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3,585 results for “Population study”
Data from: Influence of introduction history on genetic variation in introduced populations: a case study of Oregon Chub
Population introductions and reintroductions have become a common tool for conserving threatened species, but oftentimes introduced populations have reduced the genetic diversity compared with the source population they were founded from. Population introductions played an important role in the recovery of the Oregon Chub Oregonichthys crameri, a small floodplain minnow found in western Oregon. Unlike many introduction efforts, introduced populations of Oregon Chub were founded using large numbers of individuals (hundreds in many cases) and each population had a unique introduction history (e.g., number of founders, source populations selected, duration of the introduction effort). We used microsatellite loci to examine 13 introduced populations and their respective sources to evaluate how well the introduction program captured genetic diversity present in the wild populations. Genetic variation was reduced by roughly 25% in one introduced population, and three introduced populations showed evidence of a genetic bottleneck due to heterozygote excess. Populations introduced from multiple sources had greater genetic diversity than populations from a single source. When multiple source populations were used, all source populations contributed genetic material to the introduced population, though the proportional contribution from each source population varied. Using correlation analyses and general linear models, we explored the relationship between introduction history variables and genetic diversity. Our top-ranked models included genetic diversity in the source population, and this variable had the highest variable importance weight (0.999), but the number of founders and the number of source populations were also important. Overall, the Oregon Chub introduction program was highly successful at capturing the genetic variation observed in natural populations. Results of this study will be useful for planning future population introductions for Oregon Chub and other species of conservation concern.
Data from: Effect of ultrasonography surveillance in patients with liver cancer: a population-based longitudinal study
Objective Liver cancer is a growing global public health problem. Ultrasonography is an imaging tool widely used for the early diagnosis of liver cancer. However, the effect of ultrasonography surveillance (US) on the survival of patients with liver cancer is unknown. Therefore, this study examined the association between survival and US frequency during the 2 years preceding patients' liver cancer diagnosis. Methods This population-based longitudinal study was conducted in Taiwan, a region with high liver cancer incidence, by using the National Health Insurance Research Database. We compared survival between patients who received US three times or more (≥3 group) and less than three times (<3 group) during the 2 years preceding their liver cancer diagnosis, and identified the predictors for the ≥3 group. Results This study enrolled 4621 patients with liver cancer who had died between 1997 and 2010. The median survival rate was higher in the ≥3 group (1.42 years) than in the <3 group (0.51 years). Five-year survival probability was also significantly higher in the ≥3 group (14.4%) than in the <3 group (7.7%). The multivariate logistic regression results showed that the three most common positive predictors for receiving three or more US sessions were indications of viral hepatitis, gallbladder diseases, and kidney–urinary–bladder diseases; the most common negative predictors for receiving three or more US sessions were male sex and indications of abdominal pain. Conclusion Patients with liver cancer who received US three times or more during the 2 years preceding their liver cancer diagnosis exhibited a higher 5-year survival probability.
Data from: Evaluation of exposure to effervescent drugs in a large health check-up population in France: a cross-sectional study
OBJECTIVES: The relationship between high dietary sodium intake and hypertension is well established. Some drugs are associated with high-sodium content, particularly effervescent tablets (ETs). Despite a possible cardiovascular risk associated with the use of such drugs, observational data describing exposure to ETs in ambulatory subjects are lacking. The aim of this study was to estimate the prevalence of exposure to ETs, and to highlight factors associated with this exposure, in a large French health check-up population. DESIGN: This was cross-sectional study. SETTING AND PARTICIPANTS: Participants were French individuals who underwent medical check-ups at the Investigations Préventives et Cliniques center between April and June 2017. RESULTS: In total, 1,043 subjects were included in the study. The prevalence of exposure to ETs in the last 30 days was 26.9% (95% CI: 24.2 – 29.6). Exposure was frequent (i.e. two ETs per week or more in the last 30 days) for 7.3% of subjects. Self-medication was the major source of exposure (93.8%). Paracetamol, aspirin, vitamins, and betaine accounted for 95.3% of the ETs used. The factors associated with this exposure by multivariate analysis were: male gender, Overseas French origin, depression and body mass index ≥ 25 kg.m-2. A diagnosis of hypertension or treatment with diuretics were not protective factors against exposure to ETs. CONCLUSION: Exposure to ETs is frequent in the general population, particularly through self-medication. Clinical conditions associated with low-salt requirements were not associated with lower exposure to ETs, suggesting a lack of awareness by practitioners and patients about this iatrogenic issue.
Data from: The red coral (Corallium rubrum) transcriptome: a new resource for population genetics and local adaptation studies
The question of species survival and evolution in heterogeneous environments has long been a subject for study. Indeed, it is often difficult to identify the molecular basis of adaptation to contrasted environments, and nongenetic effects increase the difficulty to disentangle fixed effects, such as genetic adaptation, from variable effects, such as individual phenotypic plasticity, in adaptation. Nevertheless, this question is also of great importance for understanding the evolution of species in a context of climate change. The red coral (Corallium rubrum) lives in the Mediterranean Sea, where at depths ranging from 5 to 600 m, it meets very contrasted thermal conditions. The shallowest populations of this species suffered from mortality events linked with thermal anomalies that have highlighted thermotolerance differences between individuals. We provide here a new transcriptomic resource, as well as candidate markers for the study of local adaptation. We sequenced the transcriptome of six individuals from 5 m and six individuals from 40 m depth at the same site of the Marseilles bay, after a period of common garden acclimatization. We found differential expression maintained between the two depths even after common garden acclimatization, and we analysed the polymorphism pattern of these samples. We highlighted contigs potentially implicated in the response to thermal stress, which could be good candidates for the study of thermal adaptation for the red coral. Some of these genes are also involved in the response to thermal stress in other corals. Our method enables the identification of candidate loci of local adaptation useful for other nonmodel organisms.
Data from: Risk factors for possible REM sleep behavior disorder: a CLSA population-based cohort study
Objective: Idiopathic REM sleep behavior disorder (RBD) is a powerful marker of prodromal neurodegenerative synucleinopathy, with 80% of patients ultimately phenoconverting to defined disease. Several environmental risk factors for RBD have been suggested, but associations vary between studies. We assessed sociodemographic, socioeconomic and clinical correlates of RBD in a 30,000-subject national cohort. Methods: Subjects aged 45-85 years in Canada were collected as part of the Canadian Longitudinal Study on Aging. Possible RBD (pRBD) was screened with the RBD-1Q, a questionnaire with 94% specificity and 87% sensitivity. To improve diagnostic reliability, subjects screening positive for apnea or non-REM parasomnia (young onset pRBD), and subjects self-reporting dementia or Parkinson's disease were excluded. A series of sociodemographic, life style and mental health variables were analysed cross-sectionally. Potential correlates were assessed via multivariable logistic regression. Results: Of 30,097 subjects, 958 (3.2%) had pRBD. Male sex (OR=2.14 ,95%CI=[1.84, 2.49]) and lower education (OR=0.95 [0.92, 0.98] were associated with pRBD. pRBD subjects had smoked more (total smoking years OR=1.006 [1.010, 1.011]) and were more likely to be moderate-heavy drinkers (OR=1.25 [1.03, 1.50]). There was a strong association between pRBD and self-reported antidepressant treatment for depression (OR=2.76 [2.22, 3.44]), psychological distress (OR=1.52 [1.37, 1.69]), mental illness (OR=2.08 [1.79, 2.41]), and post-traumatic stress disorder (OR=2.84 [2.55, 3.54]). Conclusions: Our study replicated previous reported associations between pRBD and smoking, low education and male sex, and found previously-unreported links with alcohol use and psychological distress. The risk factors for pRBD differ from those previously defined for neurodegenerative synucleinopathies.
Data from: Drowning mortality by intent: a population-based cross-sectional study of 32 OECD countries, 2012–2014
Objective: To compare the drowning mortality rates and proportion of deaths of each intent among all drowning deaths in Organisation for Economic Co-operation and Development (OECD) countries in 2012–2014. Design: A population-based cross-sectional study. Setting: 32 OECD countries. Participants: Individuals in OECD countries who died from drowning. Main outcome measures: Drowning mortality rates (deaths per 100,000 population) and proportion (%) of deaths of each intent (i.e., unintentional intent, intentional self-harm, assault, undetermined intent, and all intents combined) among all drowning deaths. Results: Countries with the highest drowning mortality rates (deaths per 100,000 population) were Estonia (3.53), Japan (3.49), and Greece (2.40) for unintentional intent; Ireland (0.96), Belgium (0.96), and Korea (0.89) for intentional self-harm; Austria (0.57), Korea (0.56), and Hungary (0.44) for undetermined intent; and Japan (4.35), Estonia (3.70), and Korea (2.73) for all intents combined. Korea ranked 12th and third for unintentional intent and all intents combined, respectively. By contrast, Belgium ranked second and 15th for intentional self-harm and all intents combined, respectively. The proportion of deaths of each intent among all drowning deaths in each country varied greatly: from 26.2% in Belgium to 96.8% in Chile for unintentional intent; 0.7% in Mexico to 57.4% in Belgium for intentional self-harm; 0.0% in nine countries to 4.9% in Mexico for assault; and 0.0% in Israel and Turkey to 38.3% in Austria for undetermined intent. Conclusions: A large variation in the practice of classifying undetermined intent in drowning deaths across countries was noted and this variation hinders valid international comparisons of intent-specific (unintentional and intentional self-harm) drowning mortality rates.
Data from: Inconsistent use of multiple comparison corrections in studies of population genetic structure: are some type I errors more tolerable than others?
Studies of genetic population structure often involve numerous tests of Hardy-Weinberg equilibrium (HWE), linkage disequilibrium (LD), and genetic differentiation. Tests of HWE or LD are important precursors to population structure assessments. When conducting multiple related statistical tests, type 1 error increases, e.g., familywise error rate (FWER) inflation. FWER inflation can alter the results of statistical tests and thus the conclusions. Authors are aware of the need to control for FWER inflation, but there has been low consistency of use. Furthermore, there is a potential for the choice of correction methods to be exploited to selectively use FWER corrections to avoid data exclusion or to result in increased the rejection of null hypotheses. We surveyed literature from 2011-2013 to determine if studies of population structure assess LD and HWE and if FWER corrections were applied consistently across different types of genetic differentiation, linkage disequilibrium, and Hardy-Weinberg equilibrium tests. We found a lack of documentation of FWER corrections in studies, and we advocate for authors to be more cognizant in reporting their corrections. We also found significantly inconsistent FWER corrections, with a bias towards less restrictive correction on genetic differentiation and more restrictive corrections with LD and HWE. While varied adjustments of FWER for different types of analyses might be justified, papers with inconsistent usage across tests of HWE, LD and genetic differentiation did not present rationale for their FWER corrections. We also found a lack of documentation of HWE, LD and FWER corrections in studies. We encourage authors to report statistical tests and related FWER corrections, use FWER corrections consistently or justify their different methods in the same study.
Data from: Challenges in analysis and interpretation of microsatellite data for population genetic studies
Advancing technologies have facilitated the ever-widening application of genetic markers such as microsatellites into new systems and research questions in biology. In light of the data and experience accumulated from several years of using microsatellites, we present here a literature review that synthesizes the limitations of microsatellites in population genetic studies. With a focus on population structure, we review the widely used fixation (FST) statistics and Bayesian clustering algorithms and find that the former can be confusing and problematic for microsatellites and that the latter may be confounded by complex population models and lack power in certain cases. Clustering, multivariate analyses, and diversity-based statistics are increasingly being applied to infer population structure, but in some instances these methods lack formalization with microsatellites. Migration-specific methods perform well only under narrow constraints. We also examine the use of microsatellites for inferring effective population size, changes in population size, and deeper demographic history, and find that these methods are untested and/or highly context-dependent. Overall, each method possesses important weaknesses for use with microsatellites, and there are significant constraints on inferences commonly made using microsatellite markers in the areas of population structure, admixture, and effective population size. To ameliorate and better understand these constraints, researchers are encouraged to analyze simulated datasets both prior to and following data collection and analysis, the latter of which is formalized within the approximate Bayesian computation framework. We also examine trends in the literature and show that microsatellites continue to be widely used, especially in non-human subject areas. This review assists with study design and molecular marker selection, facilitates sound interpretation of microsatellite data while fostering respect for their practical limitations, and identifies lessons that could be applied toward emerging markers and high-throughput technologies in population genetics.
Fig. 4 in Phenotypic Study Of Population And Distribution Of The Poecilia Reticulata (Cyprinodontiformes, Poeciliidae) From Kyiv Sewage System (Ukraine)
Fig. 4. Biotope occupied by P. reticulata along the Bortnychi sewage drain; areas, where guppies were found have very weak current are marked with red circles (Nekrasova et al., 2021).
Demographic information - Study population
<p>Demographic information about the study population.</p>
Morphometric study and sexual dimorphism analyses in an Iranian population of Scorpio maurus (Arachnida: Scorpionidae)
<p><i>Scorpio maurus</i> (Scorpiones: Scorpionidae) which has a worldwide distribution, indicates levels of sexual dimorphism. Morphometry is used to determine the sexual dimorphism between the two sexes. In this study, 53 morphological characters of 15 specimens of each sex of <i>Scorpio maurus</i> were studied, however dimorphism was only observed in 21 morphological characters, including chelicerae and carapace length, pedipalp characters, width of the second segment of metasoma, telson and pectin length, number of left pectin teeth, and some of the leg's segments.</p>
Data from: Prevalence of disability associated with head injury with loss of consciousness: a population-based study
<div class="WordSection1"> <div class="WordSection1"> <p><span><span><span><span><span><span><span><span><span><span><span><span><b>Objective</b>: To provide nationally representative prevalence estimates of disability associated with prior head injury with loss of consciousness in the U.S. and to examine associations between prior head injury and disability.</span></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><span><b>Methods</b>: Cross-sectional analysis of 7,390 participants aged ³40 years in the 2011-2014 National Health and Nutrition Examination Surveys (NHANES). Head injury with loss of consciousness was assessed by self-report. Domains of disability were assessed using a standardized structured questionnaire and measured grip strength. Logistic regression models adjusted for demographic, socioeconomic/behavioral, and medical comorbidity variables were used. Multiple imputation was used to account for missing covariate data.</span></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><span><b>Results</b>: Mean age of participants was 58 years, 53% were female, 71% were non-Hispanic white, and 16% had a history of head injury. Overall, participants with a history of head injury had higher prevalence of disability in at least one domain of functioning compared to individuals without a history of head injury (47.4% versus 38.6%, p<0.001), with the highest prevalence of disability in the domains of mobility and work productivity. In fully adjusted models, head injury was significantly positively associated with disability in all domains assessed on the standardized questionnaire (all p<0.05), but not with upper extremity grip strength (all p>0.05).</span></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><span><b>Conclusions</b>: 47.4% of individuals aged ≥40 years in the U.S with a history of head injury are living with disability in at least one domain of functioning, corresponding to approximately 11.4 million affected individuals. This significant burden of disability suggests that efforts are needed to improve functioning among individuals with head injury. </span></span></span></span></span></span></span></span></span></span></span></span></p> </div> </div>
Data from: Perinatal depression and anxiety in women with MS: a population-based cohort study
<p><b>Objective: </b>To assess the occurrence of perinatal depression and anxiety in women before and after diagnosis of multiple sclerosis (MS).</p> <p><b>Methods: </b>114,629 pregnant women were included in the Norwegian Mother, Father and Child Cohort study 1999–2008. We assessed depression and anxiety by questionnaires during and after pregnancy. Women with MS were identified from national health registries and hospital records and grouped into 1) MS diagnosed before pregnancy (n = 140), MS diagnosed after pregnancy with 2) symptom onset before pregnancy (n = 98) and 3) symptom onset after pregnancy (n = 308). Thirty-five women were diagnosed with MS in the postpartum period. The reference group (n = 111,627) consisted of women without MS.</p> <p><b>Results: </b>Women with MS diagnosed before pregnancy had an adjusted odds ratio of 2.0 (95% confidence interval 1.2–3.1) for depression in the third trimester. Risk factors were adverse socioeconomic factors, history of psychiatric disease and physical/sexual abuse. The risk of anxiety was not increased. Women diagnosed with MS in the postpartum period had especially high risk of postpartum depression. Women with MS symptom onset within 5 years after pregnancy had increased risk of both depression and anxiety during pregnancy, whereas women with more than 5 years until symptom onset did not.</p> <p><b>Conclusion: </b>Women diagnosed with MS have increased risk of perinatal depression. Women with MS symptom onset within 5 years after pregnancy have increased risk of both depression and anxiety during pregnancy.</p>
Figure 2 in First population study of Caribitroides (Caribitroides) tuxtlensis (Amphipoda: Talitridae) from a rainforest in Veracruz state, eastern Mexico
Figure 2. Necro trap to the collect of Caribitroides (Caribitroides) tuxtlensis Lindeman, 1990.
What is the best fitness measure in wild populations? A case study on the power of short-term fitness proxies to predict reproductive value
<p>Fitness is at the core of evolutionary theory, but it is difficult to measure accurately. One way to measure long-term fitness is by calculating the individual's reproductive value, which represents the expected number of allele copies an individual passes on to distant future generations. However, this metric of fitness is scarcely used because the estimation of individual's reproductive value requires long-term pedigree data, which is rarely available in wild populations where following individuals from birth to death is often impossible. Wild study systems therefore use short-term fitness metrics as proxies, such as the number of offspring produced. This study obtained three frequently used short-term proxies for fitness obtained at different offspring life stages (eggs, hatchlings, fledglings and recruits), and compared their ability to predict reproductive values derived from the genetic pedigree of a wild passerine bird population. We used twenty years of precise field observations and a near-complete genetic pedigree to calculate reproductive success, individual growth rate and de-lifed fitness as lifetime fitness measures, and as annual de-lifed fitness. We compared the power of these metrics to predict reproductive values and lineage survival to the end of the study period. The three short-term fitness proxies predict the reproductive values and lineage survival only when measured at the recruit stage. There were no significant differences between the different fitness proxies at the same offspring stages in predicting the reproductive values and lineage survival. Annual fitness at one year old predicted reproductive values equally well as lifetime de-lifed fitness. However, none of the short-term fitness proxies was strongly associated with the reproductive values. In summary, the commonly short-term fitness proxies capture long-term fitness with intermediate accuracy at best, if measured at recruitment stage. As lifetime fitness measured at recruit stage and annual fitness in the first year of life were the best proxies of long-term fitness, we encourage their future use.</p>
Using phenome-wide association studies and the SF-12 quality of life metric to identify profound consequences of adverse childhood experiences on adult mental and physical health in a northern Nevadan population
<p>In this research, we examine and identify the implications of Adverse Childhood Experiences (ACEs) on a range of health outcomes, with particular focus on a number of mental health disorders. Many previous studies observed that traumatic childhood events are linked to long-term adult diseases using the standard Adverse Childhood Experience Questionnaire. The study cohort was derived from the Healthy Nevada Project, a volunteer-based population health study in which each adult participant is invited to take a retrospective questionnaire that includes the Adverse Childhood Experience Questionnaire, the 12-item Short Form Survey measuring quality of life, and self-reported incidence of nine mental disorders. Using participants' cross-referenced electronic health records, a phenome-wide association analysis of 1,703 phenotypes and the incidence of ACEs examined links between traumatic events in childhood and adult disease. These analyses showed that many mental disorders were significantly associated with ACEs in a dose-response manner. Similarly, a dose-response between ACEs and obesity, chronic pain, migraine, and other physical phenotypes was identified. An examination of the prevalence of self-reported mental disorders and incidence of ACEs showed a positive relationship. Furthermore, participants with less adverse childhood events experienced a higher quality of life, both physically and mentally. The whole-phenotype approach confirms that ACEs are linked with many negative adult physical and mental health outcomes. With the nationwide prevalence of ACEs as high as 67%, these findings suggest a need for new public health resources: ACE-specific interventions and early childhood screenings.</p>
Supplementary material 3 from: Molloy SW, Davis RA, Dunlop JA, van Etten EJB (2017) Applying surrogate species presences to correct sample bias in species distribution models: a case study using the Pilbara population of the Northern Quoll. Nature Conservation 18: 27-46. https://doi.org/10.3897/natureconservation.18.12235
Weighted mean SDMs for individual algorithms and evaluation statistics (biomod2) :
Supplementary material 2 from: Molloy SW, Davis RA, Dunlop JA, van Etten EJB (2017) Applying surrogate species presences to correct sample bias in species distribution models: a case study using the Pilbara population of the Northern Quoll. Nature Conservation 18: 27-46. https://doi.org/10.3897/natureconservation.18.12235
Full readout for the MaxEnt northern quoll SDM :
Supplementary material 1 from: Molloy SW, Davis RA, Dunlop JA, van Etten EJB (2017) Applying surrogate species presences to correct sample bias in species distribution models: a case study using the Pilbara population of the Northern Quoll. Nature Conservation 18: 27-46. https://doi.org/10.3897/natureconservation.18.12235
GIS data sets used in variable assessments and map of Pilbara vegetation systems :
Figure 7 in Fishers' perceptions of river resources: case study of French Guiana native populations using contextual cognitive mapping
Figure 7. – Cognitive map of fishers' perceptions of "Commercial fishing" vs. "Subsistence fishing".
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.