification), which is most frequently conferred by increased dosage of the parent gene. Selection for the amplified minor function maintains the extra copies and raises the frequency of the amplification in the population. The same selection favors mutational improvement of any of the extra copies, which are not constrained to maintain their original function (the divergence). The rate of mutations (per genome) that improve the new function is increased by the multiplicity of target copies within a genome. Improvement of some copies relaxes selection on others and allows their loss by mutation (becoming pseudogenes). Ultimately one of the extra copies is able to provide all of the new activity.
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“As such, ALE studies highlight that duplications and large scale genomic variations, although they can lead to significant issues such as genomic instability [152], play a major role in e.g. yeast evolution; this is also indicated by data on wine yeasts, galactose utilization, comparative genomics and drug resistance [115,153-156].”
From Adaptive laboratory evolution—Principles and applications for biotechnology (2013) · cites this paper as [115]
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Citations
Cites
Ohno, S. (1970) · doi:10.1007/978-3-642-86659-3 · Cited by 7,833
The Evolutionary Fate and Consequences of Duplicate Genes
Lynch, M., & Conery, J. S. (2000) · Science · doi:10.1126/science.290.5494.1151 · Cited by 4,988
Escherichia Coli and Salmonella: Typhimurium Cellular and Molecular Biology
Neidhardt, F. C., & Ingraham, J. L. (1987) · Medical Entomology and Zoology · Cited by 4,089
Escherichia coli and Salmonella typhimurium: Cellular and molecular biology
Lejeune, P. (1988) · Biochimie · doi:10.1016/0300-9084(88)90119-8 · Cited by 4,086
Lateral gene transfer and the nature of bacterial innovation
Ochman, H., Lawrence, J. G., & Groisman, E. A. (2000) · Nature · doi:10.1038/35012500 · Cited by 3,816
Preservation of Duplicate Genes by Complementary, Degenerative Mutations
Force, A., Lynch, M., Pickett, F. B., Amores, A., Yan, Y.-L., & Postlethwait, J. (1999) · Genetics · doi:10.1093/genetics/151.4.1531 · Cited by 3,529
Drake, J. W., Charlesworth, B., Charlesworth, D., & Crow, J. F. (1998) · Genetics · doi:10.1093/genetics/148.4.1667 · Cited by 1,932
The origins of genome complexity
Lynch, M., & Conery, J. S. (2003) · Science · doi:10.1126/science.1089370 · Cited by 1,698
The Probability of Duplicate Gene Preservation by Subfunctionalization
Lynch, M., & Force, A. G. (2000) · Genetics · doi:10.1093/genetics/154.1.459 · Cited by 1,559
The Genome Sequence of Trypanosoma cruzi , Etiologic Agent of Chagas Disease
El-Sayed, N. M., Myler, P. J., Bartholomeu, D. C., Nilsson, D., Aggarwal, G., Tran, A.-N., Ghedin, E., Worthey, E. A., Delcher, A. L., Blandin, G., et al. (2005) · Science · doi:10.1126/science.1112631 · Cited by 1,394
Research works printed but not linked: 3
- G Donn, E Tischer, JA Smith, HM Goodman J Mol Appl Genet 2, 621–635 (1984).
- RT Schimke Gene Amplification (Cold Spring Harbor Lab Press, Cold Spring Harbor, NY, 1982).
- WM Patrick, EM Quandt, DB Swartzlander, I Matsumura Mol Biol Evol, 2007).
Cited by
Sorted by citations
Items 301–400 of 402
Hogan, C. C., & Bettencourt, B. R. (2009) · Journal of Molecular Evolution · doi:10.1007/s00239-009-9213-x · Cited by 2
“Another possible fate is that a new duplicate can gain a novel beneficial function that is selectively maintained within the genome (Clark 1994; Walsh 1995; Bergthorsson et al. 2007).”
BackgroundA direct experimental test of Ohno’s hypothesisPreprint
Mihajlovic, L., Iyengar, B. R., Baier, F., Barbier, I., Iwaszkiewicz, J., Zoete, V., Wagner, A., & Schaerli, Y. (2024) · eLife · doi:10.7554/elife.97216.1 · Cited by 2
Shining a light on Ohno’s dilemma
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Wan, X., Cohen, S. M., Yu, Y., Le, H. H., Park, H., Groaz, A., Moreno, R., Tan, M., Schneider, J., Gronquist, M. R., et al. (2026) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2524778123 · Cited by 1
“In our analysis, only the double mutant of oac - 25 and oac - 28 affects the VSPs synthesis, consistent with the dual role of gene duplication in evolution: maintaining stability while enabling innovation (44 , 49 , 50).”
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“New enzyme activities are thought to most frequently evolve from promiscuous side activities through a process of innovation, amplification, and divergence (69–71).”
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Drexler, L., Busch, M. R., & Sterner, R. (2026) · FEBS Letters · doi:10.1002/1873-3468.70400 · Cited by 1
“In addition to pointing to the evolutionary relationship of extant enzymes, a promiscuous activity can also readily result in a novel main activity during evolution [14,15].”
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“…or smaller-scale gene amplifications, are common because they increase the quantity of enzymes or processes limiting to growth (Gerstein et al. 2006; Bergthorsson et al. 2007; Gresham et al. 2008; Venkataram et al. 2016; Li et al. 2018), similar to the effect of de-regulation mutations.”
Model of haplotype and phenotype in the evolution of a duplicated autoregulatory activator
Dasmahapatra, S. (2013) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2013.01.025 · Cited by 1
“In particular, in order to to present verbal arguments that rely on mutations that disrupt pleiotropic properties and restrict them to context-specific roles (as in the subfunctionalization model of [4]; see also [34]) the helper protein index h will serve as a placeholder for such contextspecific factors.”
BackgroundBacterial Cells as Model Factories
Matsumura, I. (2013) · American Journal of Operations Research · doi:10.4236/ajor.2013.31a007 · Cited by 1
“Redundancy also enhances evolvability, by enabling one copy to adapt to new circumstances, while another retains its original essential function [17].”
Huang, R. (2012) · Cited by 1
Karapanagioti, F., Atlason, Ú. Á., Slotboom, D. J., Poolman, B., & Obermaier, S. (2024) · eLife · doi:10.7554/elife.93971.3 · Cited by 1
Zhouravleva, G. A., & Inge-Vechtomov, S. G. (2009) · Molecular Biology · doi:10.1134/s0026893309050021 · Cited by 1
Walker, K. A., Griggs, L., Obrist, M., Bode, A., Summers, R. P., & Miller, V. L. (2016) · Journal of Bacteriology · doi:10.1128/jb.00240-16 · Cited by 1
“The data provided herein suggest that DygS has undergone evolution by the innovation-amplification-divergence model (44).”
Ozcan, K., & Monroe, J. D. (2023) · PLANT PHYSIOLOGY · doi:10.1093/plphys/kiad227 · Cited by 1
“…the duplication, 1 of the 2 genes would be under no selective pressure and mutations rendering one of the duplicates nonfunctional would be far more frequent than mutations leading to a novel function (neofunctionalization), a conundrum referred to as Ohno’s dilemma (Bergthorsson et al. 2007).”
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Jones, C. M. (2010) · Epsilon Open Archive (Sveriges lantbruksuniversitet biblioteket (Swedish University of Agricultural Sciences)) · Cited by 1
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Bayer, T. (2009) · Kölner Universitäts PublikationsServer (Universität zu Köln) · Cited by 1
Gene Copy‐Number Changes in Evolution
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Steiner, K. (2017) · Kirk-Othmer Encyclopedia of Chemical Technology · doi:10.1002/0471238961.1618152004012209.a01.pub2 · Cited by 1
A giant leap in sequence space reveals the intracellular complexities of evolving a new functionPreprint
Hall, K. R., Robins, K. J., Rich, M. H., Calcott, M. J., Copp, J. N., Williams, E. M., Little, R. F., Schwörer, R., Evans, G. B., Patrick, W. M., et al. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.05.27.118489 · Cited by 1
“Although this contrasts with the prevailing Innovation–Amplification–Divergence (IAD) model for natural enzyme evolution (Bergthorsson et al., 2007), it may not be an exceptional scenario – rather, as previously argued by Newton et al., (2015) it is likely that only a minority of enzymes in a cell…”
ResultThe transcriptomic and proteomic ramifications of segmental amplificationPreprint
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“The Innovation-62 Amplification-Divergence (IAD) model describes an evolutionary scenario by which a gene encoding a new function can arise (2, 24) (Fig.”
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Fitness landscape of substrate-adaptive mutations in evolved APC transportersPreprint
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A direct experimental test of Ohno’s hypothesisPreprint
Mihajlovic, L., Iyengar, B. R., Baier, F., Barbier, I., Iwaszkiewicz, J., Zoete, V., Wagner, A., & Schaerli, Y. (2024) · eLife · doi:10.7554/elife.97216.2 · Cited by 2
A cheater founds the winning lineages during evolution of a novel metabolic pathwayPreprint
Widney, K. A., Phillips, L. C., Rusch, L. M., & Copley, S. D. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.01.26.634942 · Cited by 1
Towards Classification and Functional Description of Enzymes: A case study of feruloyl esterases
Udatha, D. B. R. K. G. (2013) · Chalmers Publication Library (Chalmers University of Technology)
Adventures with Mutation and Selection in Beehive and Cow Country
Hughes, D., & Andersson, D. (2011) · ASM Press eBooks · doi:10.1128/9781555816810.ch25
Self-citationDirected Evolution of Glutathione Transferases Guided by Multivariate Data Analysis
Kurtovic, S. (2008) · Uppsala University Publications (Uppsala University)
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Jalan, S., Rai, A., & Pawar, A. K. (2014) · arXiv (Cornell University) · doi:10.48550/arxiv.1410.2071
Developing new enzymatic catalysts by resurrecting ancestral alpha/beta hydrolases
Mooney, J. L. (2014) · University of Minnesota Digital Conservancy (University of Minnesota)
Mechanisms of evolution by gene duplication: The origins of corticosteroid signaling
Carroll, S. M. (2009) · Scholars' Bank (University of Oregon)
Enzyme Evolution across Bacterial Species
Kristofich, J. (2016) · CU Scholar (University of Colorado Boulder)
Molecular Evolution, Functional Synthesis of
Dean, A. M. (2016) · Elsevier eBooks · doi:10.1016/b978-0-12-800049-6.00233-x
From Cellular Components to Living Cells (and Back): Evolution of Function in Biological Networks
Lenser, T. (2011) · Common Library Network (Der Gemeinsame Bibliotheksverbund)
Selection and Robustness in Bacterial Genome Evolution
Omer, S. (2016) · OpenCommons at University of Connecticut (University of Connecticut)
Mayr Versus Woese: Akaryotes and Eukaryotes
Kurland, C. G., & Harish, A. (2018) · Grand challenges in biology and biotechnology · doi:10.1007/978-3-319-69078-0_2
Bendixsen, D. P. (2018) · ScholarWorks (Boise State University) · doi:10.18122/td/1429/boisestate
“This could also occur following a gene duplication event, where divergence occurs prior to the duplication (Ohno 1970; Taylor and Raes 2004; Bergthorsson et al. 2007; Andersson et al. 2015).”
BackgroundCollet, J. (2018) · ScholarWorks (Boise State University) · doi:10.18122/td/1466/boisestate
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Müller, H., Godehard, S. P., Palm, G. J., Berndt, L., Badenhorst, C. P. S., Becker, A., Lammers, M., & Bornscheuer, U. T. (2020) · Angewandte Chemie · doi:10.1002/ange.202014169
Uma visão estrutural sobre componentes do processo de adaptação metabólica de tumores
Ambrosio, A. L. B. (2018) · Digital Library of Theses and Dissertations (Universidade de São Paulo) · doi:10.11606/t.76.2018.tde-25022021-104637
Genetic networks encode secrets of their past
Crawford-Kahrl, P., Nerem, R. R., Cummins, B., & Gedeon, T. (2022) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2022.111092
“or the addition of entirely new genes via horizontal gene transfer (Wagner, 2003) are possible, but are considered less likely than gene duplication or loss of function of a regulatory interaction (Bergthorsson et al., 2007).”
BackgroundElena, S. F. (2012) · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature · doi:10.3410/f.717959330.793462733
(2014) · Elsevier eBooks · doi:10.1016/b978-0-12-800165-3.00023-0
Lee, U., Arsala, D., Xia, S., Li, C., Ali, M., Svetec, N., Langer, C. B., Sobreira, D. R., Eres, I. E., Sosa, D., et al. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.11.30.518413
“Following the initial increase of auxiliary function through gene amplification, subsequent relaxation of selection pressure will allow for changes to accumulate on the various copies, allowing the new copies to diverge and potentially gain a new function ( 4 ).”
BackgroundFitness landscape of substrate-adaptive mutations in evolved APC transporters
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A Microbe’s Environment and Natural Selection
Spormann, A. M. (2023) · Springer eBooks · doi:10.1007/978-3-031-28218-8_2
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Lynch, M. (2024) · Oxford University Press eBooks · doi:10.1093/oso/9780192847287.003.0006 · Cited by 1
Author Response: Fitness landscape of substrate-adaptive mutations in evolved APC transporters
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Maisnier‐Patin, S., & Roth, J. R. (2024) · Elsevier eBooks · doi:10.1016/b978-0-443-15750-9.00010-0
Self-citationKassen, R. (2024) · Oxford University Press eBooks · doi:10.1093/oso/9780192898661.003.0008
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eLife Assessment: Fitness landscape of substrate-adaptive mutations in evolved APC transporters
Jara-Oseguera, A. (2024) · eLife · doi:10.7554/elife.93971.2.sa3
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Author response: Fitness landscape of substrate-adaptive mutations in evolved APC transporters
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Riedl, A., Bojková, D., Tan, J., Jeney, Á., Larsen, P., Jeney, C., Full, F., Kalinke, U., & Ruzsics, Z. (2024) · Vaccines · doi:10.3390/vaccines12070791
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“Pleiotropy has a huge importance in biology and is frequently involved in a broad spectrum of phenomena such as adaptation [ 172 , 173 ] and neofunctionalization [ 16 , 82 , 106 ].”
Paralog Interference Preserves Genetic RedundancyPreprint
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Mackenzie, E. S., Sendra, K. M., Baslé, A., Mazgaj, R., Kehl‐Fie, T. E., & Waldron, K. J. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.10.23.684290
“This classical model has been criticised and alternative models postulated 37 – 39 .”
Adaptive Laboratory Evolution of Microorganisms: Methods and Applications in Biotechnology
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“Moreover, such a copy of the duplicated gene must not only be preserved in the population and passed on to ancestors but also undergo changes (Bergthorsson et al., 2007).”
Reid, C. Z., Zorio, D. A. R., & Miller, B. G. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.02.02.703383
“4,10 We do not see evidence of any “competing” subpopulations containing nanK mutations in Lineages 1 and 2, and amplifications quickly rise to a majority frequency once they appear in those Lineages.”
Ashford, P., Frankell, A. M., Piszka, Z., Pang, C., Abbasian, M., Bakir, M. A., Jamal‐Hanjani, M., McGranahan, N., Swanton, C., & Orengo, C. A. (2026) · Genome Research · doi:10.1101/gr.278663.123
“…protein function that is distinct from the wild-type function, such as mutations near ligand binding sites altering substrate specificity of an enzyme or favoring secondary existing functions of multifunctional proteins ( “ moon-lighting ” proteins) (Bergthorsson et al. 2007; Copley 2020).”
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Metadata
- Authors
- Bergthorsson, U., Andersson, D. I., & Roth, J. R.
- Affiliations
- University of New Mexico (US)
- Uppsala University (SE)
- University of California, Davis (US)
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2007-10-23
- Volume
- 104
- Issue
- 43
- Pages
- 17004-17009
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC2040452
- OpenAlex
- W2051768616
- Cited by
- 405
- References
- 96
- Citations by year
- 2026: 17 · 2025: 17 · 2024: 53 · 2023: 16 · 2022: 14 · 2021: 14 · 2020: 21 · 2019: 13 · 2018: 14 · 2017: 22 · 2016: 28 · 2015: 20 · 2014: 28 · 2013: 23 · 2012: 32
- FWCI
- 9.64
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Institute of General Medical Sciences (GM27068, R01GM027068)
- National Center for Research Resources (P20-RR18754, P20RR018754)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Chromosomal and Genetic Variations
- Social Sciences › Arts and Humanities › History and Philosophy of Science › Philosophy of Biology and Scientific Explanation
- Keywords
- gene duplication, gene divergence, continuous selections, pseudogenes, gene copy number
- MeSH terms
- Biological Evolution, Gene Amplification, Gene Frequency, Models, Genetic, Recombination, Genetic, Selection, Genetic, Genetic Variation, Point Mutation, Gene Duplication, Gene Transfer, Horizontal
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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