scholarly journals Mutation accumulation in transfer RNAs: molecular evidence for Muller's ratchet in mitochondrial genomes

1996 ◽  
Vol 13 (1) ◽  
pp. 209-220 ◽  
Author(s):  
M. Lynch
2018 ◽  
Author(s):  
Diddahally R. Govindaraju ◽  
Hideki Innan

Mutation accumulation has been proposed as a cause of senescence. In this process, both constitutional and recurrent mutations accumulate gradually and differentially among differentiating cells, tissues and organs, in relation to stage and age, analogous to Muller’s ratchet in asexually reproducing organisms. Latent and cascading deleterious effects of mutations might initiate steady “accumulation of deficits” in cells, leading to cellular senescence, and functional decline of tissues and organs, and ultimately manifest as frailties and disease. We investigated a few of these aspects in cell populations through modeling and simulation using the Moran birth-death process, under varied scenarios of mutation accumulation. Our results agree with the principle of Muller’s ratchet. The ratchet speed in a given tissue depends on the population size of cells, mutation rate, and selection coefficient. Additionally, deleterious mutations seem to rapidly accumulate particularly early in the life-course, during which the rate of cell division is high, thereby exerting a greater effect on cellular senescence. The speed of the ratchet afterward varies greatly between cells nested in tissues and tissues within organs due to heterogeneity in the life span and turnover rate of specific cell types. Importantly, the ratchet accelerates with age, resulting in a synergistic fitness decay in cell populations. We extend Fisher’s average excess concept and rank order scale to interpret differential phenotypic effects of mutation load in a given tissue. We conclude that classical evolutionary genetic models could explain partially, the origins of frailty, subclinical conditions, morbidity and health consequences of senescence.SignificanceFrailty is defined as physiological and functional decline of organs and organ systems, due to deficit accumulation from stochastic damages within the organism with advanced age. Equivalently, with age, both constitutional and somatic mutations accumulate gradually and differentially among cells, cell lineages, tissues, and organs. Since most mutations are deleterious, accumulation of random and recurrent mutations could create a “load,” on the genome and contextually express in the epigenome and phenotype spaces. Here we extend Muller’s ratchet principle to explain frailty and multi-morbidity using the Moran model and simulations. Our results agree with the Muller’s ratchet principle. We emphasize the need for considering cumulative effects of the entire spectrum of mutations for explaining the origin of frailty, sub-clinical conditions, and morbidity.


1995 ◽  
Vol 66 (3) ◽  
pp. 241-253 ◽  
Author(s):  
Damian D. G. Gessler

SummaryAn analysis of mutation accumulation in finite, asexual populations shows that by modeling discrete individuals, a necessary condition for mutation–selection balance is often not met. It is found that over a wide parameter range (whenever N e−μ/s < 1, where N is the population size, μ is the genome-wide mutation rate, and s is the realized strength of selection), asexual populations will fail to achieve mutation–selection balance. This is specifically because the steady-state strength of selection on the best individuals is too weak to counter mutation pressure. The discrete nature of individuals means that if the equilibrium level of mutation and selection is such that less than one individual is expected in a class, then equilibration towards this level acts to remove the class. When applied to the classes with the fewest mutations, this drives mutation accumulation. This drive is in addition to the well-known identification of the stochastic loss of the best class as a mechanism for Muller's ratchet. Quantification of this process explains why the distribution of the number of mutations per individual can be markedly hypodispersed compared to the Poisson expectation. The actual distribution, when corrected for stochasticity between the best class and the mean, is akin to a shifted negative binomial. The parameterization of the distribution allows for an approximation for the rate of Muller's ratchet when N e−μ/s < 1. The analysis is extended to the case of variable selection coefficients where incoming mutations assume a distribution of deleterious effects. Under this condition, asexual populations accumulate mutations faster, yet may be able to survive longer, than previously estimated.


Genetics ◽  
1998 ◽  
Vol 149 (4) ◽  
pp. 2135-2146 ◽  
Author(s):  
Carl T Bergstrom ◽  
Jonathan Pritchard

Abstract Several features of the biology of mitochondria suggest that mitochondria might be susceptible to Muller's ratchet and other forms of evolutionary degradation: Mitochondria have predominantly uniparental inheritance, appear to be nonrecombining, and have high mutation rates producing significant deleterious variation. We demonstrate that the persistence of mitochondria may be explained by recent data that point to a severe “bottleneck” in the number of mitochondria passing through the germline in humans and other mammals. We present a population-genetic model in which deleterious mutations arise within individual mitochondria, while selection operates on assemblages of mitochondria at the level of their eukaryotic hosts. We show that a bottleneck increases the efficacy of selection against deleterious mutations by increasing the variance in fitness among eukaryotic hosts. We investigate both the equilibrium distribution of deleterious variation in large populations and the dynamics of Muller's ratchet in small populations. We find that in the absence of the ratchet, a bottleneck leads to improved mitochondrial performance and that, over a longer time scale, a bottleneck acts to slow the progression of the ratchet.


Genetics ◽  
2021 ◽  
Author(s):  
Takahiro Sakamoto ◽  
Hideki Innan

Abstract Muller’s ratchet is a process in which deleterious mutations are fixed irreversibly in the absence of recombination. The degeneration of the Y chromosome, and the gradual loss of its genes, can be explained by Muller’s ratchet. However, most theories consider single-copy genes, and may not be applicable to Y chromosomes, which have a number of duplicated genes in many species, which are probably undergoing concerted evolution by gene conversion. We developed a model of Muller’s ratchet to explore the evolution of the Y chromosome. The model assumes a non-recombining chromosome with both single-copy and duplicated genes. We used analytical and simulation approaches to obtain the rate of gene loss in this model, with special attention to the role of gene conversion. Homogenization by gene conversion makes both duplicated copies either mutated or intact. The former promotes the ratchet, and the latter retards, and we ask which of these counteracting forces dominates under which conditions. We found that the effect of gene conversion is complex, and depends upon the fitness effect of gene duplication. When duplication has no effect on fitness, gene conversion accelerates the ratchet of both single-copy and duplicated genes. If duplication has an additive fitness effect, the ratchet of single-copy genes is accelerated by gene duplication, regardless of the gene conversion rate, whereas gene conversion slows the degeneration of duplicated genes. Our results suggest that the evolution of the Y chromosome involves several parameters, including the fitness effect of gene duplication by increasing dosage and gene conversion rate.


Nature ◽  
1995 ◽  
Vol 375 (6527) ◽  
pp. 111-112 ◽  
Author(s):  
Leo W. Beukeboom ◽  
Rolf P. Weinzierl ◽  
Nico K. Michiels

1999 ◽  
Vol 73 (4) ◽  
pp. 2745-2751 ◽  
Author(s):  
Eloisa Yuste ◽  
Sonsoles Sánchez-Palomino ◽  
Concha Casado ◽  
Esteban Domingo ◽  
Cecilio López-Galíndez

ABSTRACT Muller’s ratchet predicts fitness losses in small populations of asexual organisms because of the irreversible accumulation of deleterious mutations and genetic drift. This effect should be enhanced if population bottlenecks intervene and fixation of mutations is not compensated by recombination. To study whether Muller’s ratchet could operate in a retrovirus, 10 biological clones were derived from a human immunodeficiency virus type 1 (HIV-1) field isolate by MT-4 plaque assay. Each clone was subjected to 15 plaque-to-plaque passages. Surprisingly, genetic deterioration of viral clones was very drastic, and only 4 of the 10 initial clones were able to produce viable progeny after the serial plaque transfers. Two of the initial clones stopped forming plaques at passage 7, two others stopped at passage 13, and only four of the remaining six clones yielded infectious virus. Of these four, three displayed important fitness losses. Thus, despite virions carrying two copies of genomic RNA and the system displaying frequent recombination, HIV-1 manifested a drastic fitness loss as a result of an accentuation of Muller’s ratchet effect.


1992 ◽  
Vol 89 (13) ◽  
pp. 6015-6019 ◽  
Author(s):  
E. Duarte ◽  
D. Clarke ◽  
A. Moya ◽  
E. Domingo ◽  
J. Holland

Sign in / Sign up

Export Citation Format

Share Document