The pattern of population growth as a function of redundancy and repair

A basic model of hierarchical structure, expressed by simple, linear differential equations, shows that the pattern of population growth is essentially determined by conditions of redundancy in the sub-structure of individuals. There does not exist any possible combination between growth rate and accident rate that could balance population numbers and/or the level of redundancy within the population; all possible combinations either lead to extinction or to positive population growth with a decline of the fraction of individuals with redundant substructure. Declining populations, however, can be held fluctuating between certain limits by periodic phases of sub-unit repair. These results are particularly pertinent to the population dynamics of diploid (polyploid) organisms.     

Homozygosity in a population of variable size and mutation rate

A formula is obtained for the probability that two genes at a single locus, sampled at random from a population at time t, are of particular types. The model assumed is a diffusion approximation to a neutral Wright-Fisher model in which mutation is not necessarily symmetric and the population size is a function of time. It is shown that for symmetric mutation in a population undergoing a step-function type bottleneck, homozygosity increases with decreasing population size. A formula is given for the distribution of the number of segregating sites occurring in two randomly sampled sequences of completely linked sites, with general mutation at a site and identical mutation structure between sites.We give similar results for a population of fixed size but for which the mutation rate is a function of time, and not necessarily symmetric. We confirm the intuitively clear effect that increasing the mutation rate decreases homozygosity.     

Polypeptide-chain-elongation rate in Escherichia coli B/r as a function of growth rate.

By evaluating the kinetics of radioactive labelling of nascent and finished polypeptides, the peptide-chain elongation rate for Escherichia coli B/r at three different growth rates (mu) was determined to be 17 amino acids/s for the fast-growing cells (mu equals 1.3 and 2.0 doublings/h) and 12 amino acids/s for slow-growing cells (mu equals 0.67 doublings/h). The results agree with the growth-rate-dependence of the rate of peptide-chain elongation found for the translation of newly induced beta-galactosidase messenger in this strain and under these conditions of growth [Dalbow & Young (1975) Biochem. J. 150, 13-20]. Together with the previously observed ribosome efficiency at these growth rates [Dennis & Bremer (1974) J. Mol. Biol. 84, 407-422] the results indicate that the fraction of ribosomes engaged in protein synthesis is about 0.8 at all three growth rates.     

DNA elongation rates and growing point distributions of wild-type phage T4 and a DNA-delay amber mutant

The rates of DNA elongation by wild-type phage T4 and a gene 52 DNA-delay am mutant were estimated by pulse-labeling infected cells with tritiated thymidine and visualizing the gently extracted DNA by autoradiography. The estimated rate of chain elongation of wild-type DNA was 749 nucleotides/second early in synthesis and 516 to 581 nucleotides/second at a later time. The rate of DNA elongation by the am mutant was measured to be 693, 758 and 829 nucleotides/second during successive stages of synthesis, indicating that elongation was not slower than in wild-type. The kinetics of DNA increase after infection of host cells by wild-type phage T4 or by the gene 52 DNA-delay am mutant was followed using [methyl-³H]thymidine uptake into acid-insoluble material. It was found that DNA increase in both wild-type and am infections could be represented as exponential during early times and linear during late times of DNA synthesis. From the rates of DNA increase and the rates of DNA elongation we were able to estimate the number of growing points per chromosome equivalent of template DNA during the exponential and linear phases. Our estimates for wild-type phage were 0.55 and 0.71 to 0.80 growing points per chromosome equivalent of template DNA in the exponential and linear phases, respectively. For the am mutant we found 0.14 and 0.12 to 0.13 growing points per chromosome equivalent of template DNA during the exponential and linear phases, respectively. The apparent lower incidence of growing points in the am mutant infections suggests that the mutant may be defective in the initiation of growing points.     

Juvenile proportion as a predictor of freshwater turtle population change

The extreme longevity of turtles and tortoises can make it difficult to determine the conservation status of their populations because high annual adult survival may mask gradual attrition due to low levels of recruitment. When long-term demographic trends are unknown and available data are insufficient for population modelling, it may be assumed that a scarcity of juveniles indicates low recruitment that will result in population ageing and numerical decline. However, the reliability with which the proportion of juveniles foreshadows demographic change is uncertain. We tested the hypothesis that a low proportion of juveniles in a turtle population presages its ageing by analysing over 20 years of survey data for five discrete populations of the Australian western saw-shelled turtle (Myuchelys bellii: Chelidae), a listed threatened species. The analysis tested whether the initial proportion of juvenile turtles in each population was related to its temporal trend in average body size. The five populations had varied structure and trends, with the initial proportion of juvenile turtles ranging from 10% to 39% and average body size increasing over time in some populations and decreasing in others. Contrary to expectation, the initial proportion of juveniles was unrelated to the trend in average body size and, by inference, average age, indicating that effective trend forecasting requires more detailed demographic information than merely population structure.     

Fecundity,developmental time,and population growth rate

Summary A computer simulation was used to investigate the relative effects of changes in net fecundity and development time on population growth rate (r). Increases in net fecundity had the largest effect on r when net fecundity is small. Conversely, decreases in developmental time had the largest effect on r when net fecundity was large. The intersection point where similar changes in developmental time, and net fecundity had equivalent effects on r was also investigated in four organisms with very different life histories. Cases were considered where changes in net fecundity and developmental time are correlated and different results were obtained.     

The southwestern Atlantic southern right whale,Eubalaena australis,population is growing but at a decelerated rate

This paper reports on aerial surveys conducted to estimate the relative abundance and trend in growth of the southern right whale (Eubalaena australis) population from Península Valdés. The number of whales counted tripled from 1999 to 2016. We modeled the number of whales, the number of calves, the number of solitary individuals and the number of individuals in breeding groups using as predictive variables the year, Julian day, and Julian day² by means of generalized linear models. The rate of increase decreased from near 7% in 2007 to 0.06% and 2.30% for total number of whales and number of calves, respectively for 2016. Trends in the rates of increase for total number of whales and number of calves were negative (?0.732% and ?0.376%, respectively). The habitat use of the whales changed along the years, with mothers and calves using more heavily the near‐shore strip, resulting in a decreasing trend for solitary individuals and breeding groups in near‐shore waters. We conclude that whales are still increasing their abundance, while the rate of increase is decreasing. Differences in the rates of increase of the group types and changes in habitat use are thought to be the consequence of a density‐dependence process.     

Peptide chain elongation rate and ribosomal activity in Saccharomyces cerevisiae as a function of the growth rate.

Summary The peptide-chain elongation rate of Saccharomyces cerevisiae at two different growth rates was estimated by the kinetics of radioactive labelling of nascent and finished polypeptides as described by Gausing, 1972, and Young and Bremer, 1976. The elongation rates of a diploid strain cultured in yeast nitrogen base supplemented with glucose or acetate were 9.3 amino acids/s and 5.5 amino acids/s at 30°C, respectively. These data together with published values on the ribosomal efficiency as a function of growth rate (Waldron and Lacroute, 1975) enable us to estimate the rate of synthesis of ribosomal proteins as a function of the rate of total protein synthesis, _r, and the fraction of ribosomes that are active in protein synthesis. We conclude that in S. cerevisiae _r, is largely independent of the growth rate while the fraction of active ribosomes decreases with decreasing growth rate.     

Relationships between bone growth rate, body mass and resting metabolic rate in growing amniotes: a phylogenetic approach

We explored the factors that explain the variation in resting metabolic rates (RMR) in growing amniotes by using the phylogenetic comparative method. For this, we measured raw RMR (mL O₂ h⁻¹), body mass, body mass growth rate, and periosteal bone growth rate in a sample of 44 growing individuals belonging to 13 species of amniotes. We performed variation partitioning analyses, which showed that phylogeny explains a significant fraction of the variation of mass-specific RMR (mL O₂ h⁻¹ g⁻¹), and that the cost of growth is much higher than the cost of maintenance. Moreover, we tested the hypothesis of the independence of energy allocation, and found that maintenance metabolism and growth rates are not significantly related. Finally, we calculated the statistical parameters of the relationship between geometry-corrected RMR (mL O₂ h⁻¹ g^−0.67) and bone growth rate. This relationship could potentially be used in palaeobiology to infer RMR from bone tissue samples of fossil species by assuming Amprino's rule (according to which bone tissue types reflect bone growth rates). These estimates would be especially interesting for Mesozoic non-avian theropod dinosaurs and Permian and Triassic therapsids to investigate, respectively, the origin of avian and mammalian endothermy.  © 2007 The Linnean Society of London, Biological Journal of the Linnean Society , 2007, 92 , 63–76.     

Hybridoma growth and antibody production as a function of cell density and specific growth rate in perfusion culture

Steady state metabolic parameters for hybridoma cell line H22 were determined over a wide range of cell densities and specific growth rates in a filtration based homogeneous perfusion reactor. Operating the reactor at perfusion rates of 0.75, 2.0, and 2.9 day(-1)(each at four different specific growth rates), viable cell densities as high as 2 x 10(7) cells/mL were obtained. For the cell line under investigation, the specific monoclonal antibody production rate was found to be a strong function of the viable cell density, increasing with increasing cell density. In contrast, most of the substrate consumption and product formation rates were strong functions of the specific growth rate. Substrate metabolism became more efficient at high cell densities and low specific growth rates. The Specific rates of metabolite formation and the apparent yields of lactate from glucose and ammonia from glutamine decreased at low specific growth rates and high cell densities. While the specific oxygen consumption rate was independent of the specific growth rate and cell density, ATP production was more oxidative at lower specific growth rate and higher cell density. These observed shifts are strong indications of the production potential of high-density perfusion culture. (c) 1995 John Wiley & Sons, Inc.     

Modelling the relative growth rate as a function of plant nitrogen concentration

The relationship between the relative growth rate (RGR) and the nitrogen concentration of the whole plant (PNC) was analyzed by using experimentally determined relations (1) between the PNC and the fraction of dry matter (LWR) and nitrogen in leaves, (2) between the specific leaf area (SLA) and the leaf nitrogen concentration (LNC) and (3) between the net assimilation rate (NAR) and the LNC on an area basis. A strong dependence of RGR on nitrogen concentration resulted from the increase in NAR, LWR and SLA with increasing PNC. A curvilinear relationship between RGR and PNC gave an optimum curve for nitrogen productivity against PNC.     

Climate, food, density and wildlife population growth rate

1. The aim of this study was to derive and evaluate a priori models of the relationship between annual instantaneous population growth rate (r) and climate. These were derived from the numerical response of annual r and food, and the effect of climate on a parameter in the numerical response. The goodness of fit of a range of such deductive models to data on annual r of Soay sheep and red deer were evaluated using information-theoretic (AICc-based) analyses. 2. The analysis for sheep annual r showed negative effects of abundance and negative effects of the interaction of abundance and climate, measured as March rainfall (and winter NAO) in the best fitting models. The analysis for deer annual r showed a negative effect of deer abundance and a positive effect of climate measured as March rainfall (but a negative effect of winter NAO), but no interaction of abundance and climate in the best fitting models. 3. There was most support in the analysis of sheep dynamics for the ratio numerical response and the assumption that parameter J (equilibrium food per animal) was influenced by climate. In the analysis of deer dynamics there was most support for the numerical responses assuming effects of food and density (Ivlev and density, food and density, and additive responses) and slightly less support for the ratio numerical response. The evaluation of such models would be aided by the collection of and incorporation of food data into the analyses.     

The effect of population bottlenecks on mutation rate evolution in asexual populations

In the absence of recombination, a mutator allele can spread through a population by hitchhiking with beneficial mutations that appear in its genetic background. Theoretical studies over the past decade have shown that the survival and fixation probability of beneficial mutations can be severely reduced by population size bottlenecks. Here, we use computational modelling and evolution experiments with the yeast S. cerevisiae to examine whether population bottlenecks can affect mutator dynamics in adapting asexual populations. In simulation, we show that population bottlenecks can inhibit mutator hitchhiking with beneficial mutations and are most effective at lower beneficial mutation supply rates. We then subjected experimental populations of yeast propagated at the same effective population size to three different bottleneck regimes and observed that the speed of mutator hitchhiking was significantly slower at smaller bottlenecks, consistent with our theoretical expectations. Our results, thus, suggest that bottlenecks can be an important factor in mutation rate evolution and can in certain circumstances act to stabilize or, at least, delay the progressive elevation of mutation rates in asexual populations. Additionally, our findings provide the first experimental support for the theoretically postulated effect of population bottlenecks on beneficial mutations and demonstrate the usefulness of studying mutator frequency dynamics for understanding the underlying dynamics of fitness‐affecting mutations.     

The effect of ultraviolet and white light on growth rate,lysis, and phage production of Bacillus megatherium

Cultures of megatherium 899a, growing under different conditions, were exposed to ultraviolet or white light. 1. Cultures exposed to ultraviolet light and then to white light continue to grow at the normal rate. Cultures exposed to ultraviolet light and then placed in the dark grow at the normal rate for varying lengths of time, depending on conditions, and then lyse with the liberation of from 5 to 1000 phage particles per cell, depending on the culture medium. 2. Increasing the time of exposure to ultraviolet light results in an increase in the fraction of cells which lyse in the dark. The lysis time decreases at first, remains constant over a wide range of exposure, and then increases. The lysis can be prevented by visible light after short exposure, but not after long exposures. 3. The time required for lysis is independent of the cell concentration. 4. Effect of temperature. After exposure to ultraviolet the cell concentration increases about 4 times at 20°, 30°, or 35°C., but only 1.5 to 2.0 times at 40–45°. This is due to the fact that the growth rate of the culture reaches a maximum at 38° while the lysis rate increases steadily up to 45°. 5. Terramycin decreases the growth rate and lysis rate in proportion. 6. At pH 5.1, the cultures continue to grow slowly in the dark after exposure to ultraviolet light. 7. Megatherium sensitive cells infected with T phage lyse more rapidly than ultraviolet-treated 899a, and visible light does not affect the lysis time. The results agree with the assumption that exposure to ultraviolet results in the production of a toxic (mutagenic) substance inside the bacterial cell. This substance is inactivated by white light.