Miracle-dz/UniFAR-FTUs huggingface dataset:
Concordant patterns of morphological, stable isotope and genetic variation in a recent ecological radiation (Salmonidae: Coregonus spp.)

Groups of sympatric taxa with low interspecific genetic differentiation, but considerable ecological differences, offer great opportunities to study the dynamics of divergence and speciation. This is the case of ciscoes (Coregonus spp.) in the Laurentian Great Lakes, which are characterized by a complex evolutionary history and are commonly described as having undergone an adaptive radiation. In this study, morphometrics, stable isotopes and transcriptome sequencing were used to study the relationships within the Coregonus artedi complex in western Lake Superior. We observed general concordance for morphological, ecological and genomic variation, but the last was more taxonomically informative as it showed less overlap among species in multivariate space. Low levels of genetic differentiation were observed between individuals morphologically identified as Coregonus hoyi and C. zenithicus, which could be evidence of incomplete lineage sorting or recent hybridization between the two groups. Transcriptome‐based single nucleotide polymorphisms exhibited significant divergence for genes associated with vision, development, metabolism and immunity among species that occupy different habitats. This study highlights the importance of using an integrative approach when studying groups of taxa with a complex evolutionary history, as individual‐level analyses of multiple independent data sets can provide a clearer picture of the patterns and processes associated with the origins of biodiversity.
A retrospective cohort study on the effects of Down’s screening markers and maternal characteristics on pregnancy outcomes in preeclampsia

ABSTRACT Background To investigate the effects of down’s screening markers and maternal characteristics on preeclampsia (PE) pregnancy outcome during early and middle pregnancy. Methods A retrospective study of a cohort of 246 PE and 18,709 No-PE pregnant women who participated in Down’s screening during early and middle pregnancy was performed. Clinical data of pregnancy-related were collected. Multivariate binary logistic regression was used to analyze the adjusted odds ratio (aOR) and 95% confidence interval (CI) of Down’s screening markers, maternal characteristics, pregnancy outcome, and other related variables, and to evaluate the influencing factors of each indicator on PE. P < . 05 was considered to be statistically significant. Results Compared with the non-PE group, the concentration and median multiple (MoM) of pregnancy-associated plasma protein-A (PAPP-A) and free beta subunit of human chorionic gonadotropin (free β-hCG) in PE group were both lower (P < .001). Multivariate binary logistic regression analysis showed that low birth weight, hydronephrosis, premature delivery, fetal growth retardation, cesarean section, live birth, hyperlipemia, infection, decreased free β-hCG and first trimester maternal weight were risk factors for PE (aOR were: 7.552, 6.684, 4.154, 3.762, 3.612, 2.454, 1.757, 1.562, 1.270, and 1.077, respectively), while uterine scar, premature rupture of membranes and elevated PAPP-A were protective factors of PE (aOR were: 0.222, 0.328 and 0.612, respectively). Conclusion Decreased maternal serum PAPP-A level, increased free β-hCG, hyperlipemia, premature delivery, cesarean section, live birth, hydronephrosis, fetal growth retardation, low birth weight, and infection are risk factors for PE, while uterine scar and premature rupture of membrane are protective factors for PE.
Criteria for transience of branching Markov chains

A branching Markov chain (BMC) is a system of particles in discrete time. The BMC starts with one particle in an arbitrary starting position x. At each time particles split up in ospring particles independently according to some probability distributions that may depend on the locations of the particles. The new particles then move independently according to a Markov chain. An irreducible Markov chain is either recurrent or transient: either all or none states are visited infinitely often. It turns out that this dichotomy breaks down for BMC and that one can classify BMCs in three dierent types. Let (x) be the probability that, starting the BMC in x, the state x is hit infinitely often by some particles. There are three possible regimes: transient ( (x) = 0 8x), weakly recurrent (0 < (x) < 1 8x) and strongly recurrent ( (x) = 1 8x). We give equivalent criteria for transience of BMC and discuss some interesting consequences.
COVID-19 diagnosis, but not vaccination, was linked to increased risk for immune-mediated neurologic events

SOURCE CITATION Li X, Raventós B, Roel E, et al. Association between covid-19 vaccination, SARS-CoV-2 infection, and risk of immune mediated neurological events: population based cohort and self-controlled case series analysis. BMJ. 2022;376:e068373. 35296468.
Assessing behavioural profiles following neutral, positive and negative feedback

Previous data suggest zero-value, neutral outcomes (draw) are subjectively assigned negative rather than positive valence. The combined observations of faster rather than slower reaction times, subsequent actions defined by shift rather than stay behaviour, reduced flexibility, and, larger rather than smaller deviations from optimal performance following draws all align with the consequences of explicitly negative outcomes such as losses. We further tested the relationships between neutral, positive and negative outcomes by manipulating value salience and observing their behavioural profiles. Despite speeded reaction times and a non-significant bias towards shift behaviour similar to losses when draws were assigned the value of 0 (Experiment 1), the degree of shift behaviour approached an approximation of optimal performance when the draw value was explicitly positive (+1). This was in contrast to when the draw value was explicitly negative (-1), which led to a significant increase in the degree of shift behaviour (Experiment 2). Similar modifications were absent when the same value manipulations were applied to win or lose trials (Experiment 3). Rather than viewing draws as neutral and valence-free outcomes, the processing cascade generated by draws produces a complex behavioural profile containing elements found in response to both explicitly positive and explicitly negative results.
The effects of a single aerobic exercise session on mood and neural emotional reactivity in depressed and healthy young adults: A late positive potential study

Abstract Depression has been characterized by lowered mood and unfavorable changes in neural emotional reactivity (altered brain responses to emotional stimuli). Physical exercise is a well‐established strategy to improve the mood of healthy and depressed individuals. Increasing evidence suggests that exercise might also improve emotional reactivity in healthy adults by increasing or decreasing brain responses to positive or negative stimuli, respectively. It is unknown, however, if exercise could also benefit emotional reactivity in depressed individuals. We investigated the effects of a single aerobic exercise session on mood and emotional reactivity in 24 depressed and 24 matched healthy young adults. Self‐reported mood and neural reactivity to emotional pictures (indexed by the EEG late positive potential, LPP) were assessed before and after two experimental protocols: exercise (36 min of moderate‐intensity exercise at 75% of maximal heart rate) and seated rest condition (36 min). In the healthy control group, exercise improved self‐reported mood and neural emotional reactivity (increasing LPP to positive pictures). In the depressed group, exercise improved self‐reported mood; however, it did not affect neural emotional reactivity. Additional analyses performed on both groups revealed that exercise‐induced changes in emotional reactivity are associated with the severity of depressive symptoms: the effectiveness of exercise in improving emotional reactivity decreases with the severity of depressive symptoms. Overall, the study further strengthens the claim of a beneficial role of exercise on mood and emotional reactivity. It also suggests that a single aerobic exercise session might have a limited influence on neural emotional reactivity in depressed individuals.
Antinucleocapsid Antibodies After SARS-CoV-2 Infection in the Blinded Phase of the Randomized, Placebo-Controlled mRNA-1273 COVID-19 Vaccine Efficacy Clinical Trial

Antinucleocapsid antibodies (anti-N Abs) are currently being used to diagnose prior SARS-CoV-2 infection in individuals and to determine community seroprevalence of SARS-CoV-2. In a large, randomized, double-blind, placebo-controlled vaccine efficacy trial of the mRNA-1273 vaccine, anti-N Ab status was determined in participants who had prior SARS-CoV-2 infection confirmed by polymerase chain reaction or anti-N Abs.
Iodine status in Danish pregnant women after an increase in iodine fortification

Iodine fortification programmes are implemented in many countries and often associated with an increase in population iodine intake. However, the initial attempt may not be sufficient and in Denmark the level of iodine added to salt was increased in 2019. Sparse evidence is available on the impact of such modification in iodine fortification. The aim of this study was to evaluate iodine status in Danish pregnant women in 2021 after this increase in iodine fortification and compare to iodine status in 2012.
Retinol-binding protein-4 and nonalcoholic fatty liver disease

Abstract Nonalcoholic fatty liver disease (NAFLD) is becoming increasingly common as the global economy grows and living standards improve. Timely and effective preventions and treatments for NAFLD are urgently needed. Retinol-binding protein-4 (RBP4), the protein that transports retinol through the circulation, was found to be positively related to diabetes, obesity, cardiovascular disease, and other metabolic diseases. Observational studies on the association between serum RBP4 level and the prevalence of NAFLD found contradictory results. Some of the underlying mechanisms responsible for this association have been revealed, and the possible clinical implications of treating NAFLD by targeting RBP4 have been demonstrated. Future studies should focus on the predictive value of RBP4 on NAFLD development and its potential as a therapeutic target in NAFLD.
Tetracycline-induced mitohormesis mediates disease tolerance against influenza

Mitohormesis defines the increase in fitness mediated by adaptive responses to mild mitochondrial stress. Tetracyclines inhibit not only bacterial but also mitochondrial translation, thus imposing a low level of mitochondrial stress on eukaryotic cells. We demonstrate in cell and germ-free mouse models that tetracyclines induce a mild adaptive mitochondrial stress response (MSR), involving both the ATF4-mediated integrative stress response and type I interferon (IFN) signaling. To overcome the interferences of tetracyclines with the host microbiome, we identify tetracycline derivatives that have minimal antimicrobial activity, yet retain full capacity to induce the MSR, such as the lead compound, 9-tert-butyl doxycycline (9-TB). The MSR induced by doxycycline (Dox) and 9-TB improves survival and disease tolerance against lethal influenza virus (IFV) infection when given preventively. 9-TB, unlike Dox, did not affect the gut microbiome and also showed encouraging results against IFV when given in a therapeutic setting. Tolerance to IFV infection is associated with the induction of genes involved in lung epithelial cell and cilia function, and with downregulation of inflammatory and immune gene sets in lungs, liver, and kidneys. Mitohormesis induced by non-antimicrobial tetracyclines and the ensuing IFN response may dampen excessive inflammation and tissue damage during viral infections, opening innovative therapeutic avenues.
Influence of in-ovo vitamin E and ascorbic acid injections on chick development, hatching performance and antioxidant content in different tissues of newly-hatched quail chicks

ABSTRACT 1. This study determined the influence of in ovo (IO) vitamin E and ascorbic acid injections on hatching performance, chick development and antioxidant content of different tissues in day-old quail chicks. The experiment compared a control group (C: non-injection group) and injection groups, which had the yolk sac injected with 3.75 mg α- tocopherol (T1), or had the amniotic sac injected with 0.9% saline solution (T2), 2.5 mg ascorbic acid containing 0.9% saline solution (T3) and 2.5 mg ascorbic acid solution (T4), respectively. 2. Mean relative asymmetry (RA) of bilateral lengths increased in the T2, T3 and T4 groups, whereas it decreased in the T1 group compared to C. The highest total carotene content in the residual yolk sac (RYS) was seen for the T1 group, which was significantly higher compared to T2, T3 and T4 groups. The highest total carotene concentration in the liver was in the T1 group. 3. The concentrations of delta-tocopherol, gamma-tocopherol and total vitamin E in RYS tissue were significantly higher in the T1 group than T2, T3 and T4 groups. Alpha-tocopherol and total vitamin E levels in the liver were significantly higher in the T2 and T4 groups than C. 4. In ovo injections of vitamin E and ascorbic acid to different embryonic sacs caused antioxidant-specific effects on developmental stability of bilateral traits, RYS absorption, concentrations of total carotene and derivatives of vitamin E in newly hatched quail chicks.
Within‐ and between‐patients associations between self‐efficacy, outcome expectation, and symptom change in cognitive behavioral therapy for generalized anxiety disorder

Abstract Objectives There is limited information on how a change in patients' expectations over time results in symptom change in psychotherapy. This study aimed to investigate the changes in patients' expectations and symptoms during treatment and across follow‐up as well as to determine the within‐ and between‐patient relationships between two types of patient expectations, that is, self‐efficacy and outcome expectation, and symptom change. Methods Participants (80 participants × 6 repeated measures; 480 observations) with generalized anxiety disorder were treated using cognitive behavioral therapy and the within‐ and between‐patient scores of self‐efficacy and outcome expectation were evaluated in multilevel models as predictors of symptom change. Results Patients' self‐efficacy and outcome expectation increased, whereas severity of their symptoms reduced during and after treatment. At the within‐patient (WP) level, an increase in self‐efficacy was associated with a decrease in worry and depressive symptoms, and an increase in outcome expectation was associated with a decrease in depressive symptoms. The between‐patient (BP) effect, however, was contrary to the WP effect, that is, self‐efficacy was positively correlated with worry and outcome expectation was positively correlated with depressive symptoms Conclusion These results highlight the importance of disaggregating the WP variability from BP variability in psychotherapy process–outcome research as they exhibit different associations at the within‐ and between‐patient levels. Clinical Trial Registration: ClinicalTrial.gov (NCT03079336).
COVID‐19 test positivity by occupation using the Delphi US COVID‐19 trends and impact survey, September–November 2020

Abstract Background The potential for work to be a risk factor for coronavirus disease 2019 (COVID‐19) was recognized early in the pandemic based on the likelihood of work‐related differences in exposures to COVID‐19 in different occupations. Due to intense demands of the pandemic, implementation of recommendations to collect information on occupation in relation to COVID‐19 has been uneven across the United States. The objective of this study was to investigate COVID‐19 test positivity by occupation. Methods We analyzed data collected from September 8 to November 30, 2020, by the Delphi Group at Carnegie Mellon University US COVID‐19 Trends and Impact Survey, offered daily to a random sample of US‐based Facebook users aged 18 years or older, who were invited via a banner in their news feed. Our focus was ever testing positive for COVID‐19 in respondents working outside the home for pay in the past 4 weeks. Results The major occupational groups of “Production", "Building and grounds cleaning and maintenance,” “Construction and extraction,” “Healthcare support,” and “Food preparation and serving” had the five highest test positivity percentages (16.7%–14.4%). Highest detailed occupational categories (28.6%–19.1%) were “Massage therapist,” “Food processing worker,” “Bailiff, correctional officer, or jailer,” “Funeral service worker,” “First‐line supervisor of production and operating workers,” and “Nursing assistant or psychiatric aide. ” Differences in test positivity by occupation remained after adjustment for age, gender, and pre‐existing medical conditions. Conclusion Information on differences in test positivity by occupation can aid targeting of messaging for vaccination and testing and mitigation strategies for the current and future respiratory infection epidemics and pandemics. These results, obtained before availability of COVID‐19 vaccines, can form a basis for comparison to evaluate impacts of vaccination and subsequent emergence of viral variants.
Age Differences Among Different Sources of Stressor Related Negative Affect

We examine age differences in the relationship between negative affect (NA) and different indicators of daily stress (interpersonal, health, and financial stressors and perceived stress). Participants completed 56 days of daily diary surveys from Wave 1 of the Notre Dame Study of Health & Well-being. Multi-level modeling allowed us to assess the within-person relationships between daily stress and NA and the cross-level interactions between these daily relationships and cross-sectional age. Each type of stress additively related to daily NA. Older age related to an exacerbated relationship between daily interpersonal stressors and NA, but a weaker relationship between daily perceived stress and NA. Interventions focused on enhancing daily well-being can encourage older adults to ensure they do not have overpacked schedules in regards to social relationships, and encourage midlife and younger adults to engage in activities that disrupt the link between perceived stress and NA.
Examination of running pattern consistency across speeds.

Duty factor (DF) and step frequency (SF) are key running pattern determinants. However, running patterns may change with speed if DF and SF changes are inconsistent across speeds. We examined whether the relative positioning of runners was consistent: 1) across five running speeds (10-18 km/h) for four temporal variables [DF, SF, and their subcomponents: contact (tc) and flight (tc) time]; and 2) across these four temporal variables at these five speeds. Three-dimensional whole-body kinematics were acquired from 52 runners, and deviations from the median for each variable (normalised to minimum-maximum values) were extracted. Across speeds for all variables, correlations on the relative positioning of individuals were high to very high for 2-4 km/h speed differences, and moderate to high for 6-8 km/h differences. Across variables for all speeds, correlations were low between DF-SF, very high between DF-tc, and low to high between DF-tc, SF-tc, and SF-tc. Hence, the consistency in running patterns decreased as speed differences increased, suggesting that running patterns be assessed using a range of speeds. Consistency in running patterns at a given speed was low between DF and SF, corroborating suggestions that using both variables can encapsulate the full running pattern spectrum.
Relevance of Bone Marrow Biopsies for Response Assessment in US National Cancer Institute National Clinical Trials Network Follicular Lymphoma Clinical Trials

PURPOSE Bone marrow biopsies (BMB) are performed before/after therapy to confirm complete response (CR) in patients with lymphoma on clinical trials. We sought to establish whether BMB add value in assessing response or predict progression-free survival (PFS) or overall survival (OS) outcomes in follicular lymphoma (FL) subjects in a large, multicenter, multitrial cohort. METHODS Data were pooled from seven trials of 580 subjects with previously untreated FL through Alliance for Clinical Trials in Oncology (Alliance) and SWOG Cancer Research Network (SWOG) completing enrollment from 2008 to 2016. RESULTS Only 5/580 (0.9%) had positive baseline BMB, CR on imaging, and subsequent positive BMB (P < .0001). Therefore, BMB were irrelevant to response in 99% of subjects. A sensitivity analysis of 385 FL subjects treated on an Eastern Cooperative Oncology Group study was included. In the Eastern Cooperative Oncology Group cohort, 5/385 (1.3%) had BMB that affected response assessment. Since some subjects do not undergo confirmatory BMB, we performed a landmark survival analysis from first radiologic CR with data from 580 subjects from Alliance and SWOG. Of subjects with CR on imaging (n = 187), PFS and OS were not significantly different among those with negative BMB to confirm CR (n = 47) versus those without repeat BMB (n = 140; PFS: adjusted hazard ratio, 1.10, 95% CI, 0.62 to 1.94, log-rank P = .686; OS: hazard ratio, 0.59, 95% CI, 0.23 to 1.53, log-rank P = .276). CONCLUSION We conclude that BMB add little value to response assessment in subjects with FL treated on clinical trials and we recommend eliminating BMB from clinical trial requirements. BMB should also be removed from diagnostic guidelines for FL except in scenarios in which it may change management including confirmation of limited stage and assessment of cytopenias. This would reduce cost, patient discomfort, resource utilization, and potentially remove a barrier to trial enrollment.
Young children's sleep patterns and problems in paediatric primary healthcare settings: a multicentre cross‐sectional study from a nationally representative sample

Studies describing paediatric sleep patterns are needed by taking culture into consideration. The aim of this study was to identify parent‐reported sleep–wake patterns in young children and explore possible factors influencing sleep problems. The mothers of 2,434 young children enrolled from well‐child outpatient clinics in Turkey completed an online survey including sociodemographic variables, Brief Infant Sleep Questionnaire, Edinburgh Postnatal Depression Scale and Generalised Anxiety Disorder scales. Overall, young children in Turkey go to bed late (10:00 p.m.), awaken twice per night for 30 min, and obtain 11.5 h of total sleep, showing no sex‐specific differences. Distinct night‐time sleep patterns emerged after 18 months of age. Importantly, although currently breastfed healthy children were 3.8‐times less likely to sleep through the night, total sleep duration and exclusive breastfeeding duration were higher in children who were not sleeping through the night. Overall, bedsharing was identified in 11.5%, and only room sharing was reported in 52.9%. Parental perception of a child's sleep as problematic was 35.8%. Mothers with higher educational attainment were more likely to perceive their children's sleep as a problem. Maternal depressive and anxious symptoms and a history of excessive infant crying were the determinants predicting the likelihood of both parent‐perceived sleep problems and poor sleepers. The present analysis of sleep structure in infancy and toddlerhood provides reference data for well‐child visits. These findings highlight the importance of considering maternal anxiety, depression and behaviour management techniques to cope with fussy infants in addressing childhood behavioural sleep problems.