Replicate Samples Research Articles

Using eDNA Sampling to Identify Correlates of Species Occupancy Across Broad Spatial Scales

ABSTRACTAimSpecies presence–absence data can be time‐consuming and logistically difficult to obtain across large spatial extents. Yet these data are important for ensuring changes in species distributions are accurately monitored and are vital for ensuring appropriate conservation actions are undertaken. Here, we demonstrate how environmental DNA (eDNA) sampling can be used to systematically collect species occupancy data rapidly and efficiently across vast spatial domains to improve understanding of factors influencing species distributions.LocationSouth‐eastern Australia.MethodsWe use a widely distributed, but near‐threatened species, the platypus (Ornithorhynchus anatinus), as a test case and undertake an environmentally stratified systematic survey to assess the presence–absence of platypus eDNA at 504 sites across 584,292 km2 of south‐eastern Australia, representing ~37% of the species' extensive distribution. Site occupancy‐detection models were used to analyse how landscape‐ and site‐level factors affect platypus occupancy, enabling us to incorporate uncertainty at the different levels inherent in eDNA sampling (site, water sample replicate and qPCR replicate).ResultsPlatypus eDNA was detected at 272 sites (~54%) with platypuses more likely to occupy sites in catchments with increased runoff and less zero‐flow days, and sites with access to banks suitable for burrowing. Platypuses were less likely to occupy sites in catchments with a high proportion of shrubs and grasslands, or agricultural land use.Main ConclusionsThese data provide an important large‐scale validation of the landscape‐ and site‐level factors influencing platypus occupancy that can be used to inform future conservation efforts. Our case study shows that systematically designed, stratified eDNA surveys provide an efficient means to understand how environmental characteristics affect species occupancy across broad environmental gradients. The methods employed here can be applied to aquatic and semi‐aquatic species globally, providing unprecedented opportunities to understand biodiversity status and change and provide insights for current and future conservation actions.

Plasma proteome and incident myocardial infarction: sex-specific differences.

Few population-based cohort studies, including both men and women, have explored circulating proteins associated with incident myocardial infarction (MI). This study investigated the relationships between circulating cardiometabolic-related proteins and MI risk using cohort-based and Mendelian randomization (MR) analyses and explored potential sex-specific differences. The discovery cohort included 11 751 Swedish adults (55-93 years). Data on 259 proteins assessed with Olink proximity extension assays, biochemical, and questionnaire-based information were used. Participants were followed up for incident MI and death over 8 years through linkage to Swedish registers. Replication analyses were conducted on the UK Biobank sample (n = 51 613). In MR analyses, index cis-genetic variants strongly related to the proteins were used as instrumental variables. Genetic association summary statistic data for MI were obtained from the CARDIoGRAMplusC4D consortium and FinnGen. Forty-five proteins were associated with incident MI in discovery and replication samples following adjustment for potential confounders and multiple testing. In the secondary analysis, 13 of the protein associations were sex-specific, with most associations identified among women. In MR analysis, genetically predicted higher levels of renin, follistatin, and retinoic acid receptor responder protein 2 were linked to an increased risk of MI. Tissue factor pathway inhibitor, tumor necrosis factor receptors 1 and 2, placenta growth factor had an inverse association with MI. This study identified both new and confirmed previously established associations between circulating proteins and incident MI and, for the first time, suggested sex-specific patterns in multiple protein-MI associations.

Measuring Fidelity to Individual Placement and Support for Transition Age Youth: Psychometric Findings.

Individual Placement and Support (IPS), an evidence-based supported employment model for working-age adults with serious mental illness, also serves transition age adults (TAY; ages 16-24). The IPS-Y is a new IPS fidelity scale tailored to this younger population. Although adopted worldwide, it lacks research on the psychometric properties of its two components (employment and education). Six IPS programs serving TAY were assessed on IPS-Y (Employment) in an initial review (Time 1) and on both components in a second review one year later (Time 2). We examined scale calibration, reliability, and validity for the IPS-Y in this sample. Fidelity reviewers use the full range of ratings, from "not IPS" to "exemplary," on both IPS-Y components. On the employment component, item calibration was excellent; internal consistency reliability was good at Time 1 (r = .81) and test-retest reliability was fair (r = .63). The IPS-Y (Employment) showed excellent sensitivity to change, with the mean scale score increasing from 88.3 to 105.5. IPS-Y (Employment)item ratings at Time 2 were similar to corresponding items in a sample of conventional IPS programs using the standard IPS fidelity scale. Predictive validity was promising for both components, with fidelity scale ratings positively correlated with site-level competitive employment rates (r = .57) and education enrollment rates (r = .69). IPS can be implemented to good fidelity for programs serving TAY. Preliminary findings regarding the psychometric properties of the IPS-Y Employment are encouraging, but replication in larger samples is needed.

Child and adolescent social withdrawal predict adult psychosocial adjustment: A meta-analysis

This systematic review and set of five meta-analyses synthesized the results of prospective longitudinal publications on childhood and/or adolescent social withdrawal as a predictor of adult psychosocial adjustment. Meta-analyses were conducted with results for five adult outcomes from 31 publications derived from 14 longitudinal samples and a combined sample size of 19,806 adults (50% women, M = 38.88 years, 83% White) with childhood and/or adolescent ( ≤ 16 years) histories of social withdrawal and their offspring (N = 175). Dependency among publications derived from the same longitudinal samples was explicitly modeled in meta-analyses with clustering. Meta-analytic results support childhood and/or adolescent social withdrawal as a medium-sized risk factor for adult social anxiety and intergenerational difficulties in mothers and their offspring (both p < 0.0001); a small-size risk factor for delayed adult developmental milestones (p < 0.05), adult social withdrawal (p < 0.0001), other anxiety (p < 0.05), and depression (p < 0.01); and a small-size protective factor against adult substance use (p < 0.01). However, meta-analytic results did not support childhood and/or adolescent social withdrawal as a predictor of physical health, likely due to the heterogeneous nature of the investigated health outcomes. Consistent with a Developmental Science Model, results are interpreted as supporting interpersonal mechanisms (missing out, interpersonal stress, and poor relationship quality) and developmental cascades (cross domain-influences) in socially withdrawn children's life-course development. Because evidence for intergenerational difficulties was based on a single longitudinal sample, confidence in intergenerational effects would be increased by replication in other samples. Heterogeneity among effect sizes included in most meta-analyses suggests that the relation between childhood and/or adolescent social withdrawal and adult outcomes is likely to be moderated by other factors. Future directions in this area of research are discussed.

Exploring the potential for a 9000-year tree-ring chronology consisting of subfossil oak material from southern Scandinavia

In this study, we present the initial results from a long-term initiative to develop a multi-millennial tree-ring width (TRW) chronology for subfossil oak (Quercus spp.) trees in South Scandinavia. We have constructed 40 TRW chronologies, primarily from oak trunks extracted from peatlands, archaeological sites, drainage ditches, and infrastructure projects, as well as some submerged material. The trees included in these chronologies have been dendrochronologically dated and/or dated by radiocarbon, showing a temporal spread from 6911 ± 246 BCE to 1117 CE. Significant assemblages of trees are found during the periods 6000–4500 BCE, 3500–2600 BCE, 1750–1200 BCE, 900–400 BCE, and 200 BCE–500 CE, with intervening periods exhibiting low sample replication or gaps. The paleoclimatic information extracted from TRW and replication data may vary based on the substrate in which the trees were rooted, geographical locations, and the prevailing climate conditions during their growth. Nevertheless, extending the oak TRW chronologies is crucial because (1) no such long and annually resolved climate records from southern Scandinavia exist, (2) there is a widespread lack of detailed paleoclimatic proxies spanning multi-millennial periods, and (3) it will provide an essential dating tool for wooden archaeological artifacts. This study is the first in a series aimed at refining paleoclimatic and ecological reconstructions in southern Scandinavia. It demonstrates the potential to develop South Scandinavian TRW chronologies covering the last 9000 years, filling a geographical gap in an ecologically sensitive region.

Epigenome-Wide DNA Methylation in Unipolar Depression - Predictive Biomarker of Antidepressant Treatment Response?

Despite the well-documented efficacy of antidepressant agents for the treatment of major depressive disorder (MDD), initial treatment non-response rates are high. Recent years have seen an increase in research into predictive biomarkers towards improving diagnosis and individualized treatment. Among those, epigenetic mechanisms such as DNA methylation constitute promising candidate markers in predicting antidepressant treatment response in MDD. The present study sought to address epigenome-wide DNA methylation as a predictor of antidepressant treatment response in the so far largest sample of patients with MDD. Epigenome-wide DNA methylation was analyzed using the Infinium MethylationEPIC BeadChip in peripheral blood of N=230 Caucasian patients with MDD receiving six-week antidepressant treatment in a naturalistic in-patient setting as well as in a subsample of N=107 patients primarily receiving continuous treatment with SSRIs or SNRIs. Treatment response was assessed by means of the Hamilton Depression Scale (HAM-D). No genome-wide significant hits were observed. Suggestive (p<1E-5) epigenome-wide evidence was discerned for altered DNA methylation at six CpG sites (LOC102724467, LOC100506023, RSPO2, SAG, IL16, PRKCI) to predict response to naturalistic antidepressant treatment. In patients treated with SSRIs or SNRIs, differential DNA methylation at 11 CpGs, e.g. mapping to the TIMP2, VDAC1 or SORL1 genes, was suggestively associated with treatment response. The present results provide preliminary evidence for altered DNA methylation patterns to be associated with antidepressant treatment response in MDD. Provided significant replication in independent and larger samples, the present findings might in the future aid in clinical decision making towards more individualized and thus more efficacious treatments of MDD.

Associations between C-reactive protein and individual symptoms of depression in a lower-middle income country.

Data on associations between inflammation and depressive symptoms largely originate from high income population settings, despite the greatest disease burden in major depressive disorder being attributed to populations in lower-middle income countries (LMICs). We assessed the prevalence of low-grade inflammation in adults with treatment-resistant depression (TRD) in Pakistan, an LMIC, and investigated associations between peripheral C-reactive protein (CRP) levels and depressive symptoms. This is a secondary analysis of two randomised controlled trials investigating adjunctive immunomodulatory agents (minocycline and simvastatin) for Pakistani adults with TRD (n = 191). Logistic regression models were built to assess the relationship between pre-treatment CRP (≥ or <3 mg/L) and individual depressive symptoms measured using the Hamilton Depression Rating Scale. Descriptive statistics and regression were used to assess treatment response for inflammation-associated symptoms. High plasma CRP (≥3 mg/L) was detected in 87% (n = 146) of participants. Early night insomnia (odds ratio 2.33, 95% CI 1.16-5.25), early morning waking (odds ratio 2.65, 95% CI 1.29-6.38) and psychic anxiety (odds ratio 3.79, 95% CI 1.39-21.7) were positively associated, while gastrointestinal (odds ratio 0.38, 95% CI 0.14-0.86) and general somatic symptoms (odds ratio 0.34, 95% CI 0.14-0.74) were negatively associated with inflammation. Minocycline, but not simvastatin, improved symptoms positively associated with inflammation. The prevalence of inflammation in this LMIC sample with TRD was higher than that reported in high income countries. Insomnia and anxiety symptoms may represent possible targets for personalised treatment with immunomodulatory agents in people with elevated CRP. These findings require replication in independent clinical samples.

B-231 Evaluation of the KingFisher Flex for DNA Isolation From FFPE Tissue Utilizing Autolys M Tubes and the MagMAX FFPE DNA/RNA Ultra Kit

Abstract Background Our institution is facing increasing demand for oncology testing that requires high quality DNA extracted from formalin-fixed paraffin-embedded (FFPE) tissue. The current DNA extraction workflow involves a time and labor-intensive manual process that limits our ability to accommodate increasing downstream clinical testing volumes. We evaluated the KingFisher (KF) Flex utilizing Autolys M Tubes and the MagMAX FFPE DNA/RNA Ultra Kit as a possible high-throughput, automated DNA isolation workflow option that would decrease hands-on time and be conducive to volume growth without the need for additional staff. Methods DNA from 52 FFPE tissue samples (n=24 unique cases previously extracted by the current “manual method”) were extracted using Autolys M tubes, the MagMAX FFPE DNA/RNA Ultra Kit, and the KF Flex (Thermo Fisher Scientific Waltham, MA) over 4 “automated method” runs. Method modifications to the published procedure were introduced over the runs to determine any effects on DNA quality/quantity. Timings were taken during each run to compare hands-on and total run time against that of the manual method. Precision experiments were performed by extracting 4 replicates of sample on a single run (intra-assay precision) and 2 samples from 2 cases over 2 runs (inter-assay precision). Three cases were processed using varying tissue input levels to assess input-yield correlation. DNA yield was measured using HS dsDNA Qubit (Thermo Fisher Scientific, Waltham, MA). A subset of samples was tested by digital droplet PCR (ddPCR) (n=10), chromosomal microsomal microarray (CMA) (n=1), and next-generation sequencing (NGS) (n=3). Variants and QC metrics of the KF DNA were compared to those of the manual method DNA. Results The average total DNA yield was 3% lower from samples extracted following the manufacturer recommended KF procedure compared to matched samples extracted using the manual method (n=28 samples from 23 unique cases). A CV of 2.8% was observed in an intra-assay experiment (n=4 replicates from 1 case) and 3.0% in an average inter-assay experiment (n=2 replicates from 2 cases). There was a direct correlation between the tissue input amount (4 amounts of varied tissue input) and the total DNA yield (n=3 samples). We observed concordant fractional abundance values for ddPCR samples and concordant variant detection for NGS and CMA samples. We did not see a significant difference in the quality metrics tracked for any of the downstream testing assays. Conclusions This evaluation demonstrated that, as compared to our manual method, the automated method resulted in comparable DNA yields and downstream assay results. The incorporation of this automation would significantly increase our FFPE DNA extraction capacity without requiring additional staff while reducing hands-on time per run by about six hours. We would also be able to reduce ergonomic hazards related to tube cap manipulation, eliminate use of hazardous reagents, and leverage the plate format to better integrate extracted DNA into our clinical sample preparation workflows. These operational benefits highlight the value of automating high-throughput workflows.

A-067 Simultaneous Measurement of Aldosterone and Plasma Renin Activity in Human Serum Using Liquid Chromatography Coupled to Tandem Mass Spectrometry for Clinical Research

Abstract Background The combination of primary aldosteronism (PA) and alterations in plasma renin activity (PRA) is a leading cause of secondary hypertension. An accurate measurement of Renin Angiotensin-Aldosterone System (RAAS) pathway improves the recognition of symptoms related to stroke, coronary disease, heart failure and metabolic syndrome. Methods Previously, surrogate matrices have been used when demonstrating the analytical performance of LC-MS/MS clinical research methods for the measurement of aldosterone and angiotensin I. Here, we have developed an analytically sensitive and reliable analytical strategy for simultaneous measurement of Aldosterone and Angiotensin I in human matrices. In-house calibrators and quality control samples were prepared, containing varying ranges of both aldosterone (20-2000pg/mL; 55-5548pmol/L) and angiotensin 1 (0.6-240ng/mL; 0.46-185nmol/L). The samples were extracted using the Oasis™ MAX 96-well µElution plate and then separated through the ACQUITY™ UPLC™ I-Class FL System using a XBridge™ Premier Peptide BEH™ C18 Column, over a run time of 3 minutes. Samples were then injected to Xevo™ TQ Absolute Mass Spectrometer, using both positive and negative acquisition modes. The downstream LC-MS/MS data analysis was performed using MassLynx™ MS Software. The analytical performance was demonstrated by extracting and quantifying two replicates of samples on two occasions per day over five separate days. Additionally, the stability of aldosterone and angiotensin I over the period of incubation (3-5hr) was evaluated, which is necessary when investigating the plasma renin activity in human Serum/Plasma samples. Results High reproducibility and repeatability were both determined, indicating total precision and repeatability (&amp;lt;15%CV) for both analytes and no significant changes were found in Aldosterone and Angiotensin I concentrations over 3-5hr of incubation. No significant system carryover (&amp;lt;10% of the lowest calibrator) from high concentration samples into subsequent blank injections was observed. In addition, calibration lines in human serum/plasma were linear, with coefficient of determinations (r2) &amp;gt;0.992 for all analyses at different incubation times. The analytical sensitivity of the clinical research method allows for precise quantification at 55 pmol/L for aldosterone and 0.46 nmol/L/hr for angiotensin I, with both analytes providing S/N (PtP) ≥10:1 and %RSD of &amp;lt;15% at these concentrations. Conclusions An analytically sensitive and selective clinical research method has been developed for the analysis of aldosterone and angiotensin I, using the Xevo TQ Absolute Mass Spectrometer. The Xevo TQ Absolute Mass Spectrometer enables the simultaneous analysis of physiologically low levels of aldosterone and plasma renin activity in human samples, (20pg/mL; 55pmol/L), (0.6ng/mL; 0.46nmol/h/L). A single test that improves instrument utilization, reduces cost, and allows the user to expand their existing test menu on the same platform has been established.

A-318 Validation of umbilical cord blood as an alternate sample type for quantitative in vitro detection of glucose-6-phosphate dehydrogenase in neonates

Abstract Background Detection of glucose-6-phosphate dehydrogenase (G6PD) deficiency provides important information for neonatal clinical management. G6PD newborn screening is recommended using umbilical cord blood specimens in vulnerable patient populations.1 Also, cord blood is used by many clinicians instead of peripheral blood for neonatal screening of G6PD.2 Use of cord blood is a modification to the FDA-approved Pointe Scientific G6PD kinetic-340 nm assay. The aim of this study was to validate cord blood as an alternate specimen type for the Pointe Scientific G6PD assay. Methods Hemoglobin (Hgb) results are from Sysmex XN 9100™ analyzers that use SLS methodology with photometric detection. G6PD results are from Roche cobas® c502 analyzers with Pointe Scientific kinetic method and spectrophotometric detection of activity, expressed as U/g Hgb. Neonatal blood specimens were obtained as paired samples from heel sticks and umbilical cord collected in EDTA lavender top tubes. Accuracy acceptance criteria was defined as Deming regression slope between 0.90 and 1.10, r-value of &amp;gt;0.90 and bias ±15% and mixing study recovery of ±10%. Precision (intra-assay and inter-assay), reportable range and linearity, carryover, and stability were established using cord blood samples or control materials sourced from Thermo Fisher Scientific or Sysmex. Reference intervals3, analytical sensitivity, specificity, and clinical validity were transferred to cord blood due to comparability with whole blood FDA-approved method. EP Evaluator software by Data Innovations® was used for calculations. Results Direct comparison of G6PD results (U/g Hgb) from 125 paired samples yielded a 0.9025 correlation coefficient, 1.024 Deming slope, and -0.25% bias. Mixing and recovery of admixed samples gave % recoveries of 102, 103, 101, 102, 100, and 100 for G6PD (U/g Hgb), and 102, 102, 101, 104, 99, and 105 for Hgb (g/dL). Intra-assay precision results were 2.4, 0.6, 0.8, 0.5, 0.4 % CV for G6PD and Hgb, respectively. Inter-assay precision results were 3.1, 3.3, 0.7, 0.7, 0.5 % CV for G6PD and Hgb, respectively. Reportable range and linearity evaluation resulted in a maximum deviation from target recovery of 4%, and a slope of 0.979 for a range of 50 - 2740 U/L, and reportable range for Hgb was confirmed as 0.1 - 26.0 g/dL using controls (1% maximum deviation and 0.991 slope). Carryover was -5.8 (mean concentration) for G6PD and 0% for Hgb after testing 21 replicates of pooled high and low samples in a defined order. Testing 3 samples in 3 replicates at each defined time interval defined stability as 1 week refrigerated or 72 hours room temperature for G6PD, and 3 days refrigerated or 1 day room temperature for Hgb. Conclusions Regression statistics and mixing-recovery studies demonstrated accuracy for detecting G6PD (U/g Hgb) and Hgb (g/dL) from EDTA cord blood. Additional performance characteristics were transferrable for this specimen type from the FDA-approved method for whole blood. Umbilical cord blood is an acceptable alternate specimen type for quantitative detection of G6PD (U/g Hgb) using Pointe Scientific with Sysmex XN-9100™ and Roche cobas® c502 instrumentation.

A Scoping Review of Multimodal, Dyadic Early Relational Health Interventions in NICUs in the United States.

Early relational health (ERH) interventions can buffer toxic stress and improve the developmental trajectories of neonatal intensive care unit (NICU) infants. The purpose was to examine the current state of the science related to multimodal, dyadic ERH interventions implemented in the NICU setting in the United States and identify gaps in the current literature. PubMed, Scopus, Cumulative Index to Nursing and Allied Health Literature (CINAHL), and PsycInfo were searched in November 2022 and November 2023 for original studies and conference proceedings from 1970 to present in the English language. Gray literature searches were performed in February 2023 and December 2023. English language, original research, with a focus on multimodal, dyadic ERH interventions that took place primarily in a NICU in the United States were included. Outcome measures could be related to implementation, relational health, or physical and/or mental health outcomes of parent and/or infant. Eighteen of 2021 reviewed articles met the inclusion criteria. Data were extracted for author, year, intervention, purpose, methods, sample, paternal inclusion, dyadic components, non-dyadic components, and major outcomes/results and distilled for study characteristics, multimodal, dyadic intervention characteristics, and outcome measures. Several multimodal dyadic interventions exist to aid ERH in the NICU, providing evidence of improved outcomes for infants and families. More research is required using higher sample sizes and replication studies. ERH interventions show promise in improving neurodevelopmental, behavioral, and maternal mental health outcomes and should be considered for implementation into NICU services.

Reproducible Sex Differences in Personalized Functional Network Topography in Youth.

A key step towards understanding psychiatric disorders that disproportionately impact female mental health is delineating the emergence of sex-specific patterns of brain organization at the critical transition from childhood to adolescence. Prior work suggests that individual differences in the spatial organization of functional brain networks across the cortex are associated with psychopathology and differ systematically by sex. We aimed to evaluate the impact of sex on the spatial organization of person-specific functional brain networks. We leveraged person-specific atlases of functional brain networks defined using nonnegative matrix factorization in a sample of n = 6437 youths from the Adolescent Brain Cognitive Development Study. Across independent discovery and replication samples, we used generalized additive models to uncover associations between sex and the spatial layout ("topography") of personalized functional networks (PFNs). Next, we trained support vector machines to classify participants' sex from multivariate patterns of PFN topography. Finally, we leveraged transcriptomic data from the Allen Human Brain Atlas to evaluate spatial correlations between sex differences in PFN topography and gene expression. Sex differences in PFN topography were greatest in association networks including the fronto-parietal, ventral attention, and default mode networks. Machine learning models trained on participants' PFNs were able to classify participant sex with high accuracy. Brain regions with the greatest sex differences in PFN topography were enriched in expression of X-linked genes as well as genes expressed in astrocytes and excitatory neurons. Sex differences in PFN topography are robust, replicate across large-scale samples of youth, and are associated with expression patterns of X-linked genes. These results suggest a potential contributor to the female-biased risk in depressive and anxiety disorders that emerge at the transition from childhood to adolescence.

Putting it into words: Emotion vocabulary, emotion differentiation, and depression among adolescents.

Emotion differentiation (ED; the ability to distinguish discrete internal emotion states) may reflect or benefit from knowledge of linguistic labels. The present study uses natural language processing to examine how emotion vocabulary (EV; diversity of unique emotion terms within active vocabulary) relates to ED and depression in an adolescent sample. We tested two competing preregistered (https://osf.io/4j75w/) models regarding the EV-ED link. In the lexical facilitation hypothesis, we posited that larger EV may inform ED, perhaps resulting in larger EVs being associated with greater ED. In the emotional concision hypothesis, we theorized that ED may reflect narrower emotional experiences that are more succinctly labelled, which could result in larger EV being associated with lower ED. A community sample of adolescents (N = 241, ages 14-17, predominantly White) completed interviews, self-report measures, and ecological momentary assessments as part of a larger study conducted between 2014 and 2016. EV was derived using speech samples from transcribed recordings of life stress interviews. In line with the emotion concision hypothesis, EV and ED were inversely related for negative emotions. Moreover, larger negative EV and lower negative ED were each uniquely associated with depression, casting further doubt on whether diverse negative EVs within spontaneous language are fundamentally adaptive for emotional functioning. Replication in more diverse samples is needed to extend generalizability. (PsycInfo Database Record (c) 2024 APA, all rights reserved).

The lack of causal link between myopia and intraocular pressure: Insights from cross-sectional analysis and Mendelian randomization study

ObjectiveThis study aimed to explore the potential causal relationship between intraocular pressure (IOP) and myopia. MethodsThe study included 3,459 patients who underwent corneal refractive surgery at our institution between 2021 and 2023. Preoperative data on IOP, spherical equivalent (SE), axial length (AL), and corneal thickness (CCT) were collected. The association between IOP and myopia was investigated through rank correlation analysis, and causal inference was examined using Mendelian randomization (MR) methods, including MR-Egger, weighted median, mode-based estimation, simple mode, and inverse variance weighted (IVW) approaches. Utilizing summary statistics from genome-wide association studies (GWAS), IOP was considered as the exposure, with myopia as the outcome variable. IVW method was employed for the primary analysis, supplemented by sensitivity analyses. ResultsCross-sectional analysis revealed a non-significant association between corrected IOP (cIOP) and myopia (r = -0.019, P = 0.12). MR analysis indicated a non-significant genetic causal relationship between cIOP and myopia under the IVW method (OR = 1.001; 95 % CI [0.999–1.003], P = 0.22), a finding corroborated in replication samples (OR = 0.98; 95 % CI [0.96–1.00], P = 0.099). ConclusionThis study did not find a direct causal link between IOP and the development of myopia. These findings challenge the traditional role attributed to IOP in the progression of myopia and highlight the complex, multifactorial process of myopia development. This provides a new perspective on understanding the intricate mechanisms behind myopia progression.

Machine learning with multiple modalities of brain magnetic resonance imaging data to identify the presence of bipolar disorder

BackgroundBipolar disorder (BD) is a chronic psychiatric mood disorder that is solely diagnosed based on clinical symptoms. These symptoms often overlap with other psychiatric disorders. Efforts to use machine learning (ML) to create predictive models for BD based on data from brain imaging are expanding but have often been limited using only a single modality and the exclusion of the cerebellum, which may be relevant in BD. MethodsIn this study, we sought to improve ML classification of BD by combining information from structural, functional, and diffusion-weighted imaging. Participants (108 BD I, 78 control) with BD type I and matched controls were recruited into an imaging study. This dataset was randomly divided into training and testing sets. For each of the three modalities, a separate ML model was selected, trained, and then used to generate a prediction of the class of each test subject. Majority voting was used to combine results from the three models to make a final prediction of whether a subject had BD. An independent replication sample was used to evaluate the ability of the ML classification to generalize to data collected at other sites. ResultsCombining the three machine learning models through majority voting resulted in an accuracy of 89.5 % for classification of the test subjects as being in the BD or control group. Bootstrapping resulted in a 95 % confidence interval of 78.9 %–97.4 % for test accuracy. Performance was reduced when only using 2 of the 3 modalities. Analysis of feature importance revealed that the cerebellum and nodes of the emotional control network were among the most important regions for classification. The machine learning model performed at chance on the independent replication sample. ConclusionBD I could be identified with high accuracy in our relatively small sample by combining structural, functional, and diffusion-weighted imaging data within a single site but not generalize well to an independent replication sample. Future studies using harmonized imaging protocols may facilitate generalization of ML models.

Unpacking interplays between competitiveness, cooperativeness, and social comparison orientation: A network psychometric approach and replication.

Emerging evidence highlights the role of social comparison in competition and cooperation, yet the dynamics among competitiveness, cooperativeness, and social comparison orientation (SCO) remain underexplored. In the present study, we sought to unravel these complex interplays employing graphical Gaussian models (GGMs) and characterize the network structures utilizing cross-sectional data derived from 1073 Chinese participants. A pre-registered independent sample (n = 1348) served to examine the replicability and robustness of our initial findings. Moreover, we explored the Bayesian networks (i.e., directed acyclic graphs) to delve into their probabilistic directed dependencies. Our analysis identified an interpersonal co-opetition network where SCO bridges competitiveness and cooperativeness, emphasizing the key influence of the desire to surpass others. We also found a significant gender effect on the levels of these orientations but not on the network patterns. Additionally, the replication sample offered validation for the resultant network structure and its key nodes. In sum, these findings provide a new insight into the symbiotic relationship between competitiveness and cooperativeness within the framework of social comparison, offering significant theoretical and practical implications.

Like yourself, and others will follow: The role of target self-esteem in the association between being seen accurately and being liked in platonic and romantic first impressions.

When meeting people for the first time, we often strive to perceive others and express our own personalities accurately. Does this benefit social connection by promoting greater perceiver liking of targets, or might it instead hinder liking for some targets and in some contexts? In the present studies, we examined whether the links between accuracy and perceiver liking differ as a function of target self-esteem across two first impression contexts: a speed-dating context (N = 378, N = 4,797 dyads) and a platonic getting-acquainted context (exploratory sample: N = 557, N = 2,924 dyads; preregistered direct replication sample: N = 306, N = 1,683 dyads). In all samples and contexts, target self-esteem significantly moderated the association between accuracy and perceiver liking, such that accuracy was either positively related (platonic context) or unrelated (romantic context) to perceiver liking when targets were higher in self-esteem, yet accuracy was negatively related to perceiver liking when targets were lower in self-esteem, regardless of context. In sum, being seen accurately may have negative social implications for some targets and, especially, in higher stakes getting-acquainted contexts. (PsycInfo Database Record (c) 2024 APA, all rights reserved).

Assessing a prediction model for depression risk using an early adolescent sample with self‐reported depression

AbstractBackgroundMajor depressive disorder (MDD) in adolescence is a risk factor for poor physical and psychiatric outcomes in adulthood, with earlier age of onset associated with poorer outcomes. Identifying Depression Early in Adolescence Risk Score (IDEA‐RS) is a model for predicting MDD in youth aged &gt;15 years, but replication in younger samples (&lt;15 years) is lacking. Here, we tested IDEA‐RS in a younger sample (9–11 years) to assess whether IDEA‐RS could be applied to earlier onset depression.MethodsWe applied IDEA‐RS predictor weights to 9854 adolescents (9–11 years) from the Adolescent Brain Cognitive Development (ABCD) Study, United States. We derived incident depression outcomes from self‐reported data at 2‐year follow‐up (11–13 years): incident MDD and increase in depression symptoms (DS). Sensitivity analyses were conducted using parent‐reported data. We assessed accuracy and calibration in predicting self‐reported incident depression and compared this to a refitted model with predictor weights derived in ABCD. Lastly, we tested associations between IDEA‐RS predictors and self‐reported incident depression.ResultsExternal replication yielded better‐than‐chance discriminative capacity for self‐reported incident depression (MDD: AUC = 61.4%, 95% CI = 53.5%–69.4%; DS: AUC = 57.9%, 95% CI = 54.6%–61.3%) but showed poor calibration with overly extreme risk estimates. Re‐estimating predictor weights improved discriminative capacity (MDD: AUC = 75.9%, 95% CI = 70.3%–81.4%; DS: AUC = 64.8%, 95% CI = 61.9%–67.7%) and calibration. IDEA‐RS predictors ‘poorest level of relationship with the primary caregiver’ (OR = 4.25, 95% CI = 1.73–10.41) and ‘high/highest levels of family conflict’ (OR = 3.36 [95% CI = 1.34–8.43] and OR = 3.76 [95% CI = 1.50–9.38], respectively) showed greatest associations with self‐reported incident MDD.ConclusionsWhile IDEA‐RS yields better‐than‐chance predictions on external replication, accuracy is improved when differences between samples, such as case‐control mix, are adjusted for. IDEA‐RS may be more suited to research settings with sufficient data for refitting. Altogether, we find that IDEA‐RS can be generalisable to early adolescents after refitting and that family dysfunction may be especially impactful for this period of development.

Towards a Standardized Operating Procedure for eDNA‐Based Biomonitoring in Coastal Marine Salmon Aquaculture

ABSTRACTThe marine aquaculture industry and regulators are in the process of implementing environmental DNA (eDNA) metabarcoding of microbial communities for compliance monitoring. This requires standardization of sampling, laboratory, and data analysis protocols. Towards this goal, we in this study completed two further milestones using samples collected from two Scottish salmon farms: (i) We tested the effect of using two different PCR protocols (i.e., different DNA polymerases, master mixes, and annealing temperatures), which are frequently being used in eDNA biomonitoring of aquaculture installations, for the amplification of the taxonomic marker gene (V3‐V4 hypervariable region of the bacterial 16S rRNA gene). (ii) We quantified sampling background noise obtained from eDNA samples and statistically compared results with the sampling bias observed in macrofaunal samples from the same source sediments. We detected differences in bacterial community structures resulting from the performance of different PCR protocols, profoundly influencing the interpretation of biomonitoring results. Furthermore, we found that sampling‐induced errors for eDNA samples were similar to errors for macrofaunal samples collected according to compliance monitoring protocol (~25% variability in both cases). Finally, we showed that within‐grab variances of microbial community structures were in the same order of magnitude (less than 10× difference in all cases) as the one obtained from replicate grabs collected from the same locale (impact category). Based on our findings, we suggest using a consistent PCR protocol for biomonitoring efforts to improve the comparability of results, especially when different service providers are conducting the biomonitoring. We propose a sampling scheme to be considered in eDNA biomonitoring that includes taking three replicate grabs at each locale, with one replicate sample from each grab. This minimizes sampling‐induced errors and makes upcoming eDNA‐based monitoring results comparable with previous compliance monitoring results obtained from macrofaunal data.

Optimizing eDNA Replication for Standardized Application in Lotic Systems in Aotearoa, New Zealand

ABSTRACTNational standardization of ecological sampling protocols between different agencies in Aotearoa New Zealand has historically been difficult to attain, creating challenges for combining datasets for national scale analyses. The introduction of new methods for biological monitoring, such as environmental DNA (eDNA), presents an opportunity to standardize aquatic sampling protocols prior to widespread adoption. The objective of this study was to optimize eDNA sample replication for the consistent characterization of freshwater fish and macroinvertebrate communities in flowing waters, and ultimately, to inform the development of robust national monitoring standards. A comparison of field replication and extraction methods (pooling of preservation buffer) was also trialed as part of this high replication (n = 16) eDNA study to assess any potential benefits in measuring species richness and reducing processing costs alongside replication optimisation. This involved two ‘syringe’ sampling methods (‘standard’ and ‘boosted’, eight each) conducted across 54 riverine sites throughout the country. No significant difference was found for species richness between the standardized (eight replicates) or boosted (16 replicates composited to eight) eDNA methods for fish and macroinvertebrates. Results indicated that six replicates were needed to consistently detect 89.5% of fish species likely to be present using field‐based syringe eDNA sampling and preservation. However, an altitudinal species richness effect was observed for fish. For macroinvertebrates, six replicates were required to identify 86% of taxa identified to the NEMS (National Environmental Monitoring Standards) level used for the Macroinvertebrate Community Index (MCI: usually genera) while eight replicates were required to detect 89% of NEMS taxa. For fish and macroinvertebrate biodiversity, this study suggests that six replicates are a reasonable trade‐off between effective community characterization and cost in New Zealand lotic systems.