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Assessing the geographic dimension of diversification is paramount to integrate macroecology and macroevolution. Estimating ancestral ranges of species from phylogenies and spatial distribution of extant species have been fundamental for historical biogeography and can help in this endeavor. Yet, improvements in the available tools to estimate ancestral ranges are still necessary to produce fine-grain spatial reconstructions. We introduce a method called SBEARS (Site-Based Estimation of Ancestral Range of Species) to reconstruct ancestral ranges at finer grain resolutions, which does not require a priori definition of biogeographic regions and provides information about the spatial distribution of ancestral nodes in user-friendly format. We test the robustness of SBEARS using simulated datasets and thereby demonstrate that the method reliably reconstructs ancestral ranges at rates higher than other methods implemented in the R packages BioGeoBEARS and rase. Further, we employ SBEARS to reconstruct ancestral ranges of Sigmodontinae rodents and compare them to those generated by BioGeoBEARS and rase. SBEARS builds upon other available methods as reliable alternative for ancestral range reconstruction where a fine-grain geographic resolution is required.
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http://dx.doi.org/10.1093/evolut/qpaf173 | DOI Listing |
mBio
September 2025
School of Biological Sciences, University of Auckland, Auckland, New Zealand.
The rotation of the bacterial flagellum is powered by the MotAB stator complex, which converts ion flux into torque. Despite its central role in flagellar function, the evolutionary origin and structural diversity of this system remain poorly understood. Here, we present the first comprehensive phylogenetic and structural characterization of MotAB and its closest non-flagellar homologs.
View Article and Find Full Text PDFEMBO J
September 2025
New York University Grossman School of Medicine, Microbiology Department, New York, NY, USA.
Serine protease inhibitors (SERPINs) are involved in various physiological processes and diseases, such as inflammation, cancer metastasis, and neurodegeneration. Their role in viral infections is poorly understood, as their expression patterns during infection and the range of proteases they target have yet to be fully characterized. Here, we show widespread expression of human SERPINs in response to respiratory virus infections, both in bronchioalveolar lavages from COVID-19 patients and in polarized human airway epithelial cultures.
View Article and Find Full Text PDFPediatr Infect Dis J
September 2025
From the School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Queensland, Australia.
Background: Obesity was a risk factor for severe COVID-19 in children during early outbreaks of ancestral SARS-CoV-2 and the Delta variant. However, the relationship between obesity and COVID-19 severity during the Omicron wave remains unclear.
Methods: This multicenter, observational study included polymerase chain r eaction-confirmed SARS-CoV-2-infected children and adolescents from Australia, Brazil, Italy, Portugal, Switzerland, Thailand, the United Kingdom and the United States hospitalized between January 1, 2020, and March 31, 2022.
G3 (Bethesda)
September 2025
Department of Biology, Stanford University, Stanford, CA 94305, USA.
The ψ directionality index was introduced by Peter & Slatkin (Evolution 67: 3274-3289, 2013) to infer the direction of range expansions from single-nucleotide polymorphism variation. Computed from the joint site frequency spectrum for two populations, ψ uses shared genetic variants to measure the difference in the amount of genetic drift experienced by the populations, associating excess drift with greater distance from the origin of the range expansion. Although ψ has been successfully applied in natural populations, its statistical properties have not been well understood.
View Article and Find Full Text PDFmedRxiv
August 2025
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA.
Breast cancer genome-wide association studies (GWAS) have identified over 200 independent genome-wide significant susceptibility markers. However, most studies have focused on one or two ancestral groups. We examined breast cancer genetic architecture using GWAS summary statistics from African (AFR), East Asian (EAS), European (EUR) and Hispanic/Latina (H/L) samples, totaling 159,297 cases and 212,102 controls, comprising the largest multi-ancestry study of breast cancer to date.
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