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Fig. 3 in Investigating the pathogens associated with Dermacentor nuttalli and its global distribution: A study integrating metagenomic sequencing, meta-analysis and niche modeling

Fig. 3. Prevalence of pathogens associated with D. nuttalli. If there was only one study included in a certain pathogen, the positive rate would be calculated by the positive number of ticks divided by the total number of detected ticks, and without the 95% confidence interval. If there were more studies, the positive rate and 95% confidence interval would be calculated by meta-analysis.

Fig. 2 in Investigating the pathogens associated with Dermacentor nuttalli and its global distribution: A study integrating metagenomic sequencing, meta-analysis and niche modeling

Fig. 2. Study design and data sources of the meta-analysis. A comprehensive meta-analysis was performed to evaluate D. nuttalli's potential threats based on detected pathogens and geographical distribution positions. The database of D. nuttalli was constructed from four sources, including field surveys, literature review, a reference book, and an online biodiversity database (Global Biodiversity Information Facility, GBIF, https://www.gbif.org).

Fig. 1 in Investigating the pathogens associated with Dermacentor nuttalli and its global distribution: A study integrating metagenomic sequencing, meta-analysis and niche modeling

Fig. 1. Relative pathogen abundance of four D. nuttalli samples and the phylogenomic analysis of four Rickettsia genomes. (A) Pathogen abundance at the family level. (B) Pathogen abundance at the genus level. (C) The phylogenetic tree of four Rickettsia assemblies. The phylogenetic tree of four Rickettsia assemblies (Rickettsia conorii subsp. raoultii str XinjiangF1, Rickettsia conorii subsp. raoultii str XinjiangF2, Rickettsia conorii subsp. raoultii str XinjiangF3, and Rickettsia conorii subsp. raoultii str XinjiangM1) was built with 28 other publicly available established or proposed Rickettsiales species. The tree was inferred by IQ-TREE based on 277 single-copy orthologs identified by OrthoFinder. Anaplasma phagocytophilum and Ehrlichia ruminantium were two outgroup species.

Fig. 5 in Investigating the pathogens associated with Dermacentor nuttalli and its global distribution: A study integrating metagenomic sequencing, meta-analysis and niche modeling

Fig. 5. Global potential distribution of D. nuttalli. The red area indicates greater possibilities of suitability for D. nuttalli, while the blue area is less likely to be suitable for D. nuttalli.

Fig. 4 in Investigating the pathogens associated with Dermacentor nuttalli and its global distribution: A study integrating metagenomic sequencing, meta-analysis and niche modeling

Fig. 4. Geographical distribution of D. nuttalli. D. nuttalli lived mainly between 23◦–53◦ latitude and 76◦–133◦ longitude in the Northern Hemisphere. Triangles represent the locations in prefecture-level regions, while circles represent the distribution locations in county-level regions. The green circles represent points from GBIF, the yellow circles are points from literature, the purple circles represent the points from the field survey and the blue points are points from a reference book. (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)

opencc-by-4.0Sep 2024View details →

Dataset for meta-analysis "The motherhood penalty's size and factors"

PLEASE, CITE AS Kalabikhina IE, Kuznetsova PO, Zhuravleva SA (2024) Size and factors of the motherhood penalty in the labour market: A meta-analysis. Population and Economics 8(2): 178-205. <a href="https://doi.org/10.3897/popecon.8.e121438" target="_blank" rel="noopener">https://doi.org/10.3897/popecon.8.e121438</a>   Explanatory note 1: List of papers used in the meta-analysis - see the file "Meta_regression_analysis_papers". The data is presented in WORD format.   Explanatory note 2: Set of data used in the meta-analysis - see the file "Meta_regression_analysis_table". The data is presented in EXCEL format.  Description of table headers: estimate_number - Number of the estimate paper_number - Number of the paper paper_name - Paper (year and first author) paper_excluded - Paper was excluded from the final sample survey - Data source table_in_paper - Number of the table with the regression results in the paper coeff - Regression coefficient for parenthood variable (estimate) se - SE of the estimate t - t-value of the estimate ols - Estimate is obtained using the OLS method fixed_effects - Estimate is obtained using the fixed effects method panel - Model considers panel data (for several years) quintile - Estimate is obtained using the quintile regression method other - Estimate is obtained using other methods selection_into_motherhood - Estimate is obtained allowing for selection into motherhood hackman - Estimate is obtained allowing for selection into employment (Heckman procedure) annual_earnings - Annual earnings are considered in the model monthly_wage - Monthly wage is considered in the model daily_wage - Daily wage is considered in the model hourly_wage - Hourly wage is considered in the model min_age_kid - Child's age (minimum) max_age_kid - Child's age (maximum) motherhood - Model uses a dummy variable of the presence of children num_kids - Model uses a variable of the number of children kid1 - Model uses a variable of the presence of one child kid2p - Model uses a variable of the presence of two or more children kid2 - Model uses a variable of the presence of two children kid3p - Model uses a variable of the presence of three or more children kid3 - Model uses a variable of the presence of three children kid4p - Model uses a variable of the presence of three or more children race/nationality - Model includes a race/ethnicity variable age - Model includes the age variable marstat - Model includes the marital status variable oth_char_hh - Model includes any other variables of other household characteristics settl_type - Model includes a variable of the type of settlement (urban, rural) region - Model includes a variable of the region of the country education - Model includes information on the level of education experience - Model includes a variable of work experience pot_experience - Model includes a variable of potential work experience, to be calculated from the data on age and number of years of education tenure - Model includes a variable of the duration of employment at the current job interruptions - Model includes a variable of employment interruptions (related to motherhood) occupation - Model includes an occupation variable industry - Model includes a variable of the industry of employment union - Model includes a variable of trade union membership friendly_conditions - Model includes a variable of the favourable working conditions for mothers (flexible schedule, possibility to work from home, etc.). hours - Model includes a variable of the number of hours worked sector - Model includes a variable of the type of employer ownership (public or private) informal - Model includes a variable of informal employment size_ent - Model includes a variable of the employer size min_age_woman - Woman's age (minimum) max_age_woman - Woman's age (maximum) mean_age_woman - Woman's age (mean) restricted - Sample is limited private - Model considers only private sector employees state - Model considers only public sector employees full_time - Model considers only full-time workers part_time - Model considers only part-time workers better_educated - Model considers only women with a high level of education lower_educated - Model considers only women with a low level of education married - Model includes only married women single - Model includes only single women natives - Model includes only native women (born in the country) immigrants - Model includes only immigrant women (born abroad) race - Model includes only women of a particular race min_year - Time period (minimum year) max_year - Time period (maximum year) journal - Type of publication usa - Sample includes women from the USA western_europe - Sample includes women from Western Europe (Belgium, France, Germany, Luxembourg, the Netherlands, Switzerland) north_europe - Sample includes women from Northern Europe (Denmark, Finland, Norway, Sweden) south_europe - Sample includes women from Southern Europe (Greece, Italy, Portugal, Spain) east_centre_europe - Sample includes women from Central or Eastern Europe (Czechia, Hungary, Poland, Russia, Serbia, Ukraine) china - Sample includes women from China Russia - Sample includes women from Russia others - Sample includes women from other countries country - Country name

opencc-by-4.0Oct 2024View details →

The efficacy of hemoglobin spray in wound management: a systematic review and network meta-analysis of comparative studies

PRISMA flow

opencc-by-4.0Jul 2021View details →

Data set for AYUSH interventions for COVID-19- A Living Systematic Review and Meta-analysis

The COVID-19 pandemic has put a huge strain on governments and medical professionals all across the world. To identify acceptable treatments, many clinical studies from the Indian system of Traditional Medicines [Ayurveda, Yoga and Naturopathy, Unani, Siddha, and Homoeopathy (AYUSH)] have been conducted. Objective of the study is determine the efficiency of the Traditional System of Indian Medicine (AYUSH system) in lowering the incidence, duration, and severity of COVID-19 through a living systematic review and meta-analysis. We will search the following databases e.g; Pubmed; the Cochrane central register of controlled trials (CENTRAL); the Clinical Trials Registry - India (CTRI); Digital Helpline for Ayurveda Research Articles (DHARA): AYUSH research portal; WHO COVID-19 database etc. Clinical improvement, WHO ordinal scale, viral clearance, incidences of COVID-19 infection, and mortality will be considered as primary outcomes. Secondary outcomes will be use of O2 therapy or mechanical ventilator, admission to high dependency unit or emergency unit, duration of hospitalization, the time to symptom resolution, and adverse events. The review will be updated bi-monthly with two updates. It will provide practitioners, guideline developers, and authorities with up-to-date syntheses on interventions on a regular basis to help them make health-care decisions about AYUSH therapies for COVID-19 management. Study is supported by World Health Organization, South East Asia Regional Office, New Delhi, India.  Here, we shared the result of our search strategy of our project and data extraction tool developed.

opencc-by-4.0Jul 2021View details →

Prisma P Checklist of protocol - AYUSH interventions for COVID-19 - A Living Systematic Review and Meta-analysis

opencc-zeroJul 2021View details →

Sexual (in)equality? A meta-analysis of sex differences in thermal acclimation capacity across ectotherms

1. Climate change is putting the fate of ectothermic animals at stake because their body temperature closely tracks environmental temperatures. The ability to adjust thermal limits and preference through acclimation (i.e., acclimation capacity) may compensate for temperature changes. However, although necessary for forecasting the future of ectotherms in a changing climate, knowledge on the factors modulating these plastic responses is fragmentary. For instance, the influence of an animal's sex in driving acclimation capacity has been underappreciated. 2. Here, we present the first systematic review and meta-analysis on sex differences in thermal acclimation capacity. Using 239 effect sizes from 37 studies and 44 species, we revealed that males and females did not differ significantly in their overall capacity to acclimate their thermal limits and preference. However, in some instances, females expressed significantly greater plastic responses than males. 3. In wild animals, females had a greater heat tolerance plasticity than males. In addition, females had a greater cold tolerance plasticity in terrestrial habitats, but the strength and direction of this sexual dimorphism was associated with the duration of acclimation. We also found a negative correlation between body mass and plasticity. Finally, we demonstrated that the capacity for each sex to adjust their thermal tolerance and preference was remarkably limited. 4. It is important to acknowledge that the above effects were weak and heterogeneous. Hence, in the species we investigated, minor differences in acclimation capacity may not translate into major ecological mismatch between sexes with climate change. 5. Our systematic review also revealed that over 75% of the studies we identified either did not report or confounded the sex of the animals. This under-reporting may cause to overlook ecologically relevant sex differences in plasticity in ectothermic taxa. We stress the need for further research on sex-based responses to temperatures. 6. Our synthesis provides additional evidence that the capacity for ectotherms to acclimate to temperatures is limited, and likely insufficient to compensate for the impacts of climate change.

opencc-zeroAug 2021View details →

Subjective sleep quality and sleep architecture in patients with migraine: a meta-analysis

Objectives: Sleep disturbance is often associated with migraine. However, there is a paucity of research investigating objective and subjective measures of sleep in migraine patients. This meta-analysis aims to determine whether there are differences in subjective sleep quality measured using the Pittsburgh Sleep Quality Index (PSQI), and objective sleep physiology measured using polysomnography between adult and pediatric patients, and healthy controls. Methods: This review was pre-registered on PROSPERO (CRD42020209325). A systematic search of five databases (Embase, MEDLINE®, Global Health, APA PsycINFO, APA PsycArticles, last searched: 12/17/2020) was conducted to find case-controlled studies which measured polysomnography and/or PSQI in patients with migraine. Pregnant participants and those with other headache disorders were excluded. Effect sizes (Hedges' g) were entered into a random effects model meta-analysis. Study quality was evaluated with the Newcastle Ottawa Scale, and publication bias with Egger's regression test. Results: 32 studies were eligible, of which 21 measured PSQI and/MIDAS in adults, 6 measured PSG in adults and 5 in children. The overall mean study quality score was 5/9, and this did not moderate any of the results, and there was no risk of publication bias. Overall, adults with migraine had higher PSQI scores than healthy controls (g=0.75, p < .001, 95% confidence interval [95%CI]: 0.54 - 0.96). This effect was larger in those with chronic rather than episodic condition (g=1.03, p < .001, 95%CI: 0.37 - 1.01, g = 0.63, p < .001, 95%CI: 0.38 - 0.88 respectively). For polysomnographic studies, adults and children with migraine displayed a lower percentage of REM sleep (g=-0.22, p = 0.017, 95%CI: -0.41 - -0.04, g = -0.71, p = 0.025, 95%CI: -1.34 - -0.10 respectively) than controls. Pediatric patients displayed less total sleep time (g=-1.37, p = 0.039, 95%CI: -2.66 - -0.10), more wake (g=0.52, p < .001, 95%CI: 0.08 – 0.79) and shorter sleep onset latency (g=-0.37, p < .001, 95%CI: -0.54 - -0.21) than controls. Discussion: People with migraine have significantly poorer subjective sleep quality and altered sleep physiology compared to healthy individuals. Further longitudinal empirical studies are required to enhance our understanding of this relationship.

opencc-zeroSep 2021View details →

Understanding behavioural responses to human-induced rapid environmental change: A meta-analysis

Behavioural responses are often the first reaction of an organism to human induced rapid environmental change (HIREC), yet current empirical evidence provides no consensus about the main environmental features that animals respond to behaviourally or which behaviours are responsive to HIREC. To understand how changes in behaviour can be predicted by different forms of HIREC, we conducted a meta-analysis of the existing empirical literature focusing on behavioural responses to five axes of environmental change (climate change, changes in CO2, direct human impact, changes in nutrients and biotic exchanges) in five behavioural domains (aggression, exploration, activity, boldness and sociability) across a range of taxa but with a focus on fish and bird species. Our meta-analysis revealed a general absence of directional behavioural responses to HIREC. However, the absolute magnitude of the effect sizes was large. This means that animals have strong behavioural responses to HIREC, but the responses are not clearly in any particular direction. Moreover, absolute magnitude of the effect sizes differed between different behaviours and different forms of HIREC: Exploration responded more strongly than activity, and climate change induced the strongest behavioural responses. Model heterogeneities identified that effect sizes varied primarily because of study design, and the specific sample of individuals used in a study; phylogeny also explains significant variation in our bird model. Based on these results, we make four recommendations to further our understanding: 1) a more balanced representation of laboratory and field studies, 2) consideration of context dependency, 3) standardisation of the methods and definitions used to quantify and study behaviours, and 4) consideration of the role for individual differences in behaviour.

opencc-by-4.0Oct 2021View details →

Diversity and compositional changes in the gut microbiota of wild and captive vertebrates: a meta-analysis

Bioinformatic code, data files, raw figures and data accessibility table associated to the manuscript "Diversity and compositional changes in the gut microbiota of wild and captive vertebrates: a meta-analysis".

opencc-zeroDec 2021View details →

Data for: Resetting our expectations for parasites and their effects on species interactions: A meta-analysis

Despite the ubiquitous nature of parasitism, how parasitism alters the outcome of host species interactions such as competition, mutualism, and predation remain unknown. Using a phylogenetically informed meta-analysis of 154 studies, we examined how the mean and variance in the outcomes of species interactions differed between parasitized and non-parasitized hosts. Overall, parasitism did not significantly affect the mean or variance of host species interaction outcomes, nor did the shared evolutionary histories of hosts and parasites have an effect. Instead, there was considerable variation in outcomes, ranging from strongly detrimental to strongly beneficial for infected hosts. Trophically-transmitted parasites increased the negative effects of predation, parasites increased and decreased the negative effects of interspecific competition for parasitized and non-parasitized heterospecifics, respectively, and parasites had particularly strong negative effects on host species interactions in freshwater and marine habitats, yet were beneficial in terrestrial environments. Our results illuminate the diverse ways in which parasites modify critical linkages in ecological networks, implying that whether the cumulative effects of parasitism are considered detrimental depends not only on the interactions between hosts and their parasites, but also on the many other interactions that hosts experience.

opencc-zeroNov 2022View details →

Data from: Which traits optimize plant benefits? Meta-analysis on the effect of partner traits on the outcome of an ant-plant protective mutualism

1. Theoretical models on mutualism dynamics predict that partner traits may influence the outcome of mutualistic interactions. However, most empirical data on this issue is restricted to case studies, limiting our ability to reach a more widespread comprehension of the role of partner traits on the dynamic of mutualisms. 2. We investigated how the outcome of protective mutualisms between ants and plants bearing extrafloral nectaries (EFNs) is influenced by the traits of EFNs and ants feeding on EFNs. We used a meta-analytical approach based on 35 studies investigating the effect of ant attendance on the herbivores and reproductive performance of EFN-bearing plants. We evaluated how variation in the EFN vascularization and location on plants and the ant aggressiveness can modulate the effect of ant attendance on the plants. 3. Both plant and ant traits investigated here drove the outcome of the protective mutualism for EFN-bearing plants. Plants exclusively bearing EFNs near reproductive organs benefited more from ant attendance than plants bearing EFNs on vegetative or vegetative and reproductive organs. Ants had a higher positive impact on the reproductive performance of plants bearing non-vascularized EFNs than plants bearing vascularized EFNs, although their effects on herbivores had been similar in both plant types. Regarding the ant behavior, plants often attended by more aggressive ant species had a higher reproductive performance than plants often attended by less aggressive ones. 4. Synthesis: Our results highlight that the selective pressures and evolutionary routes in ant-plant protective mutualisms may depend on the pool of traits exhibited by partner species. Although some studies have already reported some impact of species traits on the outcome of ant-plant mutualisms, this is the first time that a generalization about the role of species traits on the net balance of ant attendance was proposed. Due to this generalization, it was possible to advance our knowledge about the evolution of facultative mutualisms by showing that the role of species traits on the mutualistic outcome can vary in intricate ways due to a particular trait combination found among partners in communities where the interactions are embedded in.

opencc-zeroNov 2022View details →

Meta-analysis of major histocompatibility complex (MHC) class IIA reveals polymorphism and positive selection in many vertebrate species

Pathogen-mediated selection and sexual selection are important drivers of evolution. Both processes are known to target genes of the major histocompatibility complex (MHC), a gene family encoding cell-surface proteins that display pathogen peptides to the immune system. The MHC is also a model for understanding processes such as gene duplication and trans-species allele sharing. The class II MHC protein is a heterodimer whose peptide-binding groove is encoded by an MHC-IIA gene and an MHC-IIB gene. However, our literature review found that class II MHC papers on infectious disease or sexual selection included IIA data only 18% and 9% of the time, respectively. To assess whether greater emphasis on MHC-IIA is warranted, we analyzed MHC-IIA sequence data from 50 species of vertebrates (fish, amphibians, birds, mammals) to test for polymorphism and positive selection. We found that the number of MHC-IIA alleles within a species was often high, and covaried with sample size and number of MHC-IIA genes assayed. While MHC-IIA variability tended to be lower than that of MHC-IIB, the difference was only ~25%, with ~3 fewer IIA alleles than IIB. Furthermore, the unexpectedly high MHC-IIA variability showed clear signatures of positive selection in most species, and positive selection on MHC-IIA was stronger in fish than in other surveyed vertebrate groups. Our findings underscore that MHC-IIA can be an important target of selection. Future work should therefore expand the characterization of MHC-IIA at both allelic and genomic scales, and incorporate MHC-IIA into models of fitness consequences of MHC variation.

opencc-by-4.0Dec 2022View details →

Fig. 3 in Prevalence Of Fascioliasis In Ruminants Of The World - Meta-Analysis

Fig. 3. Funnel plot for the binary result (chosen measure of effect — odds ratio). The x-axis denotes the prevalence of Fasciola spp. among ruminants, and the y-axis is the standard error of prevalence (P> 0.05 indicates no publication error).

opencc-zeroDec 2022View details →

Inbreeding depression in polyploid species: a meta-analysis

Whole-genome duplication (WGD) is a common mutation in eukaryotes with far-reaching phenotypic effects. Morphological and fitness consequences of WGD and their effects on the survival of novel polyploid lineages are intensively studied. Another important factor that may also determine the probability of establishment and success of polyploid lineages is inbreeding depression. Inbreeding depression is expected to play an important role in the establishment of neopolyploid lineages, their capacity to colonize new environments, and in the simultaneous evolution of ploidy and other life-history traits such as self-fertilization. Both theoretically and empirically, there is no consensus on the consequences of polyploidy on inbreeding depression. Here, we investigated the effect of polyploidy on the evolution of inbreeding depression by performing a meta-analysis within angiosperm species. The main results of our study are that the consequences of polyploidy on inbreeding depression are complex and depend on the time since polyploidization. We found that newly formed polyploid lineages have a much lower amount of inbreeding depression than their diploid relatives. Natural established polyploid lineages are intermediate, exhibiting a higher amount of inbreeding depression than synthetic neopolyploids, but smaller than diploids, suggesting that the negative effect of polyploidy on inbreeding depression decreases with time since polyploidization.

opencc-by-4.0Feb 2023View details →

RDF version of the supplementary data from Shin, Hyun Kil and Seo et al. Meta-analysis of Daphnia magna nanotoxicity experiments in accordance with test guidelines. Environ. Sci.: Nano (2018)

This is an RDF version of the dataset published by Shin, Hyun Kil and Seo et al. as a supplement of the study Meta-analysis of Daphnia magna nanotoxicity experiments in accordance with test guidelines. Environ. Sci.: Nano (2018). The original dataset is available online: <a href="https://ui.staging.kit.cloud.douglasconnect.com/dataexplorer?dataset=ab2bc1ee-99dc-4ddf-b1f9-9fdeb8a0f48c%3A1&q=%7B%7D">https://ui.staging.kit.cloud.douglasconnect.com/dataexplorer?dataset=ab2bc1ee-99dc-4ddf-b1f9-9fdeb8a0f48c%3A1&q=%7B%7D</a> The original publication DOI: <a href="http://dx.doi.org/10.1039/C7EN01127J">http://dx.doi.org/10.1039/C7EN01127J</a> GitHub repository of the datasets converted to RDF along with RML mappings: <a href="https://github.com/ammar257ammar/RDFied-datasets">https://github.com/ammar257ammar/RDFied-datasets</a>