A Longitudinal Study of Dominant E. coli Lineages and Antimicrobial Resistance in the Gut of Children Living in an Upper Middle-income Country

The gastrointestinal tract constitutes a complex and diverse ecosystem. Escherichia coli is one of the most frequently studied and characterized species in the gut ecosystem, nevertheless, there has been little research to determine their diversity and population dynamics in the intestines of children over time. In this prospective study, a fresh fecal sample was obtained from children longitudinally over one year (30 fecal samples at sampling period 1 and 22 fecal samples at sampling periods 2 and 3). From each stool sample, five E. coli colonies were randomly selected (n = 405 E. coli isolates total) in order to characterize the genotype and phenotypic antimicrobial resistance patterns. We found that all numerically dominant E. coli lineages in children's intestines were transient colonizers, and antimicrobial resistance phenotypes of these strains varied significantly over time without any apparent selective force. Whole-genome sequencing of 3 isolates belonging to ST131 found in one child during the sampling period I and II indicated that isolates were three different ST 131 clones that carried extended-spectrum β-lactamase (ESBL) genes.

Medawar and Hamilton on the selective forces in the evolution of ageing

Both Medawar and Hamilton contributed key ideas to the modern evolutionary theory of ageing. In particular, they both suggested that, in populations with overlapping generations, the force with which selection acts on traits declines with the age at which traits are expressed. This decline would eventually cause ageing to evolve. However, the biological literature diverges on the relationship between Medawar’s analysis of the force of selection and Hamilton’s. Some authors appear to believe that Hamilton perfected Medawar’s insightful, yet ultimately erroneous analysis of this force, while others see Hamilton’s analysis as a coherent development of, or the obvious complement to Medawar’s. Here, the relationship between the two analyses is revisited. Two things are argued for. First, most of Medawar’s alleged errors that Hamilton would had rectified seem not to be there. The origin of these perceived errors appears to be in a misinterpretation of Medawar’s writings. Second, the mathematics of Medawar and that of Hamilton show a significant overlap. However, different meanings are attached to the same mathematical expression. Medawar put forth an expression for the selective force on age-specific fitness. Hamilton proposed a full spectrum of selective forces each operating on age-specific fitness components, i.e. mortality and fertility. One of Hamilton’s expressions, possibly his most important, is of the same form as Medawar’s expression. But Hamilton’s selective forces on age-specific fitness components do not add up to yield Medawar’s selective force on age-specific fitness. It is concluded that Hamilton’s analysis should be considered neither as a correction to Medawar’s analysis nor as its obvious complement.

Siderophores as an iron source for Prochlorococcus in deep chlorophyll maximum layers of the oligotrophic ocean

Prochlorococcus is one of the most abundant photosynthesizing organisms in the oligotrophic oceans. Gene content variation among Prochlorococcus populations in separate ocean basins often mirrors the selective pressures imposed by the region's distinct biogeochemistry. By pairing genomic datasets with trace metal concentrations from across the global ocean, we show that the genomic capacity for siderophore-mediated iron uptake is widespread in low-light adapted Prochlorococcus populations from iron-depleted regions of the oligotrophic Pacific and S. Atlantic oceans: Prochlorococcus siderophore consumers were absent in the N. Atlantic ocean (higher iron flux) but constituted up to half of all Prochlorococcus genomes from metagenomes in the N. Pacific (lower iron flux). Prochlorococcus siderophore consumers, like many other bacteria with this trait, also lack siderophore biosynthesis genes indicating that they scavenge exogenous siderophores from seawater. Statistical modeling suggests that the capacity for siderophore uptake is endemic to remote ocean regions where atmospheric iron fluxes are the smallest, particularly at deep chlorophyll maximum and primary nitrite maximum layers. We argue that abundant siderophore consumers at these two common oceanographic features could be a symptom of wider community iron stress, consistent with prior hypotheses. Our results provide a clear example of iron as a selective force driving the evolution of Prochlorococcus.

The evolution of targeted cannibalism and cannibal-induced defenses in invasive populations of cane toads

Biotic conflict can create evolutionary arms races, in which innovation in one group increases selective pressure on another, such that organisms must constantly adapt to maintain the same level of fitness. In some cases, this process is driven by conflict among members of the same species. Intraspecific conflict can be an especially important selective force in high-density invasive populations, which may favor the evolution of strategies for outcompeting or eliminating conspecifics. Cannibalism is one such strategy; by killing and consuming their intraspecific competitors, cannibals enhance their own performance. Cannibalistic behaviors may therefore be favored in invasive populations. Here, we show that cane toad tadpoles (Rhinella marina) from invasive Australian populations have evolved an increased propensity to cannibalize younger conspecifics as well as a unique adaptation to cannibalism—a strong attraction to vulnerable hatchlings—that is absent in the native range. In response, vulnerable conspecifics from invasive populations have evolved both stronger constitutive defenses and greater cannibal-induced plastic responses than their native range counterparts (i.e., rapid prefeeding development and inducible developmental acceleration). These inducible defenses are costly, incurring performance reductions during the subsequent life stage, explaining why plasticity is limited in native populations where hatchlings are not targeted by cannibalistic tadpoles. These results demonstrate the importance of intraspecific conflict in driving rapid evolution, highlight how plasticity can facilitate adaptation following shifts in selective pressure, and show that evolutionary processes can produce mechanisms that regulate invasive populations.

Functional and Structural Segregation of Overlapping Helices in HIV-1

Overlapping coding regions balance selective forces between multiple genes. One possible division of nucleotide sequence is that the predominant selective force on a particular nucleotide can be attributed to just one gene. While this arrangement has been observed in regions in which one gene is structured and the other is disordered, we sought to explore how overlapping genes balance constraints when both protein products are structured over the same sequence. We use a combination of sequence analysis, functional assays and selection experiments to examine an overlapped region in HIV-1 that encodes helical regions in both Env and Rev. We find that functional segregation occurs even in this overlap, with each protein spacing its functional residues in a manner that allows a mutable non-binding face of one helix to encode important functional residues on a charged face in the other helix. Additionally, our experiments reveal novel and critical functional residues in Env and have implications for the therapeutic targeting of HIV-1.

Outbreeding depression as a selective force on mixed mating in the mangrove rivulus fish,Kryptolebias marmoratus

Mixed mating, a reproduction strategy utilized by many plants and invertebrates, optimizes the cost to benefit ratio of a labile mating system. One type of mixed mating includes outcrossing with conspecifics and self-fertilizing one’s own eggs. The mangrove rivulus fish (Kryptolebias marmoratus)is one of two vertebrates known to employ both self-fertilization (selfing) and outcrossing. Variation in rates of outcrossing and selfing within and among populations produces individuals with diverse levels of heterozygosity. I designed an experiment to explore the consequences of variable heterozygosity across four ecologically relevant conditions of salinity and water availability (10‰, 25‰, and 40‰ salinity, and twice daily tide changes). I report a significant increase in mortality in the high salinity (40‰) treatment. I also report significant effects on fecundity measures with increasing heterozygosity. The odds of laying eggs decreased with increasing heterozygosity across all treatments, and the number of eggs laid decreased with increasing heterozygosity in the 10‰ and 25‰ treatments. Increasing heterozygosity also was associated with a reduction liver mass and body condition in all treatments. My results highlight the fitness challenges that accompany living in mangrove forests ecosystem and provide the first evidence for outbreeding depression on reproductive and condition-related traits.

Of mice and women: advances in mammalian sperm competition with a focus on the female perspective

Although initially lagging behind discoveries being made in other taxa, mammalian sperm competition is now a productive and advancing field of research. Sperm competition in mammals is not merely a ‘sprint-race’ between the gametes of rival males, but rather a race over hurdles; those hurdles being the anatomical and physiological barriers provided by the female reproductive tract, as well as the egg and its vestments. With this in mind, in this review, I discuss progress in the field while focusing on the female perspective. I highlight ways by which sperm competition can have positive effects on female reproductive success and discuss how competitive outcomes are not only owing to dynamics between the ejaculates of rival males, but also attributable to mechanisms by which female mammals bias paternity toward favourable sires. Drawing on examples across different species—from mice to humans—I provide an overview of the accumulated evidence which firmly establishes that sperm competition is a key selective force in the evolution of male traits and detail how females can respond to increased sperm competitiveness with increased egg resistance to fertilization. I also discuss evidence for facultative responses to the sperm competition environment observed within mammal species. Overall, this review identifies shortcomings in our understanding of the specific mechanisms by which female mammals ‘select’ sperm. More generally, this review demonstrates how, moving forward, mammals will continue to be effective animal models for studying both evolutionary and facultative responses to sperm competition. This article is part of the theme issue ‘Fifty years of sperm competition’.

Ecology and Occurrence of Pugilina (Hemifusus) cochlidium and Pugilina erecta (Gastropoda: Melongenidae) from Thondi coast , Palk strait in Tamil Nadu

The environment is a selective force of an organism and its population. Knowledge of the environmental parameters of study area is thus an essential prerequisite to understand the composition of animal’s inhabitants and their distribution. In the present study the Ecology and Occurrence of two species of Pugilina (Hemifusus) cochlidium and Pugilina erecta along the coast of Thondi are influenced by the environmental factors with less significance. As these animals are bottom living, they were not much affected by changes in the environmental factors. In the present study the maximum temperature was recorded during summer season and the minimum during monsoon. The changes in the temperature have been proved to have meager influence in the distribution of these two species as the temperature variation was not sufficient enough to affect their distribution.Keywords: Pugilina (Hemifusus) cochlidium, Pugilina erecta, temperature, monsoon, distribution.

Egg-laying site, fecundity and degree of sexual size dimorphism in frogs

Female fecundity is an important selective force leading to female-biased sexual size dimorphism (SSD) in frogs. Because anurans exhibit diverse reproductive modes, we investigated whether variation in SSD and fecundity are related with oviposition site. We asked whether arboreal breeding species show pronounced female-biased SSD and if, paradoxically, females have lower fecundity because of the costs of carrying oocytes and amplectant males. Conversely, we tested whether species that deposit eggs in concealed sites show less pronounced SSD, because females do not carry males and space limitation may reduce female size and fecundity. Our results showed that, in general, males were approximately 20% smaller than females. However, for species with hidden oviposition sites, males and females exhibited more similar body sizes and arboreal hylids showed more pronounced female-biased SSD. Overall, fecundity was higher in aquatic breeders, as expected, but in hylids, fecundity was smaller in arboreal breeders, which suggests that arboreality may impose restrictions on fecundity. By analysing SSD in a broader and more specific lineage (Hylidae), we found that reproductive microhabitat may also influence female size and fecundity, playing an important role in the evolution of SSD in frogs at different evolutionary scales.

Evidence of purifying selection in exon 3 of interferon regulatory factor-5 (IRF-5) gene in Nigerian indigenous chickens

Immune genes are under acute selective pressure in order to resist pathogenic attacks. It is not really clear the type of selective force that acts on immune genes because of diverse pathogen load and host population density, so this experiment studied the selective force acting on exon 3 of IRF-5 gene in Nigerian indigenous chickens. DNA was extracted from 90 Nigerian indigenous chickens and exon 3 of IRF-5 gene was sequenced. The region was tested for deviation from neutrality using DnaSP. The Mean non-synonymous substitutions per non-synonymous site (dN) and mean synonymous substitutions per synonymous site (dS) were calculated to predict likely selective force/event acting on the region using HyPhy software implemented inside MEGA6 software. All the test of neutrality indices obtained for exon 3 of IRF-5 gene in Nigerian indigenous chickens were greater than 1 except Tajima’s D value of normal feather chickens (0.93) and Fu’s Fs value of naked neck chickens (0.71). The dN of 0.00 and negative dS were estimated for exon 3 of IRF-5 gene in all the three genotypes. This study therefore concluded that purifying selective forces are acting on exon 3 of IRF-5 gene in Nigerian indigenous chickens. Keywords: Chickens, co-evolution, immunity, pathogens, selection.