A genomics learning framework for undergraduates.

Genomics is an increasingly important part of biology research. However, educating undergraduates in genomics is not yet a standard part of life sciences curricula. We believe this is, in part, due to a lack of standard concepts for the teaching of genomics.

Advances in deep learning for personalized ECG diagnostics: A systematic review addressing inter-patient variability and generalization constraints.

The Electrocardiogram (ECG) remains a fundamental tool in cardiac diagnostics, yet its interpretation has traditionally relied on cardiologists' expertise. Deep learning has revolutionized medical data analysis, especially within ECG diagnostics. However, the challenge of inter-patient variability limits the generalizability of ECG-AI models trained on population datasets, often reducing accuracy for specific patients or groups.

Does death drive the scaling of life?

The magnitude of many kinds of biological structures and processes scale with organismal size, often in regular ways that can be described by power functions. Traditionally, many of these "biological scaling" relationships have been explained based on internal geometric, physical, and energetic constraints according to universal natural laws, such as the "surface law" and "3/4-power law". However, during the last three decades it has become increasingly apparent that biological scaling relationships vary greatly in response to various external (environmental) factors.

The yeast gene ECM9 regulates cell wall maintenance and cell division in stress conditions.

, Baker's yeast, is a well-studied model eukaryotic organism. Much of our knowledge about eukaryotic cell function comes from yeast studies, though nearly 10% of yeast genes remain uncharacterized. This study focuses on YKR004C, a verified gene of unknown function named , predicted to be involved in cell division and cell wall maintenance or composition based on previous studies.

A protocol for obtaining upper and lower extremity joints' range of motion in children using three-dimensional motion analysis system.

Three-dimensional (3D) motion analysis (MA) techniques are progressively being used in biomechanics research and for clinical applications to assess the risk of injuries. A marker-based 3D MA protocol has been developed to measure the upper and lower extremity (UE and LE) joints' active and passive ranges of motion (AROM and PROM) in children. The joints that were included in this protocol are shoulder, elbow, wrist, hip, knee and ankle.

Reinforcement expectation in the honeybee (): Can downshifts in reinforcement show conditioned inhibition?

When animals learn the association of a conditioned stimulus (CS) with an unconditioned stimulus (US), later presentation of the CS invokes a representation of the US. When the expected US fails to occur, theoretical accounts predict that conditioned inhibition can accrue to any other stimuli that are associated with this change in the US. Empirical work with mammals has confirmed the existence of conditioned inhibition.

Metabolic scaling of an invasive mussel depends on temperature and chemical cues from an invasive predator.

Metabolism drives various biological processes, potentially influencing the ecological success and evolutionary fitness of species. Understanding diverse metabolic rates is fundamental in biology. Mechanisms underlying adaptation to factors like temperature and predation pressure remain unclear.

infection is associated with differences in transcriptionally active microbial communities.

infection (CDI) is responsible for around 300,000 hospitalizations yearly in the United States, with the associated monetary cost being billions of dollars. Gut microbiome dysbiosis is known to be important to CDI. To the best of our knowledge, metatranscriptomics (MT) has only been used to characterize gut microbiome composition and function in one prior study involving CDI patients.

CURE on yeast genes of unknown function increases students' bioinformatics proficiency and research confidence.

Course-based undergraduate research experiences (CUREs) can reduce barriers to research opportunities while increasing student knowledge and confidence. However, the number of widely adopted, easily transferable CUREs is relatively small. Here, we describe a CURE aimed at determining the function of poorly characterized genes.

Interactive effects of intrinsic and extrinsic factors on metabolic rate.

Metabolism energizes all biological processes, and its tempo may importantly influence the ecological success and evolutionary fitness of organisms. Therefore, understanding the broad variation in metabolic rate that exists across the living world is a fundamental challenge in biology. To further the development of a more reliable and holistic picture of the causes of this variation, we review several examples of how various intrinsic (biological) and extrinsic (environmental) factors (including body size, cell size, activity level, temperature, predation and other diverse genetic, cellular, morphological, physiological, behavioural and ecological influences) can interactively affect metabolic rate in synergistic or antagonistic ways.

Walnut consumption and gut microbial metabolism: Results of an exploratory analysis from a randomized, crossover, controlled-feeding study.

Background & Aims: The effect of walnut-related modulation of gut microbiota composition on microbiota functionality is unknown. The aim was to characterize the effect of a walnut-enriched diet (WD), compared to a fatty acid-matched diet devoid of walnuts (WFMD) and a diet where oleic acid replaces alpha-linolenic acid (ORAD), on bacterial gene expression.

Methods: A 3-period, randomized, crossover, controlled-feeding study was conducted.

Evolution of a self-renewing, participant-centered workshop series in BMB assessment.

We present as a case study the evolution of a series of participant-centered workshops designed to meet a need in the life sciences education community-the incorporation of best practices in the assessment of student learning. Initially, the ICABL (Inclusive Community for the Assessment of Biochemistry and Molecular Biology/BMB Learning) project arose from a grass-roots effort to develop material for a national exam in biochemistry and molecular biology. ICABL has since evolved into a community of practice in which participants themselves-through extensive peer review and reflection-become integral stakeholders in the workshops.

The Relevance of Time in Biological Scaling.

Various phenotypic traits relate to the size of a living system in regular but often disproportionate (allometric) ways. These "biological scaling" relationships have been studied by biologists for over a century, but their causes remain hotly debated. Here, I focus on the patterns and possible causes of the body-mass scaling of the rates/durations of various biological processes and life-history events, i.

The impact of ceramide glucosyltransferase enzymes on the beneficial effects of lifespan.

Ceramide glucosyltransferase (CGT) adds sugar moieties to ceramide, forming glucosylceramides that play roles in immune signaling, stress response, and host-bacterial interactions. Here, we examined whether mutations in block the beneficial effects of on lifespan. We found that loss of or reduces lifespan compared to wildtype worms, but did not prevent the lifespan-extending phenotype of .

The Microbiome of Complicated Diverticulitis: An Imbalance of Sulfur-Metabolizing Bacteria.

Background: The progression to acute diverticulitis from the relatively benign condition of colonic diverticulosis is not well characterized. A smaller subset may even develop complicated (perforated) diverticulitis resulting in sepsis and/or death. Characterizing the differences between recurrent, uncomplicated diverticulitis, and the more virulent, complicated diverticulitis is necessary to guide clinical decision-making.

The lipidomes of with mutations in /acid sphingomyelinase and /ceramide synthase show distinct lipid profiles during aging.

Lipid metabolism affects cell and physiological functions that mediate animal healthspan and lifespan. Lipidomics approaches in model organisms have allowed us to better understand changes in lipid composition related to age and lifespan. Here, using the model , we examine the lipidomes of mutants lacking enzymes critical for sphingolipid metabolism; specifically, we examine acid sphingomyelinase (), which breaks down sphingomyelin to ceramide, and ceramide synthase (), which synthesizes ceramide from sphingosine.

Herbs and Spices Modulate Gut Bacterial Composition in Adults at Risk for CVD: Results of a Prespecified Exploratory Analysis from a Randomized, Crossover, Controlled-Feeding Study.

Background: Herbs and spices are rich in polyphenolic compounds that may influence gut bacterial composition. The effect of culinary doses of herbs and spices consumed as part of a well-defined dietary pattern on gut bacterial composition has not been previously studied.

Objectives: The aim of this prespecified exploratory analysis was to examine gut bacterial composition following an average American diet (carbohydrate: 50% kcal; protein: 17%; total fat: 33%; saturated fat: 11%) containing herbs and spices at 0.

Increasing Confident Thoughts in an Adolescent With Autism: A Pilot Study.

Private events such as thoughts and feelings occur within the individual and are inaccessible to outside observers. Creating interventions for troublesome private events, therefore, is challenging. Precision teaching has a number of studies where participants self-count targeted private events and intervene by engaging in 1-min timings of positive thoughts.

Tin from Uluburun shipwreck shows small-scale commodity exchange fueled continental tin supply across Late Bronze Age Eurasia.

This paper provides the first comprehensive sourcing analysis of the tin ingots carried by the well-known Late Bronze Age shipwreck found off the Turkish coast at Uluburun (ca. 1320 BCE). Using lead isotope, trace element, and tin isotope analyses, this study demonstrates that ores from Central Asia (Uzbekistan and Tajikistan) were used to produce one-third of the Uluburun tin ingots.

Variable metabolic scaling breaks the law: from 'Newtonian' to 'Darwinian' approaches.

Life's size and tempo are intimately linked. The rate of metabolism varies with body mass in remarkably regular ways that can often be described by a simple power function, where the scaling exponent (, slope in a log-linear plot) is typically less than 1. Traditional theory based on physical constraints has assumed that is 2/3 or 3/4, following natural law, but hundreds of studies have documented extensive, systematic variation in .

Disentangling the numbers behind agriculture-driven tropical deforestation.

Tropical deforestation continues at alarming rates with profound impacts on ecosystems, climate, and livelihoods, prompting renewed commitments to halt its continuation. Although it is well established that agriculture is a dominant driver of deforestation, rates and mechanisms remain disputed and often lack a clear evidence base. We synthesize the best available pantropical evidence to provide clarity on how agriculture drives deforestation.