SynthesisGenetics2005
The coupon collector and the suppressor mutation: estimating the number of compensatory mutations by maximum likelihood.
Synthesis in Genetics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
47 citing papers in PubMed.
- Compensatory Evolution Following Deleterious Episodes of GC-biased Gene Conversion in Rodents.Molecular biology and evolution · 2025Article
- Article
- Intragenic compensation through the lens of deep mutational scanning.Biophysical reviews · 2022Review
- Mechanistic insights into global suppressors of protein folding defects.PLoS genetics · 2022Article
- Whole genome sequencing facilitates intragenic variant interpretation following modifier screening in C. elegans.BMC genomics · 2021Article
- The cost of evolved constitutiveEcology and evolution · 2021Article
- Deep phylogeny of cancer drivers and compensatory mutations.Communications biology · 2020Article
- Resist or perish: Fate of a microbial population subjected to a periodic presence of antimicrobial.PLoS computational biology · 2020Article
- Limits to Compensatory Mutations: Insights from Temperature-Sensitive Alleles.Molecular biology and evolution · 2019Article
- Recombination drives the evolution of mutational robustness.Current opinion in systems biology · 2019Article
- Comparative Genomics Approaches Accurately Predict Deleterious Variants in Plants.G3 (Bethesda, Md.) · 2018Article
- In silico identification of rescue sites by double force scanning.Bioinformatics (Oxford, England) · 2018Article
- The Energy-Coupling Factor Transporter Module EcfAA'T, a Novel Candidate for the Genetic Basis of Fatty Acid-Auxotrophic Small-Colony Variants ofFrontiers in microbiology · 2018Article
- Article
- The genomic basis of adaptation to the fitness cost of rifampicin resistance in Pseudomonas aeruginosa.Proceedings. Biological sciences · 2016Article
- Coevolution with bacteriophages drives genome-wide host evolution and constrains the acquisition of abiotic-beneficial mutations.Molecular biology and evolution · 2015Article
- GenoBase: comprehensive resource database of Escherichia coli K-12.Nucleic acids research · 2015Article
- Potential for adaptation overrides cost of resistance.Future microbiology · 2015Article
- A systematic survey of an intragenic epistatic landscape.Molecular biology and evolution · 2015Article
- Why human disease-associated residues appear as the wild-type in other species: genome-scale structural evidence for the compensation hypothesis.Molecular biology and evolution · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Compensatory mutation occurs when a loss of fitness caused by a deleterious mutation is restored by its epistatic interaction with a second mutation at a different site in the genome. How many different compensatory mutations can act on a given deleterious mutation? Although this quantity is fundamentally important to understanding the evolutionary consequence of mutation and the genetic complexity of adaptation, it remains poorly understood. To determine the shape of the statistical distribution for the number of compensatory mutations per deleterious mutation, we have performed a maximum-likelihood analysis of experimental data collected from the suppressor mutation literature. Suppressor mutations are used widely to assess protein interactions and are under certain conditions equivalent to compensatory mutations. By comparing the maximum likelihood of a variety of candidate distribution functions, we established that an L-shaped gamma distribution (alpha=0.564, theta=21.01) is the most successful at explaining the collected data. This distribution predicts an average of 11.8 compensatory mutations per deleterious mutation. Furthermore, the success of the L-shaped gamma distribution is robust to variation in mutation rates among sites. We have detected significant differences among viral, prokaryotic, and eukaryotic data subsets in the number of compensatory mutations and also in the proportion of compensatory mutations that are intragenic. This is the first attempt to characterize the overall diversity of compensatory mutations, identifying a consistent and accurate prior distribution of compensatory mutation diversity for theoretical evolutionary models.
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.