Miracle-dz/UniFAR-FTUs huggingface dataset:
ON THE COYNE AND ORR‐IGIN OF SPECIES: EFFECTS OF INTRINSIC POSTZYGOTIC ISOLATION, ECOLOGICAL DIFFERENTIATION, X CHROMOSOME SIZE, AND SYMPATRY ON DROSOPHILA SPECIATION

Coyne and Orr found that mating discrimination (premating isolation) evolves much faster between sympatric than allopatric Drosophila species pairs. Their meta‐analyses established that this pattern, expected under reinforcement, is common and that Haldane's rule is ubiquitous in Drosophila species divergence. We examine three possible contributors to the reinforcement pattern: intrinsic postzygotic isolation, dichotomized as to whether hybrid males show complete inviability/sterility; host‐plant divergence, as a surrogate for extrinsic postzygotic isolation; and X chromosome size, whether roughly 20% or 40% of the genome is X‐linked. We focus on “young” species pairs with overlapping ranges, contrasted with allopatric pairs. Using alternative criteria for “sympatry” and tests that compare either level of prezygotic isolation in sympatry or frequency of sympatry, we find no statistically significant effects associated with X chromosome size or our coarse quantifications of intrinsic postzygotic isolation or ecological differentiation. Although sympatric speciation seems very rare in animals, the pervasiveness of the reinforcement pattern and the commonness of range overlap for close relatives indicate that speciation in Drosophila is often not purely allopatric. It remains to determine whether increased premating isolation with sympatry results from secondary contact versus parapatric speciation and what drives this pattern.
Floral Phenology of Upper Amazon Cocoa Trees: Implications for Reproduction and Productivity of Cocoa

A study of the floral phenology of cocoa trees was carried out between 2006 and 2008 at Kubease in the Ashanti Region of Ghana, using one hundred cocoa trees from ten farm plots. The objective was to assess the contribution of floral phenology to the productivity of cocoa. Cocoa like all tropical tree species exhibited seasonally-related phenological patterns involving overlapping cycles under both intrinsic and extrinsic controls. However, unlike most tropical plants, flowering was in the rainy season. The production of new pods or cherelles increased during the major rainy season (June, July, and August), but was evenly distributed from the minor to the dry season. Production of small and medium pods peaked in August whereas production of large pods peaked in October. There was a positive correlation between new pod production and pods abortion (r = 0.69; n = 100; P < 0.05). Temperature, light intensity, and rainfall positively affected production of floral buds and production of open flowers. However, rainfall had the greatest influence on the phenological cycle of the cocoa plant. The floral phenological pattern also coincided with the activity of the main pollinators of cocoa which resulted in enhanced reproductive capacity for increased production of cocoa.
POLLINATOR SPECIFICITY DRIVES STRONG PREPOLLINATION REPRODUCTIVE ISOLATION IN SYMPATRIC SEXUALLY DECEPTIVE ORCHIDS

Few studies have quantified the full range of pre‐ and postzygotic barriers that limit introgression between closely related plant species. Here, we assess the strength of four isolating mechanisms operating between two morphologically similar and very closely related sympatric orchid taxa, Chiloglottis valida and C. aff. jeanesii. Each taxon sexually attracts its specific wasp pollinator via distinct floral volatile chemistry. Behavioral experiments with flowers and synthetic versions of their floral volatiles confirmed that very strong pollinator isolation is mediated by floral odor chemistry. However, artificially placing flowers of the two taxa in contact proximity revealed the potential for rare interspecific pollination. Although we found hybrid vigor in F1 hybrids produced by hand‐crossing, genetic analysis at both nuclear and chloroplast loci showed significant and moderate‐to‐strong genetic differentiation between taxa. A Bayesian clustering method for the detection of introgression at nuclear loci failed to find any evidence for hybridization across 571 unique genotypes at one site of sympatry. Rather than inhibiting gene flow, postpollination barriers surveyed here show no contribution to overall reproductive isolation. This demonstrates the primacy of pollinators in maintaining species boundaries in these orchids, which display one of the strongest known examples of prepollination floral isolation.
Long-term Safety and Efficacy of Mexiletine for Patients With Skeletal Muscle Channelopathies.

Long-term Safety and Efficacy of Mexiletine for Patients With Skeletal Muscle Channelopathies The skeletal muscle channelopathies include the nondystrophic myotonias and the periodic paralyses. Myotonia is the core clinical feature of the nondystrophic myotonias and may be a feature of hyperkalemic periodic paralysis. It is caused by mutations in the skeletal muscle voltage-gated chloride channel gene CLCN1 or sodium channel gene SCN4A. Adequate treatment of myotonia is important for quality of life, mobility, and functional independence.1 Mexiletine acts on voltage-gated sodium channels. Its most frequent adverse effect is gastrointestinal2,3 but minor neurological effects (eg, tremor) are also reported.4,5 Two randomized clinical trials have demonstrated the efficacy of mexiletine for the short-term treatment of myotonia2,3 but long-term safety and efficacy data outside a trial setting are lacking. We performed a retrospective review of our large skeletal muscle channelopathy patient cohort to address this.
Third‐party punishers are rewarded, but third‐party helpers even more so

Punishers can benefit from a tough reputation, where future partners cooperate because they fear repercussions. Alternatively, punishers might receive help from bystanders if their act is perceived as just and other‐regarding. Third‐party punishment of selfish individuals arguably fits these conditions, but it is not known whether third‐party punishers are rewarded for their investments. Here, we show that third‐party punishers are indeed rewarded by uninvolved bystanders. Third parties were presented with the outcome of a dictator game in which the dictator was either selfish or fair and were allocated to one of three treatments in which they could choose to do nothing or (1) punish the dictator, (2) help the receiver, or (3) choose between punishment and helping, respectively. A fourth player (bystander) then sees the third‐party's decision and could choose to reward the third party or not. Third parties that punished selfish dictators were more likely to be rewarded by bystanders than third parties that took no action in response to a selfish dictator. However, helpful third parties were rewarded even more than third‐party punishers. These results suggest that punishment could in principle evolve via indirect reciprocity, but also provide insights into why individuals typically prefer to invest in positive actions.
Origin, evolution, and population genetics of the selfish Segregation Distorter gene duplication in European and African populations of Drosophila melanogaster

Meiotic drive elements are a special class of evolutionarily “selfish genes” that subvert Mendelian segregation to gain preferential transmission at the expense of homologous loci. Many drive elements appear to be maintained in populations as stable polymorphisms, their equilibrium frequencies determined by the balance between drive (increasing frequency) and selection (decreasing frequency). Here we show that a classic, seemingly balanced, drive system is instead characterized by frequent evolutionary turnover giving rise to dynamic, rather than stable, equilibrium frequencies. The autosomal Segregation Distorter (SD) system of the fruit fly Drosophila melanogaster is a selfish coadapted meiotic drive gene complex in which the major driver corresponds to a partial duplication of the gene Ran‐GTPase activating protein (RanGAP). SD chromosomes segregate at similar, low frequencies of 1–5% in natural populations worldwide, consistent with a balanced polymorphism. Surprisingly, our population genetic analyses reveal evidence for parallel, independent selective sweeps of different SD chromosomes in populations on different continents. These findings suggest that, rather than persisting at a single stable equilibrium, SD chromosomes turn over frequently within populations.
Socio-economic status and oesophageal cancer: results from a population-based case-control study in a high-risk area.

BACKGROUND Cancer registries in the 1970s showed that parts of Golestan Province in Iran had the highest rate of oesophageal squamous cell carcinoma (OSCC) in the world. More recent studies have shown that while rates are still high, they are approximately half of what they were before, which might be attributable to improved socio-economic status (SES) and living conditions in this area. We examined a wide range of SES indicators to investigate the association between different SES components and risk of OSCC in the region. METHODS Data were obtained from a population-based case-control study conducted between 2003 and 2007 with 300 histologically proven OSCC cases and 571 matched neighbourhood controls. We used conditional logistic regression to compare cases and controls for individual SES indicators, for a composite wealth score constructed using multiple correspondence analysis, and for factors obtained from factors analysis. RESULTS We found that various dimensions of SES, such as education, wealth and being married were all inversely related to OSCC. The strongest inverse association was found with education. Compared with no education, the adjusted odds ratios (95% confidence intervals) for primary education and high school or beyond were 0.52 (0.27-0.98) and 0.20 (0.06-0.65), respectively. CONCLUSIONS The strong association of SES with OSCC after adjustment for known risk factors implies the presence of yet unidentified risk factors that are correlated with our SES measures; identification of these factors could be the target of future studies. Our results also emphasize the importance of using multiple SES measures in epidemiological studies.
Adrenaline induced elevated blood pressure in Wistar rats is not reversed by oral administration of Archachatina marginata hemolymph.

collaboration between all authors. Author ABO designed the study and wrote the manuscript in conjunction with authors PIJ and ADW. Authors UA, PIJ and JAO conducted the wet lab analyses including the histological. Author ADW performed the statistical analyses and plotted all graphs. All authors read and approved the final manuscript. ABSTRACT Background: The increasing incidence of high blood pressure, its complications and associated fatalities has led to an upsurge in the use of alternate forms of medicaments in its management. The oral ingestion of the hemolymph of Archachatina marginata is commonly used as an antihypertensive by the Yoruba people of South West Nigeria. This study investigated the effect of oral administration of Archachatina hemolymph on normotensive and adrenaline induced hypertensive wistar rats. Methods: The hemolymph of Archachatina marginata was orally administered at doses of 22.8 and 45.6 mg/kg body weight to normotensive and adrenaline induced hypertensive rats for 7 days. Blood pressure parameters were measured via a polygraph. Histopathological assessment of the heart tissue was conducted. Data gathering and analysis were done in 2014 (February – August). Results: In this study, the orally administered hemolymph had no significant ( p ˂0.05) lowering effect on the systolic/ diastolic pressure, pulse pressure, mean arterial pressure or heart rate of either the normotensive or adrenaline induced hypertensive rats. Histopathological assessment of the cross section of the heart tissues shows the hemolymph had no adverse effect on the examined cross section of the heart tissue. Conclusion: Based on the data from this study, there is no justifiable reason for the use of the hemolymph of Archachatina marginata as a antihypertensive.
Effectiveness of Short-Term Dolphin-Assisted Therapy for Children with Severe Disabilities

The effectiveness of two week dolphin-assisted therapy was compared to the effectiveness of six month conventional physical and speech-language therapy. Data were analyzed using a multiple baseline single subject across settings design, for 47 children with severe disabilities (20 females, 27 males), of multiple etiologies. Children were placed in a physical therapy group (n = 17, mean age = 6 years, 8 months) and a speech language group (n = 30, mean age = 6 years 5 months). Standardized charting procedures were used to measure acquisition of independent motor and speech-language skills. Use of t tests for nonindependent samples indicates that relative to conventional long-term therapy, dolphin-assisted therapy, as practiced by Dolphin Human Therapy, achieves positive results more quickly and is also more cost effective.
Detecting epistasis from an ensemble of adapting populations

The role that epistasis plays during adaptation remains an outstanding problem, which has received considerable attention in recent years. Most of the recent empirical studies are based on ensembles of replicate populations that adapt in a fixed, laboratory controlled condition. Researchers often seek to infer the presence and form of epistasis in the fitness landscape from the time evolution of various statistics averaged across the ensemble of populations. Here, we provide a rigorous analysis of what quantities, drawn from time series of such ensembles, can be used to infer epistasis for populations evolving under weak mutation on finite‐site fitness landscapes. First, we analyze the mean fitness trajectory—that is, the time course of the ensemble average fitness. We show that for any epistatic fitness landscape and starting genotype, there always exists a non‐epistatic fitness landscape that produces the exact same mean fitness trajectory. Thus, the presence of epistasis is not identifiable from the mean fitness trajectory. By contrast, we show that two other ensemble statistics—the time evolution of the fitness variance across populations, and the time evolution of the mean number of substitutions—can detect certain forms of epistasis in the underlying fitness landscape.
Ants medicate to fight disease

Parasites are ubiquitous, and the ability to defend against these is of paramount importance. One way to fight diseases is self‐medication, which occurs when an organism consumes biologically active compounds to clear, inhibit, or alleviate disease symptoms. Here, we show for the first time that ants selectively consume harmful substances (reactive oxygen species, ROS) upon exposure to a fungal pathogen, yet avoid these in the absence of infection. This increased intake of ROS, while harmful to healthy ants, leads to higher survival of exposed ants. The fact that ingestion of this substance carries a fitness cost in the absence of pathogens rules out compensatory diet choice as the mechanism, and provides evidence that social insects medicate themselves against fungal infection, using a substance that carries a fitness cost to uninfected individuals.
Persistent directional selection on body size and a resolution to the paradox of stasis

Directional selection on size is common but often fails to result in microevolution in the wild. Similarly, macroevolutionary rates in size are low relative to the observed strength of selection in nature. We show that many estimates of selection on size have been measured on juveniles, not adults. Further, parents influence juvenile size by adjusting investment per offspring. In light of these observations, we help resolve this paradox by suggesting that the observed upward selection on size is balanced by selection against investment per offspring, resulting in little or no net selection gradient on size. We find that trade‐offs between fecundity and juvenile size are common, consistent with the notion of selection against investment per offspring. We also find that median directional selection on size is positive for juveniles but no net directional selection exists for adult size. This is expected because parent–offspring conflict exists over size, and juvenile size is more strongly affected by investment per offspring than adult size. These findings provide qualitative support for the hypothesis that upward selection on size is balanced by selection against investment per offspring, where parent–offspring conflict over size is embodied in the opposing signs of the two selection gradients.
Plasma Coenzyme Q10 Levels in Patients With Multiple System Atrophy.

IMPORTANCE Multiple system atrophy (MSA) is an intractable neurodegenerative disease characterized by autonomic failure in addition to various combinations of parkinsonism, cerebellar ataxia, and pyramidal dysfunction. It has recently been reported that functionally impaired variants of COQ2, which encodes an essential enzyme in the biosynthetic pathway of coenzyme Q10 (CoQ10), are associated with MSA. However, little is known about the role of CoQ10 in the pathogenesis of MSA. OBJECTIVE To compare the levels of plasma CoQ10 in patients with MSA with those in age-, sex-, and COQ2 genotype-matched controls. DESIGN, SETTING, AND PARTICIPANTS We enrolled 44 Japanese patients with MSA and 39 Japanese controls from September 1, 2012, to December 31, 2015. Patients with MSA were diagnosed on the basis of the second consensus criteria by at least 2 neurologists. Plasma CoQ10 levels were measured by high-performance liquid chromatography with electrochemical detection. Sanger sequencing of COQ2 was performed to determine the COQ2 genotypes. Multiple logistic regression analysis was performed to determine the association between MSA and the plasma CoQ10 level. MAIN OUTCOMES AND MEASURES Plasma CoQ10 levels in patients with MSA were compared with those in controls after adjusting for age, sex, and COQ2 genotype. RESULTS Among 44 patients with MSA (mean [SD] age, 63.7 [8.3] years) and 39 controls (mean [SD] age, 60.3 [13.0] years), the mean (SD) plasma level of CoQ10 in patients with MSA was lower than that in controls (0.51 [0.22] vs 0.72 [0.42] µg/mL; P = .01) (difference between medians: -0.14; 95% CI, -0.25 to -0.03). The mean (SD) plasma levels of CoQ10 in patients with the cerebellar variant of MSA and those with the parkinsonian variant of MSA were 0.58 (0.19) and 0.49 (0.26) µg/mL, respectively. After adjusting for age, sex, and COQ2 genotype, the levels of plasma CoQ10 were significantly associated with MSA (95% CI, 0.10; range, 0.02 to 0.66) (P = .02). CONCLUSIONS AND RELEVANCE Our data showed decreased levels of plasma CoQ10 in patients with MSA regardless of the COQ2 genotype, supporting a hypothesis that supplementation with CoQ10 is beneficial for patients with MSA.
Keeping your options open: Maintenance of thermal plasticity during adaptation to a stable environment

Phenotypic plasticity may allow species to cope with environmental variation. The study of thermal plasticity and its evolution helps understanding how populations respond to variation in temperature. In the context of climate change, it is essential to realize the impact of historical differences in the ability of populations to exhibit a plastic response to thermal variation and how it evolves during colonization of new environments. We have analyzed the real‐time evolution of thermal reaction norms of adult and juvenile traits in Drosophila subobscura populations from three locations of Europe in the laboratory. These populations were kept at a constant temperature of 18ºC, and were periodically assayed at three experimental temperatures (13ºC, 18ºC, and 23ºC). We found initial differentiation between populations in thermal plasticity as well as evolutionary convergence in the shape of reaction norms for some adult traits, but not for any of the juvenile traits. Contrary to theoretical expectations, an overall better performance of high latitude populations across temperatures in early generations was observed. Our study shows that the evolution of thermal plasticity is trait specific, and that a new stable environment did not limit the ability of populations to cope with environmental challenges.
Fisher's geometric model predicts the effects of random mutations when tested in the wild

Fisher's geometric model of adaptation (FGM) has been the conceptual foundation for studies investigating the genetic basis of adaptation since the onset of the neo Darwinian synthesis. FGM describes adaptation as the movement of a genotype toward a fitness optimum due to beneficial mutations. To date, one prediction of FGM, the probability of improvement is related to the distance from the optimum, has only been tested in microorganisms under laboratory conditions. There is reason to believe that results might differ under natural conditions where more mutations likely affect fitness, and where environmental variance may obscure the expected pattern. We chemically induced mutations into a set of 19 Arabidopsis thaliana accessions from across the native range of A. thaliana and planted them alongside the premutated founder lines in two habitats in the mid‐Atlantic region of the United States under field conditions. We show that FGM is able to predict the outcome of a set of random induced mutations on fitness in a set of A. thaliana accessions grown in the wild: mutations are more likely to be beneficial in relatively less fit genotypes. This finding suggests that FGM is an accurate approximation of the process of adaptation under more realistic ecological conditions.
Divergent natural selection promotes immigrant inviability at early and late stages of evolutionary divergence

Natural selection's role in speciation has been of fundamental importance since Darwin first outlined his theory. Recently, work has focused on understanding how selection drives trait divergence, and subsequently reproductive isolation. “Immigrant inviability,” a barrier that arises from selection against immigrants in their nonnative environment, appears to be of particular importance. Although immigrant inviability is likely ubiquitous, we know relatively little about how selection acts on traits to drive immigrant inviability, and how important immigrant inviability is at early‐versus‐late stages of divergence. We present a study evaluating the role of predation in the evolution of immigrant inviability in recently diverged population pairs and a well‐established species pair of Brachyrhaphis fishes. We evaluate performance in a high‐predation environment by assessing survival in the presence of a predator, and swimming endurance in a low‐predation environment. We find strong signatures of local adaptation and immigrant inviability of roughly the same magnitude both early and late in divergence. We find remarkably conserved selection for burst‐speed swimming (important in predator evasion), and selection for increased size in low‐predation environments. Our results highlight the consistency with which selection acts during speciation, and suggest that similar factors might promote initial population differentiation and maintain differentiation at late stages of divergence.