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Quantitative Measurement of Molecular Permeability to a Synthetic Bacterial Microcompartment Shell System.
ACS Synth Biol
January 2025
Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, California 94702, United States.
Naturally evolved and synthetically designed forms of compartmentalization benefit encapsulated function by increasing local concentrations of substrates and protecting cargo from destabilizing environments and inhibitors. Crucial to understanding the fundamental principles of compartmentalization are experimental systems enabling the measurement of the permeability rates of small molecules. Here, we report the experimental measurement of the small-molecule permeability of a 40 nm icosahedral bacterial microcompartment shell.
View Article and Find Full Text PDFNaturally occurring variation in a cytochrome P450 modifies thiabendazole responses independently of beta-tubulin.
PLoS Pathog
January 2025
Department of Biology, Johns Hopkins University, Baltimore, Maryland, United States of America.
Widespread anthelmintic resistance has complicated the management of parasitic nematodes. Resistance to the benzimidazole (BZ) drug class is nearly ubiquitous in many species and is associated with mutations in beta-tubulin genes. However, mutations in beta-tubulin alone do not fully explain all BZ resistance.
View Article and Find Full Text PDFEstimating realized relatedness in free-ranging macaques by inferring identity-by-descent segments.
Proc Natl Acad Sci U S A
January 2025
Department of Primate Behavioral Ecology, Institute of Biology, Leipzig University, Leipzig 04103, Germany.
Biological relatedness is a key consideration in studies of behavior, population structure, and trait evolution. Except for parent-offspring dyads, pedigrees capture relatedness imperfectly. The number and length of identical-by-descent DNA segments (IBD) yield the most precise relatedness estimates.
View Article and Find Full Text PDFIdentification and validation of mitochondria-related LncRNA signatures as a novel prognostic model for glioma.
Anticancer Drugs
January 2025
Department of Neurosurgery, Binzhou Medical University Hospital, Binzhou.
A predictive model for long-term survival is needed, and mitochondrial dysfunction is a key feature of cancer metabolism, though its link to glioma is not well understood. The aim of this study was to identify the molecular characteristics associated with glioma prognosis and explore its potential function. We analyzed RNA-seq data from The Cancer Genome Atlas and identified differentially expressed mitochondrial long noncoding RNAs (lncRNAs) using R's 'limma' package.
View Article and Find Full Text PDFIdentifying cancer prognosis genes through causal learning.
Brief Bioinform
November 2024
School of Artificial Intelligence, Jilin University, 3003 Qianjin Street, 130012 Changchun, China.
Accurate identification of causal genes for cancer prognosis is critical for estimating disease progression and guiding treatment interventions. In this study, we propose CPCG (Cancer Prognosis's Causal Gene), a two-stage framework identifying gene sets causally associated with patient prognosis across diverse cancer types using transcriptomic data. Initially, an ensemble approach models gene expression's impact on survival with parametric and semiparametric hazard models.
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