Weak Selection Research Articles

Peak shifts and extinction under sex-specific selection

A well-known property of sexual selection combined with a cross-sex genetic correlation (rmf) is that it can facilitate a peak shift on the adaptive landscape. How do these diversifying effects of sexual selection + rmf balance with the constraints imposed by such sexual antagonism, to affect the macroevolution of sexual dimorphism? Here, I extend existing quantitative genetic models of evolution on complex adaptive landscapes. Beyond recovering classical predictions for the conditions promoting a peak shift, I show that when rmf is moderate to strong, relatively weak sexual selection is required to induce a peak shift in males only. Increasing the strength of sexual selection leads to a sexually concordant peak shift, suggesting that macroevolutionary rates of sexual dimorphism may be largely decoupled from the strength of within-population sexual selection. Accounting explicitly for demography further reveals that sex-specific peak shifts may be more likely to be successful than concordant shifts in the face of extinction, especially when natural selection is strong. An overarching conclusion is that macroevolutionary patterns of sexual dimorphism are unlikely to be readily explained by within-population estimates of selection or constraint alone.

Biodiversity, resilience and the stability of evolutionary systems

Various macro-evolutionary phenomena, such as long-term stability punctuated by bursts of evolution, are difficult to explain via the micro-evolutionary process of weak selection acting steadily on individual mutations. In contrast, bursts of change are expected if evolutionary systems are complex and balanced, with occasional disruption of balance. Such disruption represents the collapse of resilience, akin to the snapping of an elastic band. It can be driven by external factors, or by self-propagating feedback loops internal to a system. Thus, evolutionary resilience could help explain how evolution generates broader patterns of biodiversity. We outline evidence and tests for this hypothesis, which emphasizes the processes balancing evolution, as urged fifty years ago in ecological genetics and via modern results in a range of systems.

Evolution of resistance under alternative models of selective interference.

The use of multiple pesticides or drugs can lead to a simultaneous selection pressure for resistance alleles at different loci. Models of resistance evolution focus on how this can delay the spread of resistance through a population, but often neglect how this can also reduce the probability that a resistance allele spreads. This neglected factor has been studied in a parallel literature as selective interference. Models of interference use alternative constructions of fitness, where selection coefficients from different loci either add or multiply. Although these are equivalent under weak selection, the two constructions make alternative predictions under the strong selection that characterizes resistance evolution. Here, simulations are used to examine the effects of interference on the probability of fixation and time to fixation of a new and strongly beneficial mutation in the presence of another strongly beneficial allele with variable starting frequency. The results from simulations show a complicated pattern of effects. The key result is that, under multiplicativity, the presence of the strongly beneficial allele leads to a small reduction in the probability of fixation for the new beneficial mutation up to ~10%, and a negligible increase in the average time to fixation up to ~2%, whereas under additivity, the effect is more substantial at up to ~50% for the probability of fixation and ~100% for the average time to fixation. Consequently, the effect of interference is only an important feature of resistance evolution under additivity. Current evidence from studies of experimental evolution provides widespread support for the basic features of additivity, which suggests that interference may afford resistance a different pattern of evolution than other adaptations: rather than the gradual and simultaneous selection of many alleles with small effects, the rapid evolution of resistance may involve the sequential selection of alleles with large effects.

Analyses of child cardiometabolic phenotype following assisted reproductive technologies using a pragmatic trial emulation approach

Assisted reproductive technologies (ART) are increasingly used, however little is known about the long-term health of ART-conceived offspring. Weak selection of comparison groups and poorly characterized mechanisms impede current understanding. In a prospective cohort (Growing Up in Singapore Towards healthy Outcomes; GUSTO; Clinical Trials ID: NCT01174875) including 83 ART-conceived and 1095 spontaneously-conceived singletons, we estimate effects of ART on anthropometry, blood pressure, serum metabolic biomarkers, and cord tissue DNA methylation by emulating a pragmatic trial supported by machine learning-based estimators. We find ART-conceived children to be shorter (−0.5 SD [95% CI: −0.7, −0.2]), lighter (−0.6 SD [−0.9, −0.3]) and have lower skinfold thicknesses (e.g. −14% [−24%, −3%] suprailiac), and blood pressure (−3 mmHg [−6, −0.5] systolic) at 6-6.5 years, with no strong differences in metabolic biomarkers. Differences are not explained by parental anthropometry or comorbidities, polygenic risk score, breastfeeding, or illnesses. Our simulations demonstrate ART is strongly associated with lower NECAB3 DNA methylation, with negative control analyses suggesting these estimates are unbiased. However, methylation changes do not appear to mediate observed differences in child phenotype.

Metacommunities, fitness and gradual evolution

We analyze the evolution of a multidimensional quantitative trait in a class-structured focal species interacting with other species in a wider metacommunity. The evolutionary dynamics in the focal species as well as the ecological dynamics of the whole metacommunity is described as a continuous-time process with birth, physiological development, dispersal, and death given as rates that can depend on the state of the whole metacommunity. This can accommodate complex local community and global metacommunity environmental feedbacks owing to inter- and intra-specific interactions, as well as local environmental stochastic fluctuations. For the focal species, we derive a fitness measure for a mutant allele affecting class-specific trait expression. Using classical results from geometric singular perturbation theory, we provide a detailed proof that if the effect of the mutation on phenotypic expression is small (“weak selection”), the large system of dynamical equations needed to describe selection on the mutant allele in the metacommunity can be reduced to a single ordinary differential equation on the arithmetic mean mutant allele frequency that is of constant sign. This invariance on allele frequency entails the mutant either dies out or will out-compete the ancestral resident (or wild) type. Moreover, the directional selection coefficient driving arithmetic mean allele frequency can be expressed as an inclusive fitness effect calculated from the resident metacommunity alone, and depends, as expected, on individual fitness differentials, relatedness, and reproductive values. This formalizes the Darwinian process of gradual evolution driven by random mutation and natural selection in spatially and physiologically class-structured metacommunities.

Lactose-conjugated porphyrin: synthesis and photobiological evaluation as potential agents for photodynamic therapy

Porphyrin-based photosensitizers are conventional photodynamic agents that are used clinically. However, their clinical applications have been overshadowed by poor water solubility. In addition, they have weak tumor selectivity, which may cause undesirable side effects. The preparation of novel porphyrin derivatives has been explored for potential applications in photodynamic therapy (PDT). To achieve this goal, lactose-conjugated porphyrin nanoparticles (Lac-Por NPs) have been synthesized and characterized. PDT with Lac-Por NPs exhibited tumor-specific cytotoxicity in lactose receptor-overexpressing HepG2 cells in vitro and in vivo. In summary, we designed and synthesized lactose conjugate porphyrins with enhanced water solubility and tumor selectivity. This work expands the application range of porphyrin-based photosensitizers for cancer treatment.

On randomly changing conformity bias in cultural transmission

Humans and nonhuman animals display conformist as well as anticonformist biases in cultural transmission. Whereas many previous mathematical models have incorporated constant conformity coefficients, empirical research suggests that the extent of (anti)conformity in populations can change over time. We incorporate stochastic time-varying conformity coefficients into a widely used conformity model, which assumes a fixed number n of "role models" sampled by each individual. We also allow the number of role models to vary over time ([Formula: see text]). Under anticonformity, nonconvergence can occur in deterministic and stochastic models with different parameter values. Even if strong anticonformity may occur, if conformity or random copying (i.e., neither conformity nor anticonformity) is expected, there is convergence to one of the three equilibria seen in previous deterministic models of conformity. Moreover, this result is robust to stochastic variation in [Formula: see text] However, dynamic properties of these equilibria may be different from those in deterministic models. For example, with random conformity coefficients, all equilibria can be stochastically locally stable simultaneously. Finally, we study the effect of randomly changing weak selection. Allowing the level of conformity, the number of role models, and selection to vary stochastically may produce a more realistic representation of the wide range of group-level properties that can emerge under (anti)conformist biases. This promises to make interpretation of the effect of conformity on differences between populations, for example those connected by migration, rather difficult. Future research incorporating finite population sizes and migration would contribute added realism to these models.

Enhanced activity and water resistance of hierarchical flower-like Mn-Co binary oxides for ammonia-SCR reaction at low temperature

Manganese-based catalysts applied for selective catalytic reduction of NOx with ammonia (NH3-SCR) still exist certain drawbacks, including narrow operating window, weak water resistance and low selectivity. A number of novel Mn-Co binary oxides with hierarchical flower morphology are synthesized through solvothermal to boost the catalytic performance and H2O tolerance. The formation of the hierarchical flower morphology with high specific surface area could provide short diffusion channels and accessible adsorption sites for NH3 and NO species. Moreover, strong interaction between Mn and Co oxides endows the catalyst with enhanced Lewis acid sites, which could preferentially adsorb NH3 species than H2O. Therefore, the catalyst Mn-Co-F (1:1) presents superior activity with NOx conversion and N2 selectivity > 80% within 60–320 °C, together with remarkable water resistance of 99% NOx conversion under the condition of 15 vol% H2O. The reaction process over Mn-Co-F catalyst follows Langmuir-Hinshelwood mechanism below 200 °C and Eley-Rideal mechanism above 200 °C, respectively. This study creates a unique route for designing high-efficiency Mn-based catalysts used for the NH3-SCR process.

Characterizing chloroplast genomes and inferring maternal divergence of the Triticum–Aegilops complex

The Triticum (wheat)–Aegilops (goatgrass) complex has been extensively studied, but the evolutionary history of polyploid wheats has not been fully elucidated. The chloroplast (cp) with maternal inheritance and homoplasy can simplify the sequence-based evolutionary inferences, but informative inferences would require a complete and accurate cp genome sequence. In this study, 16 cp genomes representing five Aegilops and 11 Triticum species and subspecies were sequenced, assembled and annotated, yielding five novel circular cp genome sequences. Analyzing the assembled cp genomes revealed no marked differences in genome structure and gene arrangement across the assayed species. A polymorphism analysis of 72 published cp genome sequences representing 10 Aegilops and 15 Triticum species and subspecies detected 1183 SNPs and 1881 SSRs. More than 80% SNPs detected resided on the downstream and upstream gene regions and only 2.78% or less SNPs were predicted to be deleterious. The largest nucleotide diversity was observed in the short single-copy genomic region. Relatively weak selection pressure on cp coding genes was detected. Different phylogenetic analyses confirmed that the maternal divergence of the Triticum–Aegilops complex had three deep lineages each representing a diploid species with nuclear A, B, or D genome. Dating the maternal divergence yielded age estimates of divergence that matched well with those reported previously. The divergence between emmer and bread wheats occurred at 8200–11,200 years ago. These findings are useful for further genomic studies, provide insight into cp genome evolvability and allow for better understanding of the maternal divergence of the Triticum–Aegilops complex.

Bottleneck size and selection level reproducibly impact evolution of antibiotic resistance

During antibiotic treatment, the evolution of bacterial pathogens is fundamentally affected by bottlenecks and varying selection levels imposed by the drugs. Bottlenecks—that is, reductions in bacterial population size—lead to an increased influence of random effects (genetic drift) during bacterial evolution, and varying antibiotic concentrations during treatment may favour distinct resistance variants. Both aspects influence the process of bacterial evolution during antibiotic therapy and thereby treatment outcome. Surprisingly, the joint influence of these interconnected factors on the evolution of antibiotic resistance remains largely unexplored. Here we combine evolution experiments with genomic and genetic analyses to demonstrate that bottleneck size and antibiotic-induced selection reproducibly impact the evolutionary path to resistance in pathogenic Pseudomonas aeruginosa, one of the most problematic opportunistic human pathogens. Resistance is favoured—expectedly—under high antibiotic selection and weak bottlenecks, but—unexpectedly—also under low antibiotic selection and severe bottlenecks. The latter is likely to result from a reduced probability of losing favourable variants through drift under weak selection. Moreover, the absence of high resistance under low selection and weak bottlenecks is caused by the spread of low-resistance variants with high competitive fitness under these conditions. We conclude that bottlenecks, in combination with drug-induced selection, are currently neglected key determinants of pathogen evolution and outcome of antibiotic treatment.

Home-school distance among native and immigrant-origin lower secondary students in urban Northern Italy

ABSTRACT Residential proximity to schools is a relatively unexplored topic, especially as concerns its link to socially disadvantaged and immigrant-origin students. Such students may be more likely to attend the nearest school to their home, since their (families’) knowledge of school system is weak and school selection depends more on convenience than on evaluation of multiple schools’ pros and cons. This paper examines if, and to what extent, home-school distance differentiates native and immigrant-origin students’ educational experiences. Analyses – carried out in two Northern Italian cities (Milan and Bologna) and referring to students enrolled in the compulsory and comprehensive final year of lower secondary education in the 2014/15 school year – focus on minimum and actual home-school distances, the share of students engaging in ‘flight’ from the nearest school, and the appeal exerted by schools on culturally advantaged families. Results show that native and immigrant-origin students’ school proximity is almost the same. Nonetheless, natives are more likely to attend schools that are farther from home; noteworthy differences are detectable in some disadvantaged areas. Native families, especially in Milan, are more likely to ‘flee’ towards non-state schools, which display a particularly strong appeal towards native families featuring high parental education status.

Effects of artificial light at night on the nest-site selection, reproductive success and behavior of a synanthropic bird

Understanding how artificial light at night (ALAN) impacts wildlife is increasingly important because more and more species are colonizing urban areas. As most of the bird studies on ALAN use controlled light set inside or around nest-boxes, the ecological effect of ALAN resulting from in situ streetlight on birds remains contentious. The barn swallow (Hirundo rustica) often builds open nests on buildings, which are directly exposed to varying intensity of ALAN, and thus provides a good system to examine the effect of in situ ALAN on birds. By examining the nest-site selection, reproductive success and behavior of barn swallows under various ALAN intensity in Taipei City, we found a positive effect of ALAN on their fledging success; nonetheless, such effect was only found in the swallows’ first brood, but not second one. We also found that parent birds in the nests with higher ALAN intensity had higher feeding rates and more extended feeding time past sunset, which were likely stimulated by the increased begging behavior of their chicks. The night-feeding behavior might contribute to the increased fledging success, especially at the early breeding season. Interestingly, despite of the reproductive benefits obtained from ALAN, we found that the barn swallows did not select nest sites regarding ALAN intensity. The weak nest-site selection perhaps result from the complex life history interactions involving ALAN and/or confounding factors associated with ALAN in cities. This study improves our understanding of how urban birds, especially open-nesting ones, respond to in situ ALAN and provides useful information for developing urban conservation strategies.

Effect of α texture on the anisotropy of yield strength in Ti–6Al–2Zr–1Mo–1V alloy fabricated by laser directed energy deposition technique

Near α titanium alloys fabricated by laser directed energy deposition (LDED) technique always display strong anisotropies of mechanical properties even they only contain a small amount of strong-textured β phase. This work gives a detailed investigation on the effect of α texture on the anisotropy of yield strength of a laser directed energy deposited (LDEDed) Ti–6Al–2Zr–1Mo–1V (TA15) alloy by consideration of the solid phase transformation. Results indicate that the yield strength of LDEDed TA15 alloy along three directions, the building direction (VD), the horizontal direction (HD) and 45° direction (OD), shows dramatically differences of 899.7 MPa, 937.3 MPa and 1016.7 MPa. The α texture is transformed from strong β texture respected to Burgers orientation relationship with weak variant selection. The crystallographic orientation and spatial orientation of textured α phase are the key factors to dominate the yield strength of LDEDed TA15 alloy at different loading directions. Along the VD direction, strong intensity of texture is found in the easily-activated <101¯1> and <112¯0> orientation of α phase, resulting in the largest Schmid factor. However, strong intensity along the OD direction in the hardly-activated <0001> orientation for basal and prismatic slip system of α phase leads to the lowest Schmid factor. The spatial orientation of textured α phase also affects the effective slip distance, which leads to the difference of resolved shear stress in different loading directions. The coupled effect of Schimd factor and effective slip distance controlled by transformed α texture mainly results in the anisotropy of yield strength.

Selection for Plastic, Pathogen-Inducible Recombination in a Red Queen Model with Diploid Antagonists.

Antagonistic interactions and co-evolution between a host and its parasite are known to cause oscillations in the population genetic structure of both species (Red Queen dynamics). Potentially, such oscillations may select for increased sex and recombination in the host, although theoretical models suggest that this happens under rather restricted values of selection intensity, epistasis, and other parameters. Here, we explore a model in which the diploid parasite succeeds to infect the diploid host only if their phenotypes at the interaction-mediating loci match. Whenever regular oscillations emerge in this system, we test whether plastic, pathogen-inducible recombination in the host can be favored over the optimal constant recombination. Two forms of the host recombination dependence on the parasite pressure were considered: either proportionally to the risk of infection (prevention strategy) or upon the fact of infection (remediation strategy). We show that both forms of plastic recombination can be favored, although relatively infrequently (up to 11% of all regimes with regular oscillations, and up to 20% of regimes with obligate parasitism). This happens under either strong overall selection and high recombination rate in the host, or weak overall selection and low recombination rate in the host. In the latter case, the system’s dynamics are considerably more complex. The prevention strategy is favored more often than the remediation one. It is noteworthy that plastic recombination can be favored even when any constant recombination is rejected, making plasticity an evolutionary mechanism for the rescue of host recombination.

Spontaneous chiral self-assembly of CdSe@CdS nanorods

Spontaneous chiral self-assembly of CdSe@CdS nanorods

Absence of Circadian Rhythm in Fecal Microbiota of Laying Hens under Common Light.

Simple SummaryThe circadian rhythm of gut microbiota is an important biological rhythm that plays a crucial role in host health. This study showed that the defecation time may be an important factor in the diversity, proportion, and functions of the feces microbial community. However, there was no circadian rhythm of microbial community assembly confirmed by JTK_Cycle analysis, which is a tool for identifying and characterizing oscillations and can efficiently identify and characterize cycling variables in large data sets. These results might suggest there was no obvious circadian rhythm of fecal microbiota in laying hens under common light.The circadian rhythm of gut microbiota is an important biological rhythm that plays a crucial role in host health. However, few studies have determined the associations between the circadian rhythm and gut microbiota in laying hens. The present experiment investigated the circadian rhythm of fecal microbiota in laying hens. Feces samples were collected from 10 laying hens at nine different time points (06:00–12:00–18:00–00:00–06:00–12:00–18:00–00:00–06:00) to demonstrate the circadian rhythm of fecal microbiota. The results showed that the α and β diversity of the fecal microbiota fluctuated significantly at different time points. Beta nearest taxon index analysis suggested that assembly strategies of the abundant and rare amplicon sequence variant (ASV) sub-communities were different. Abundant ASVs preferred dispersal limitation (weak selection), and rare ASVs were randomly formed due to the “non-dominant” fractions. Highly robust fluctuations of fecal microbiota at the phylum level were found. For example, Firmicutes and Proteobacteria fluctuated inversely to each other, but the total ratio remained in a dynamic balance over 48 h. We identified that temporal dynamic changes had a significant effect on the relative abundance of the important bacteria in the feces microbial community using the random forest algorithm. Eight bacteria, Ruminococcus gnavus, Faecalibacterium, Ruminococcaceae, Enterococcus cecorum, Lachnospiraceae, Clostridium, Clostridiales, and Megamonas, showed significant changes over time. One unexpected finding was the fact that these eight bacteria belong to Firmicutes. The pathways showed significant fluctuation, including xenobiotic biodegradation and metabolism, carbohydrate metabolism, and amino acid metabolism, which were consistent with the metabolic functions of amino acids and carbohydrates from the feed. This study showed that the defecation time may be an important factor in the diversity, proportion, and functions of the feces microbial community. However, there was no circadian rhythm of microbial community assembly confirmed by JTK_Cycle analysis. These results might suggest there was no obvious circadian rhythm of fecal microbiota in laying hens under common light.

The price adjustment hazard function: Evidence from high inflation periods

The price adjustment hazard function - the probability of a good’s price changing as a function of its price misalignment - enables the examination of the relationship between price stickiness and monetary non-neutrality without specifying a micro-founded model, as discussed by Caballero and Engel (1993a, 2007). Using the micro data underlying the U.S. Consumer Price Index going back to the 1970s, we estimate the hazard function relying on empirical patterns from high and low inflation periods. We find that the relation between inflation and higher moments of the price change distribution is particularly informative for the shape of the hazard function. Our estimated hazard function is relatively flat with positive values at zero. It implies weak price selection and a high degree of monetary non-neutrality: about 60% of the degree implied by the Calvo model, and much higher than what menu cost models imply. In addition, our estimated function is asymmetric: price increases are considerably more likely to occur than price decreases of the same magnitude.

A method of sound source recognition based on tow weak selection compressed sensing

The current compression sensing sound source recognition algorithm is mainly based on prior knowledge of exact sparsity. This paper proposes the two stagewise weak orthogonal matching pursuit (TSWOMP) compressed sensing reconstruction algorithm for sound source recognition, which selects atoms and detects the reliability of the selected atoms, and deletes the wrong atoms to obtain the final set of atoms. The results of TSWOMP, stagewise weak orthogonal matching pursuit (SWOMP) and conventional beamforming under different frequencies and different SNR are compared through numerical simulation methods. The results show that TSWOMP can effectively reduce the width of the main lobe, suppressing the influence of the side lobes, and improve the resolution. The recognition accuracy of TSWOMP is significantly higher than that of SWOMP. In addition, it can effectively reduce the algorithm's dependence on sparsity.

Soil, senescence and exudate utilisation: characterisation of the\xa0Paragon var. spring bread wheat root microbiome

BackgroundConventional methods of agricultural pest control and crop fertilisation are unsustainable. To meet growing demand, we must find ecologically responsible means to control disease and promote crop yields. The root-associated microbiome can aid plants with disease suppression, abiotic stress relief, and nutrient bioavailability. The aim of the present work was to profile the community of bacteria, fungi, and archaea associated with the wheat rhizosphere and root endosphere in different conditions. We also aimed to use 13CO2 stable isotope probing (SIP) to identify microbes within the root compartments that were capable of utilising host-derived carbon.ResultsMetabarcoding revealed that community composition shifted significantly for bacteria, fungi, and archaea across compartments. This shift was most pronounced for bacteria and fungi, while we observed weaker selection on the ammonia oxidising archaea-dominated archaeal community. Across multiple soil types we found that soil inoculum was a significant driver of endosphere community composition, however, several bacterial families were identified as core enriched taxa in all soil conditions. The most abundant of these were Streptomycetaceae and Burkholderiaceae. Moreover, as the plants senesce, both families were reduced in abundance, indicating that input from the living plant was required to maintain their abundance in the endosphere. Stable isotope probing showed that bacterial taxa within the Burkholderiaceae family, among other core enriched taxa such as Pseudomonadaceae, were able to use root exudates, but Streptomycetaceae were not.ConclusionsThe consistent enrichment of Streptomycetaceae and Burkholderiaceae within the endosphere, and their reduced abundance after developmental senescence, indicated a significant role for these families within the wheat root microbiome. While Streptomycetaceae did not utilise root exudates in the rhizosphere, we provide evidence that Pseudomonadaceae and Burkholderiaceae family taxa are recruited to the wheat root community via root exudates. This deeper understanding crop microbiome formation will enable researchers to characterise these interactions further, and possibly contribute to ecologically responsible methods for yield improvement and biocontrol in the future.

Strong sexual selection fails to protect against inbreeding-driven extinction in a moth

Abstract Sexual selection is predicted to influence population persistence because skew in male reproductive success may facilitate the purging of mutation load. We manipulated the strength of sexual selection in populations of Indian meal moths, Plodia interpunctella, by adjusting adult sex ratios to be either male- or female-biased, leading to strong and weak sexual selection in males, respectively. After between 19 and 22 generations of experimental evolution, we examined whether mutation load differed between these populations by enforcing successive generations of inbreeding, tracking extinction events, offspring viability and assaying the effect of inbreeding on male mating success and female choice. We found no effect of the strength of sexual selection on the rate of extinction or offspring viability. We did, however, find changes in both male mating success and female choice, with both being influenced by the sex ratio treatment and the number of generations of inbreeding. Males from male-biased populations were more successful at mating with stock females, and mating success declined rapidly with inbreeding regardless of sex ratio treatment. Females from male-biased populations were less likely to mate with stock males at the onset of the experiment, but tended to mate more frequently with increasing inbreeding compared to females from female-biased populations. Our results demonstrate that while mating behaviors have diverged between male-biased and female-biased lines mutation loads remained similar. This suggests that the benefits of sexual selection to population fitness may be low or slow to accumulate under the benign environmental conditions in which these populations evolved.