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FASEB BioAdvances

Wiley

Preprints posted in the last 90 days, ranked by how well they match FASEB BioAdvances's content profile, based on 15 papers previously published here. The average preprint has a 0.01% match score for this journal, so anything above that is already an above-average fit.

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It is not just about the science - the impact of undergraduate research projects and COVID-19 on graduate attributes and employability.

Kyriazi, M.; Jung, J. F.; Wilkinson, S.; Brown, A.; Panti, K.; Armstrong, V. L.

2026-02-16 scientific communication and education 10.64898/2026.02.13.705786 medRxiv
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Over the past two decades, Higher Education Institutions have increasingly prioritised transferrable skills to enhance graduate employability. Graduate Attributes (GAs) now act as key indicators of student competencies for both learners and employers. Final-year research projects, typically high in credit value, represent capstone experiences that promote subject expertise and GA development through research, written work, and oral presentations. This study analyses pre- and post-project survey data from RQF Level 6 biomedical and biomolecular science students at a Russell Group University over four years (2019-2023). Most projects were laboratory-based, though the 2020-2021 cohort completed theirs remotely due to COVID-19. Students reflected on expectations and experiences of GA development, subject knowledge, and employability. Initial responses revealed anxiety and uncertainty, particularly among the 2020-2021 cohort, but most anticipated gains in skills and employability. Post-project feedback confirmed this, identifying critical thinking, confidence, resilience, collaboration, and future focus as key outcomes. Digital capability was notably strengthened, especially during remote delivery. The findings emphasise the importance of a shared understanding of GAs in bioscience education and the value of embedding structured reflection and preparatory support to help students recognise and articulate their evolving skills.

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Enhancing Medical Science Engagement Among Medical Undergraduates Through International Research Exchange

Jurgenson, M.; Garcia Llorca, A.; Sarv, A.; Eysteinsson, T.; Hickey, M. A.

2026-03-02 scientific communication and education 10.1101/2025.02.26.640317 medRxiv
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BackgroundThe global decline in the number of physician-scientists, despite an increase in practicing physicians, underscores a critical need for integrating research training into medical education. Addressing this issue, we established an international research exchange program aimed to enhance scientific literacy, foster transferable skills, and align curricula with European standards through collaborative research experiences. MethodologyThe program enabled reciprocal student mobility, involving eleven medical undergraduates who conducted month-long basic science research projects. Participants also completed comprehensive pre-training in scientific communication, safety protocols, and ethics, and were required to participate in local public engagement events. Feedback from participants, which we present here, was collected via three anonymous, voluntary questionnaires: pre-program, post-program and post-1-year follow-up, which we provide here to support similar initiatives. ResultsDespite challenges and delays due to the COVID-19 pandemic, the program met its objectives, demonstrating adaptability and effective resource management. Feedback revealed significant improvements in participants confidence in research methodologies, critical appraisal of scientific literature, and motivation for future research involvement. ConclusionThis project highlights the potential of structured international exchange programs, particularly among smaller institutions, to address gaps in medical education, enhance scientific training and opportunities in translational research for undergraduates, and cultivate the next generation of physician-scientists.

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Trends in the representation of research on model organisms in scientific literature

Fallon, C.; Li, X.; Alvarez Canales, G.; Museridze, M.; Gompel, N.

2026-03-09 scientific communication and education 10.64898/2026.03.03.709331 medRxiv
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Research using model organisms to tackle questions in life sciences and biomedical sciences has been in the spotlight of scientific literature for the better part of the twentieth century. This attention has perceptibly faded over the last twenty years, at least. We set to document this process by examining the publication trends of 48 journals encompassing a broad range of topics and impact factors for eight classic model organisms. We found that the representation of model-organism research has been in continuous decline in the last three decades, with a significant acceleration since 2010. We investigated the origin of the change, from the size of research communities to the shifts in topics and in use of model organisms. While model organism communities appear stable, model organism papers are outpaced by the rest of scientific literature. Also, among papers using model organisms, we note a progressive shift toward applied research, with differences between different model organism species. The mouse, in particular, logically remains the preferred system to study diseases, while non-mouse model organisms continue to be used predominantly to dissect mechanisms of life. We reflect on the consequences of the fading representation that we measured for the future of life sciences. Fundamentally, model organisms afford a direct access to causality in life sciences and their fading from the picture may impact life sciences as a whole. More pragmatically, it will also affect funding, and thereby jeopardizes the maintenance of model organism resources such as repositories built over decades.

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Multistage Machine Learning Reveals Circadian Gene Programs and Supports a Retina-Choroid Axis in Myopia Development

Watcharapalakorn, A.; Poyomtip, T.; Tawonkasiwattanakun, P.; Dewi, P. K. K.; Thomrongsuwannakij, T.; Mahawan, T.

2026-04-06 bioinformatics 10.64898/2026.04.02.716020 medRxiv
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PurposeTo determine whether circadian timing defines critical molecular windows in myopia development and to assess the transferability of circadian gene programs across ocular tissues, disease stages, and species. MethodsPublicly available retinal and choroidal RNA-seq datasets from chick models of form-deprivation myopia were analyzed using unsupervised transcriptomic profiling and multistage machine-learning classification. Circadian windows were defined based on Zeitgeber time, and samples were grouped accordingly for downstream analyses. Classification model robustness was evaluated through cross-tissue and cross-stage validation and further assessed using external validation in an independent dataset. Functional translation to humans was examined using ortholog-based Gene Ontology enrichment analysis to identify conserved biological processes and higher-order regulatory pathways. ResultsA circadian critical window at ZT8-ZT12 exhibited the strongest transcriptional divergence during both myopia onset and progression. Gene signatures derived from this window generalized across retina and choroid and remained predictive across disease stages, supporting coordinated molecular regulation between ocular tissues. External validation confirmed the reproducibility of these signatures despite differences in experimental design and gene coverage. Functional mapping revealed that conserved molecular components in chicks are reorganized into more complex neuroendocrine and regulatory networks in humans, indicating cross-species conservation with increased functional complexity. ConclusionsCircadian timing strongly shapes myopia-related gene expression and underlies coordinated retina-choroid signaling. These findings highlight circadian biology as a key factor of refractive development and suggest that time-dependent mechanisms may influence myopia susceptibility, progression, and response to treatment.

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Development and field test of an intervention to reduce conflict in faculty-doctoral student mentoring relationships

Tuma, T. T.; Rosenzweig, E. Q.; Lavner, J. A.; Zhang, Y.; Dolan, E. L.

2026-01-29 scientific communication and education 10.64898/2026.01.29.702507 medRxiv
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Mentoring is a critical component of graduate education. However, conflicts can occur between faculty mentors and their graduate students, which can undermine the quality of these relationships. We leveraged attribution theory and relationship science to develop a novel professional development intervention that combines attribution retraining to enhance faculty beliefs that they can improve their mentoring relationships, and conflict management training to build faculty skills in having productive problem-solving conversations with their graduate students. We piloted and refined the intervention, then conducted a field test of the intervention with life science faculty (n = 71) from U.S. universities. Participants were randomly assigned to an asynchronous self-guided condition or to a self-guided + synchronous facilitated peer discussion condition. We measured faculty beliefs, perceived skills, and self-reported behaviors when encountering conflicts before and after participating in the intervention. Faculty in both conditions reported significant reductions in the frequency of conflicts with their students, the time and energy they spent addressing conflicts, and the extent to which conflicts disrupted their research productivity. Faculty also expressed increased confidence that they could manage conflicts. Our results suggest that the intervention has the potential to improve faculty capacity to effectively navigate conflicts with their graduate students. Highlight summaryA mentoring intervention for faculty combining attribution-retraining and conflict management skill-building strengthened faculty self-efficacy and motivational beliefs and reduced mentoring conflicts.

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Traditional Physical Practice Participation and Vision-Related Quality of Life in Adolescents: The Serial Mediating Roles of Exercise Self-Efficacy and Visual Function Anomalies

Zhang, X.; Liu, Z.; Long, J.

2026-04-07 scientific communication and education 10.64898/2026.04.04.716449 medRxiv
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PurposeThis study examined the association between traditional physical practice participation and vision-related quality of life among junior secondary school students and tested the mediating roles of exercise self-efficacy and visual function anomalies within a serial mediation framework. MethodsA four-wave time-lagged survey was conducted among 1,579 students in Grades 7-9 from schools implementing traditional physical practice activities. Variables were assessed at two-week intervals. Mediation effects were tested using the bias-corrected percentile bootstrap method with 5,000 resamples. ResultsThe total effect of traditional physical practice participation on vision-related quality of life was significant ({beta} = 0.591, p < .001). After including the mediators, the direct effect remained significant ({beta} = 0.404, 95% CI [0.348, 0.457]), accounting for 68.36% of the total effect. The total indirect effect was significant ({beta} = 0.187, 95% CI [0.160, 0.218]), representing 31.64% of the total effect. The indirect effect via exercise self-efficacy was significant ({beta} = 0.088, 95% CI [0.068, 0.112], 14.89%), as was the indirect effect via visual function anomalies ({beta} = 0.065, 95% CI [0.048, 0.086], 11.00%). The serial mediation pathway through exercise self-efficacy and visual function anomalies was also significant ({beta} = 0.034, 95% CI [0.025, 0.045], 5.75%). All confidence intervals excluded zero, supporting partial mediation. ConclusionTraditional physical practice participation was associated with vision-related quality of life both directly and indirectly through exercise self-efficacy and visual function anomalies, including a significant serial mediation pathway. The findings highlight the combined psychological and functional mechanisms underlying adolescents vision-related quality of life.

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Addressing antibody validation failures: a multi-stakeholder Delphi consensus study on actionable solutions

Blades, K.; Biddle, M.; Froud, R.; Krockow, E. M.; Virk, H.

2026-03-06 scientific communication and education 10.64898/2026.03.04.709541 medRxiv
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The experimental use of antibodies that have not been validated for context-specific use frequently misdirects biomedical research. Experimental results that derive from the use of inadequately validated antibodies are estimated to waste over $1 billion annually in the United States alone and to consume millions of animal and human biological samples in experiments whose conclusions may be unreliable. Community validation frameworks, reporting standards, and independent characterisation initiatives have made important progress, and multi-stakeholder coordination efforts are emerging. However, the research community lacks a formally developed, consensus-based action plan that specifies what each stakeholder group should do, by when, and with what priority. We conducted a modified Delphi study with international experts representing academic researchers, scientific publishers, research funders, antibody manufacturers, and institutional research leaders to develop actionable recommendations for improving antibody validation, selection, and reporting practices. Thirty-two participants rated 33 proposed actions on effectiveness and feasibility using 9-point scales, with consensus assessed using the RAND/UCLA Appropriateness Method. Over two rounds, the panel achieved consensus on 15 items as both effective and feasible for implementation by 2030. These spanned institutional actions (training in antibody validation, integration into research integrity frameworks, support for local expertise networks), funder actions (dedicated validation budgets, grant application requirements, endorsement of community reporting standards), publisher actions (complete antibody reporting packages, clear validation standards), manufacturer actions (assignment of unique identifiers at source), and cross-stakeholder coordination (a shared roadmap for improvement). An additional 15 items were rated as effective but with uncertain feasibility, reflecting a consistent pattern in which the panel agreed on the value of proposed interventions but expressed reservations about realistic implementation timelines. One item was rejected by the panel with concerns around effectiveness and feasibility. Participants described four interconnected barriers to progress: diffuse ownership of the problem across stakeholders; market dynamics that inadequately reward antibody quality; difficulty justifying investment when returns are distributed across the research system; and coordination challenges among actors with different incentive structures. These barriers are addressable through coordinated action, and the findings complement existing technical and data-sharing initiatives by providing the structured, stakeholder-endorsed policy framework needed to translate awareness of the problem into concrete practice and policy changes.

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Exercise-conditioned tear fluid suppresses myopia progression

Yao, H.; Liang, M.; Fei, Q.; Cao, J.; Liang, T.; Zhou, X.; Zhang, S.; Cui, Q.

2026-02-09 bioinformatics 10.64898/2026.02.05.704049 medRxiv
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Myopia represents a major global public health challenge with rapidly rising prevalence. It is thus important to explore novel therapeutics for the treatment of myopia. Here we predicted tear fluid after (TA) but not before (TB) moderate-intensity aerobic exercise might protect against myopia using reverse transcriptomic analysis. To experimentally validate this hypothesis, TA or TB was administered by periocular injection in a guinea pig model of form-deprivation myopia. As a result, TA treatment significantly attenuated myopic refractive shifts and suppressed vitreous chamber depth and axial length elongation, whereas TB showed no protective effects. This study proposes a novel therapeutic avenue for myopia intervention and also suggests a previously unrecognized tear fluid-mediated mechanism linking exercise to myopia.

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Cloud-Connected Pluripotent Stem Cell Platform Enhances Scientific Identity in Underrepresented Students

Vera-Choqqueccota, S.; Ehrlich, D.; Luna-Gomez, V.; Hernandez, S.; Gonzalez-Ferrer, J.; Schweiger, H. E.; Voitiuk, K.; Rosen, Y.; Doganyigit, K.; Cline, I.; Ward, R.; Yeh, E.; Miga, K. H.; Des Rochers, B.; Kurniawan, S.; Haussler, D.; Lopez Vargas, K.; Teodorescu, M.; Mostajo-Radji, M. A.

2026-01-21 scientific communication and education 10.64898/2026.01.19.699793 medRxiv
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Stem cell research offers unique opportunities for authentic scientific engagement, yet infrastructure requirements have confined participation to elite institutions, perpetuating workforce disparities. We developed an integrated framework combining engineered biology, cloud-connected microscopy, and validated psychometric assessment to make pluripotent stem cell (PSC) experimentation widely accessible. The framework comprises three components: a doxycycline-inducible NGN2 mouse embryonic stem cell line for rapid neuronal specification, low-cost cloud microscopy for remote observation, and the validated Stem Cell Research Identity Scale (SCRIS) for quantifying educational outcomes. Implementation across a Title I high school and urban community college demonstrated significant increases in scientific identity. Students using differentiating PSCs showed broader science identity development than those using neuroblastoma cells, particularly in competence, research readiness, and recognition. High school students showed enhanced research competence gains compared to community college students despite equivalent intervention duration. Demographic analyses revealed enhanced effectiveness for Hispanic and first-generation college students. This framework provides a scalable model for broadening participation in advanced biomedical research.

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A strong start for sustained success: inclusivity through a national group mentorship program for first-year graduate students

Labra, S. R.; Tornini, V. A.; Rodriguez Salazar, M. P.; Cossio, D. M.; Gelpi, R. A.; Rubio Perez, B. E.; Rodriguez, Y. M.; Leana-Sandoval, G.; Hernandez, K.; Goldman, O. V.; Fernandez, R. W.

2026-03-15 scientific communication and education 10.64898/2026.03.12.710679 medRxiv
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In the United States, STEM graduate programs and workforce do not represent the demographics of the population. Obstacles, including a lack of transparency, community, and accessible information in navigating academia, disproportionately affect students from underserved backgrounds. Peer mentoring networks can address these disparities. Here, we describe Cientifico Latino, Inc.s Graduate Student Engagement and Community (CL-GSEC) program, a nationwide, group-based peer mentorship program that has served first-year graduate students across the U.S., especially those from underserved backgrounds. Surveys indicate CL-GSEC positively impacts the first-year graduate experience. We highlight key program features, challenges, and insights, such as financial strains faced by first-year graduate students. We offer suggestions for how faculty and departments can better support students during this critical early stage of graduate training. We hope that reporting on CL-GSECs program structure, evaluations, and findings will guide educational leaders in expanding programming for junior graduate students.

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Uncovering Conceptual Biases in DNA Stabilization: A Student-Led Investigation

Polo, C.; Thandi, A.; Chandler, O.; Lugert, P.; Hammond, A.; Madhi, T.; Ayala, M.; Berrigan, A. J.; Chen, A.; Gillett, K.; Sareen, M.; Yu, S.; Xiong, S.; Zuo, Y.-y.; Sanjeev, S.

2026-01-19 scientific communication and education 10.64898/2026.01.15.699716 medRxiv
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Deoxyribonucleic acid (DNA) stands as one of the most foundational concepts in life sciences, essential for students to master. However, when surveyed about the forces that stabilize the double-stranded DNA structure, many students exhibited a conceptual bias-- favoring base pairing as the primary stabilizing force, while overlooking the equally critical role of base stacking interactions. To investigate the origins of this misconception, students conducted a comprehensive analysis of 35 widely used textbooks. Their findings revealed that one-third of these texts explicitly emphasized base pairing as the sole stabilizing force in their written content. Furthermore, two-thirds of the textbook contained illustrations that reinforced this bias, visually highlighting base pairing while neglecting base stacking. Recognizing this bias, students embarked on a literature review to gain a more accurate and nuanced understanding of DNA stabilization. Through this research, we identified three concept areas--DNA structure and function, environmental effects on DNA, and DNA-protein interactions--to illustrate how base pairing and base stacking work in concert to stabilize the antiparallel double helical structure of DNA. This interplay between base pairing and base stacking is crucial not only for the structural integrity of DNA, but also for its biological functionality. By addressing this conceptual bias, we aim to promote a more balanced and scientifically accurate representation of DNA stabilization in educational materials.

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Patterns of genAI bias in guiding prospective undergraduate students: a study of UK neuroscience programmes

Potter, H. G.

2026-03-24 scientific communication and education 10.64898/2026.03.20.713226 medRxiv
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Generative artificial intelligence (genAI) tools are increasingly used by prospective higher education (HE) applicants seeking guidance on university and programme selection. Despite rapidly expanding use, little is known about how genAI systems may introduce or amplify bias in undergraduate admissions decision-making. Here, we systematically examined patterns of bias across three widely used genAI chatbots (ChatGPT, Copilot, Gemini) using neuroscience as a representative UK undergraduate programme. We constructed 216 prompts that varied by applicant characteristics (e.g. gender, study type, academic attainment). Each prompt was submitted to all three chatbots, generating 648 responses and 3240 individual programme recommendations. Output responses underwent text analysis (e.g. n-grams, gender-coded language), and national HE markers of esteem (REF21, TEF23, NSS24) were analysed. Applicant grades and priorities produced the strongest effects on genAI outputs. Higher-grade applicants and those prioritising research received significantly more masculine-coded language, independent of applicant gender. N-gram patterns also diverged: high-grade prompts more frequently elicited terms relating to excellence and research intensity, whereas lower-grade prompts produced greater emphasis on widening access. Recommendations were systematically skewed, with higher grades, private schooling, and research-focused priorities increasing the likelihood of recommending elite institutions and programmes with higher entry requirements. Critically, the gender-coded language of outputs predicted institutional characteristics: masculine-coded responses were associated with recommendations featuring higher entry thresholds and stronger research performance, while feminine-coded responses favoured institutions with higher student satisfaction. These findings reveal clear, systematic biases in how genAI guides prospective HE applicants. Such biases risk reinforcing existing educational and socioeconomic inequalities, underscoring the need for transparency, regulation, and oversight in the use of genAI within HE decision-making. HighlightsO_LIGenAI is widely used by HE applicants despite little study of its biases. C_LIO_LI216 prompts across 3 chatbots generated 3240 programme suggestions. C_LIO_LIGrades and priorities drove major shifts in language and recommendations. C_LIO_LIGender-coded wording mapped onto research strength and entry standards. C_LIO_LIGenAI biases may reinforce inequalities in HE admissions decision-making. C_LI

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Neuroprotective Effect of Intraperitoneal Humanin-G in Retinal Degeneration of Royal College of Surgeons Rats

Lin, B.; Schneider, K.; Ozgul, M.; Ianopol, V. N.; Seiler, M. J.

2026-03-24 neuroscience 10.64898/2026.03.20.713049 medRxiv
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This study aimed to examine whether Humanin-G (HNG), a mitochondrial derived peptide with cytoprotective properties, could improve the retinal function and gene expression profiles after intraperitoneal injections to Royal College of Surgeons (RCS) rats with Retinal Pigment Epithelium (RPE) dysfunction and retinal degeneration. Starting at postnatal day 21 (p21), RCS rats received twice a week intraperitoneal injections of either Low Dose HNG (0.4 mg/kg), High Dose HNG (4mg/kg), or sham-saline for 1 or 4 weeks. Visual function was tested with full field scotopic & photopic electroretinography (ERG) and optokinetic testing (OKT) 1 and 4 weeks after first injection (WAFI). The rats were euthanized after the ERG and OKT (1 or 4 WAFI) and the dissected retinas and RPE were collected for RNA, cDNA and Quantitative Real-time PCR (qRT-PCR) analysis. The results of our study showed that high dose (4mg/kg) HNG at 4 WAFI was associated with the largest change in gene expression in the RPE and retina of treated animals, altering expression of genes involved in apoptosis, oxidative stress, inflammation and retinal/RPE function. Analysis of a and b waves from scotopic and photopic ERG showed no difference between either low or high dose of HNG and sham injection at 4 WAFI. However, at 4 WAFI, the visual acuity in rats treated with high dose HNG showed significant improvement as compared to the rats treated with low dose of HNG or saline. Most significantly, our findings support that HNG administered IP can modulate RPE/neuroretina cells and improve vision, thus may be a potential treatment for retinal degeneration diseases.

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UBA1 Mitigates Myocardial Ischemia/Reperfusion Injury by Attenuating Endoplasmic Reticulum-Mitochondria Contacts via Pdzd8 ubiquitination

Xu, L.-L.; Li, P.-B.; Jiang, W.; Du, J.; Li, H.-H.

2026-01-23 pathology 10.64898/2026.01.21.700963 medRxiv
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BACKGROUNDMyocardial ischemia/reperfusion injury (I/RI) represents a serious clinical complication in patients after acute myocardial infarction. Ubiquitin-activating enzyme 1 (UBA1) catalyzes the initial step of ubiquitination and plays a fundamental role in regulating protein homeostasis and related diseases. This study aims to elucidate the functional contribution of UBA1 to the pathogenesis of myocardial I/RI and to uncover its underlying mechanisms. METHODSSingle-cell RNA sequencing was employed to characterize UBA1 expression in human ischemic heart tissues. Myocardial I/R injury was examined in myocardial-specific UBA1 knockout (UBA1cko) mice, UBA1-overexpressing mice (rAAV9-UBA1), and corresponding controls. Neonatal rat cardiomyocytes underwent hypoxia/reoxygenation in vitro. Cardiac function and infarction were evaluated by echocardiography and pathological staining. Protein-protein interactions were analyzed via immunoprecipitation combined with mass spectrometry. The endoplasmic reticulum-mitochondrial contact sites (ERMCSs) and mitochondrial ultrastructure were evaluated through transmission electron microscopy and confocal imaging. RESULTSUBA1 expression was significantly downregulated in human and murine ischemic myocardium, especially in cardiomyocytes. UBA1cko mice exhibited aggravated I/RI with greater infarct size, impaired function, apoptosis, elevated intracellular Ca2+ levels, mitochondrial dysfunction, and ER stress, whereas UBA1 overexpression conferred cardioprotective effects. Mechanistically, UBA1 directly bound to and ubiquitinated Pdzd8, a key ERMCS-tethering protein, thereby promoting its degradation, which inhibited ERMCS formation and improved mitochondrial dysfunction and ER stress. Moreover, knockdown of Pdzd8 via rAAV9-siRNA effectively mitigated UBA1 knockout-induced myocardial damage. Additionally, administration of auranofin (AF), a U.S. Food and Drug Administration-approved drug for treating rheumatoid arthritis, markedly alleviated myocardial I/RI via activating UBA1 in vivo and in vitro. CONCLUSIONSUBA1 confers protection against myocardial I/RI by limiting ERMCS formation through Pdzd8 ubiquitination. Activating UBA1 or targeting Pdzd8 as a potential therapeutic strategy for the treatment of ischemic heart disease. GRAPHIC ABSTRACTA graphic abstract is available for this article. Clinical PerspectiveO_ST_ABSWhat Is New?C_ST_ABSO_LIUBA1 expression is downregulated in human and murine ischemic myocardium, especially in cardiomyocytes. C_LIO_LICardiac deletion of UBA1 significantly exacerbates myocardial ischemia/reperfusion injury (I/RI), whereas cardiac UBA1 overexpression confers a marked protective effect. C_LIO_LIUBA1 interacts with Pdzd8 (PDZ domain containing 8) and facilitates its ubiquitination and subsequent degradation, which then reduces endoplasmic reticulum-mitochondria contact sites (ERMCSs) and ameliorates mitochondrial dysfunction and ER stress, protecting myocardial I/RI. C_LIO_LIPharmacological activation of UBA1 with the FDA-approved drug auranofin attenuates myocardial I/R injury and improves heart dysfunction. C_LI What Are the Clinical Implications?O_LIUBA1 represents a new therapeutic target for myocardial I/RI. C_LIO_LIActivating UBA1 or targeting Pdzd8 may offer a promising therapeutic strategy for mitigating myocardial I/RI and heart failure, underscoring its potential for clinical translation. C_LI

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Generation of a new immunodeficient rat model of retinal degeneration with LSL TdTomato reporter and TdTomato-Pcp2 expression

Seiler, M. J.; Nguyen, H.; Endejan, D.; Lin, B.; Zhao, J.; Klaskala, L.

2026-03-06 neuroscience 10.64898/2026.03.04.709611 medRxiv
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PurposeTo develop an immunodeficient retinal degenerate (RD) rat model with fluorescent label for studying retinal degeneration and transplant-host connectivity. MethodsGene constructs for CAG-LSL-TdTomato and Pcp2-Cre were developed and injected into rat embryos at Envigo. The LSL TdTomato reporter strain, created on immunodeficient RhoS334ter-3 rats (RRRC#539), was bred to homozygosity at UCI (strain SD-Foxn1rnuTg((Rho-S334X)3,CAG-TdTomato)1010Mjsuc, "RNT"). The second gene construct Pcp2-Cre was injected into Long-Evans (LE) rat embryos, resulting in two Pcp2-cre founders (strain PCP2 Cre-1105 RKI, "Pcp2"), with targeted and targeted/random insertion. Founders were mated with an LE male and a foxn1+/- NIH nude female. F1 offspring was bred to homozygosity and immunodeficiency. Homozygous rats of both strains were crossbred to generate TdTomato-Pcp2 RD ("RTP") rats. Retinas were processed for immunohistochemistry for various retinal markers. GFP-expressing rat retinas were transplanted to 6 week old "RTP" rats and analyzed 37 and 77 days post-surgery (pilot experiments). ResultsTdTomato-Pcp2 RD rats exhibit RD similar to the original Rho S334ter-3 rat strain, with < 1 row photoreceptors remaining at 1 month. Retinas with targeted Pcp2 insertion showed TdTomato in retinal interneurons and cones. Retinas with random Pcp2 insertion exhibited additional TdTomato in RPE, glial, and endothelial cells. Pcp2-TdTomato expression was useful to define transplant-host boundaries. ConclusionsWe created an unique RD rat model for studying retinal transplant connectivity. The RD LSL-TdTomato reporter rat can also be used to generate RD rats with other cell-specific labels using the cre/lox system. Translational relevanceThis newly created rat model is useful for cell therapy studies.

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Metabolic Analysis of Human Retinal Pigment Epithelium and Choroid Tissue in Aging and Macular Degeneration

Navratil, E. M.; Liu, X.; Wiley, L. A.; Anderson, M. G.; Meyer, K. J.; Brown, R. F.; Evans, I. A.; Taylor, E. B.; Stone, E. M.; Tucker, B. A.; Mullins, R. F.

2026-03-26 cell biology 10.64898/2026.03.24.713982 medRxiv
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Age-related macular degeneration is a common ocular disease that causes vision loss in the elderly, with a complex set of risk factors and proposed mechanisms of pathogenesis. A powerful method for investigating changes in disease is metabolomics, by which small molecules can be identified and quantified simultaneously. We report here the metabolic analysis of human RPE-choroid tissue in aging and macular degeneration (AMD), as well as comparisons of human macular and extramacular RPE-choroid and neural retina. Levels of 215 metabolites were determined in young donors, AMD donors (early/intermediate, geographic atrophy, and neovascularization) and age-matched controls. The largest number of metabolite differences were observed between young and healthy aged controls, as opposed to between aged controls and any stage of AMD. Two notable metabolites found to be increased in aging choroids are trimethylamine N-oxide and uric acid, both of which were significant after Bonferroni correction. A mouse endothelial cell line treated with a high concentration of uric acid exhibited reduced migration in a wound closure assay. This study provides initial insights into the metabolome of human choroids in varying states of age and macular degeneration, as well as functional implications of these changes in the aging choroid.

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A Multi-Mineral Intervention Improves Intestinal Permeability in Patients with Ulcerative Colitis: Results from a 90-Day Pilot Trial

Aslam, M. N.; Turgeon, D.; McClintock, S.; Allen, R.; Sen, A.; Varani, J.

2026-01-30 gastroenterology 10.64898/2026.01.28.26345064 medRxiv
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IntroductionPrevious studies have shown that Aquamin(R), a multi-mineral extract from red marine algae, enhances barrier integrity proteins in the human colon. These findings prompted further investigation into Aquamin(R)s effects on gastrointestinal barrier function and permeability. MethodsSubjects with mild or in remission ulcerative colitis (UC) and healthy controls were enrolled in an open-label trial and received Aquamin(R) capsules (800 mg calcium/day) for 90 days. Intestinal permeability was evaluated before and after the 90-day intervention by urinary mannitol excretion after ingestion of a 5 g mannitol solution, with collections across several time intervals (pre-drink, 0-2 h, 2-8 h, and 8-24 h). The primary outcome was the change in mannitol excretion. Serum samples were also collected to assess liver and renal function. ResultsIn this pilot study (NCT04855799), which included UC patients and healthy controls (n = 8 per group), baseline urine mannitol levels in the 0-2 h sample were 54% higher in UC patients compared to healthy subjects (p = 0.006). Following 90 days of Aquamin(R) supplementation, urinary mannitol levels in UC patients decreased by 28%, 26%, and 41% at the 0-2 h, 2-8 h, and 8-24 h timepoints, respectively; the reduction at the 0-2 h interval reached statistical significance (p = 0.015). Overall, Aquamin(R) supplementation reduced total post-intervention mannitol excretion by 29% (p = 0.024). Aquamin(R) was well tolerated, with no serious adverse events reported. The serum metabolic panel revealed a modest but statistically significant reduction in alkaline phosphatase levels after 90 days of intervention. ConclusionThese results provide preliminary evidence that Aquamin(R) supplementation beneficially modulates gut barrier function and supports epithelial integrity in UC patients. These findings support further investigation of Aquamin(R) as a safe and promising adjunct to current UC management strategies, with potential utility as a barrier therapy in UC. SummaryAquamin(R) supplementation for 90 days reduced intestinal permeability in ulcerative colitis patients, as measured by urinary mannitol excretion. The intervention was well tolerated, suggesting Aquamin(R) may be a safe, promising adjunct for enhancing gut barrier function in UC management.

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Molecular Transducers of Physical Activity Consortium (MoTrPAC): Initial Insights into the Dynamic Human Responses to Exercise

MoTrPAC Study Group, ; Brandt, A. R.; Fleg, J.; Goodpaster, B. H.; Jaeger, B.; Jin, C. A.; Johannsen, N. M.; Katz, D.; Keshishian, H.; Kohrt, W. M.; Kraus, W. E.; Lester, B.; Melanson, E. L.; Miller, M. E.; Montalvo, S.; Rejeski, W. J.; Shimly, S. M.; Smith, G. R.; Stowe, C. L.; Trappe, S.; AbouAssi, H.; Adams, N.; Amar, D.; Ashley, E.; Aslamy, A.; Bamman, M. M.; Belangee, A.; Bennett, W.; Bergman, B. C.; Bessesen, D. H.; Bodine, S. C.; Boyd, G.; Buford, T. W.; Burant, C. F.; Carnero, E. A.; Carr, S.; Chambers, T. L.; Chavez, C.; Chen, H.; Chen, S.-H.; Christle, J. W.; Claiborne, A.; Clark, N

2026-03-05 systems biology 10.64898/2026.03.02.705347 medRxiv
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The goal of the Molecular Transducers of Physical Activity Consortium (MoTrPAC) is to examine the physiological and molecular basis for health benefits in response to acute and chronic exercise. Prior to COVID-19 suspension, healthy, sedentary participants (N=206, 18-74y) were randomized to endurance exercise (N=80), resistance exercise (N=81), or non-exercise control (N=45) interventions. The prescribed vigorous acute endurance and resistance exercise bouts induced physiological and metabolic perturbations relative to resting homeostasis. The supervised chronic (3d/wk, 12wk) endurance or resistance training programs robustly improved several physiological parameters (i.e., VO2peak, muscular strength). Temporal biospecimen (blood, muscle, and adipose) collections and processing coupled to the acute exercise bouts were highly successful. In most cases, over 90% success was achieved for blood, muscle, and adipose samples. Endurance and resistance exercise induced distinct acute and chronic physiological responses, which provide a framework to interrogate the molecular basis for health adaptations to these two popular exercise modalities. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=200 SRC="FIGDIR/small/705347v1_ufig1.gif" ALT="Figure 1"> View larger version (65K): org.highwire.dtl.DTLVardef@c51f79org.highwire.dtl.DTLVardef@1954154org.highwire.dtl.DTLVardef@1f3f8c3org.highwire.dtl.DTLVardef@50ec08_HPS_FORMAT_FIGEXP M_FIG C_FIG

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Machine Learning Ensemble Reveals Distinct Molecular Pathways of Retinal Damage in Spaceflown Mice

Casaletto, J. A.; Scott, R. T.; Rathod, A.; Jain, A.; Chandar, A.; Adapala, A.; Prajapati, A.; Nautiyal, A.; Jayaraman, A.; Boddu, A.; Kelam, A.; Jain, A.; Pham, B.; Shastry, D.; Narayanan, D.; Kosaraju, E.; Paley, E.; Uribe, F. P.; Shahid, I.; Ye, I.; Wu, J.; Lin, J.; Srinivas, K.; Della Monica, M. P.; Hitt, M.; Lin, M.; Volkan, M.; Kharya, M.; Kaul, M.; Jaffer, M. A.; Ali, M.; Chang, N. Z.; Ashri, N.; Couderc, N. B.; Paladugu, P.; Hiremath, R.; Pathak, R.; Dogra, S.; Srinivas, S.; Samaddar, S.; Gopinath, S.; Sawant, S.; Cai, S.; Pala, V.; Nair, V.; Shi, Z.; Narayanan, S.; Mundackal Thomas, D

2026-01-29 bioinformatics 10.64898/2026.01.22.701181 medRxiv
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BackgroundSpaceflight-associated neuro-ocular syndrome (SANS) poses significant risks to astronaut visual health during long-duration missions, yet its underlying molecular mechanisms remain incompletely understood. Oxidative stress and apoptosis are candidate molecular drivers, but their transcriptomic signatures in spaceflight-exposed retinal tissue have not been systematically characterized. MethodsWe applied a machine learning ensemble of linear regression models to predict two ocular phenotypes: 4-hydroxynonenal (4-HNE) immunostaining as a marker of lipid peroxidation-mediated oxidative damage; and TUNEL positivity as a marker of apoptotic cell death. In this observational study, we use bulk retinal gene expression data obtained from a controlled experiment with ground control and spaceflown mice to predict these phenotypes. Gene Ontology pathway enrichment was performed on the most predictive gene sets for each phenotype. ResultsThe 4-HNE phenotype was predicted by genes that converge on membrane-associated pathways, photoreceptor protein modification, synaptic dysfunction, and extracellular matrix dysregulation, including B2m, Tf, Cnga1, mt-Nd1, Snap25, and Efemp1. The genes predicting the TUNEL phenotype revealed a distinct signature emphasizing stress-induced apoptosis, rod photoreceptor degeneration, and endoplasmic reticulum dysfunction, with Ddit4, Nrl, Rom1, Reep6, and Gabarapl1 emerging as central regulators. ConclusionsOxidative lipid peroxidation and apoptotic cell death represent complementary and molecularly distinct pathological mechanisms in spaceflight-exposed murine retinal tissue. The gene signatures provide a putative molecular framework for developing noninvasive biomarkers and therapeutic targets to monitor and protect astronaut visual health during long-duration and deep-space missions.

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Effects of the Coenzyme Q10 Analog 6-Bromo-ubiquinone (6-Br-Q0C10) on Mammalian Cell Growth

Yu, B.; Yu, C.; Lu, P.; Lin, D.; Tan, X.; Cheng, Y.; Xiao, K.; Yu, C.-A.

2026-03-03 biochemistry 10.64898/2026.02.28.708723 medRxiv
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Synthetic 6-Br-Q0C10 has been shown to exhibit a partial electron transfer activity of native coenzyme Q in the isolated mitochondria. It reduces energy coupling efficiency by approximately 30%, suggesting that it may be useful in modulating cell growth in tissue culture. Whether or not it behaves in the same way in the whole cells, or animal, however, has not yet been fully examined. Recently we have investigated the effect of 6-Br-Q0C10 across multiple cell lines using three detection methods. Treatment with 6-Br-Q0C10 reduces cell proliferation in all cell lines tested, with different effectiveness. Obesity-related cell lines were the most susceptible, and a pronounced inhibitory effect was also observed in cancer cell lines. These results strengthen the idea of using 6-Br-Q0C10 to manage obesity or to retard the growth of rate cancer cells and thus prolonging life.