12,708 results found
    1. Ecology
    2. Evolutionary Biology

    Species clustering, climate effects, and introduced species in 5 million city trees across 63 US cities

    Dakota E McCoy, Benjamin Goulet-Scott ... John Kartesz
    Across 63 large US cities, street tree communities are shaped by climate, clustered by species, and made more similar between cities due to the presence of introduced species.
    1. Ecology

    Gaps in global wildlife trade monitoring leave amphibians vulnerable

    Alice C Hughes, Benjamin Michael Marshall, Colin T Strine
    Almost 98% of amphibian species have no regulation on their international trade, yet as 17% (1215 species) are in trade with 45% of individuals coming from the wild, including 445 Endangered/Data Deficient species, this poses a risk to species survival.
    1. Microbiology and Infectious Disease

    Parvovirus minute virus of mice interacts with sites of cellular DNA damage to establish and amplify its lytic infection

    Kinjal Majumder, Juexin Wang ... David J Pintel
    Development of a generally adaptable conformational capture assay for use in-trans identifies the specific direct interaction sites between the parvovirus minute virus of mice and the cellular genome during infection as sites of cellular DNA damage.
    1. Ecology
    2. Evolutionary Biology

    Temperature stress induces mites to help their carrion beetle hosts by eliminating rival blowflies

    Syuan-Jyun Sun, Rebecca M Kilner
    Temperature, the presence of an enemy species and the density of the mutualistic partner species interact to determine the expression of a protective mutualism.
    1. Computational and Systems Biology

    Genome-scale annotation of protein binding sites via language model and geometric deep learning

    Qianmu Yuan, Chong Tian, Yuedong Yang
    Integration of language model and geometric deep learning enables accurate and efficient genome-scale annotation of comprehensive protein-ligand binding sites.
    1. Evolutionary Biology
    2. Genetics and Genomics

    Mutation saturation for fitness effects at human CpG sites

    Ipsita Agarwal, Molly Przeworski
    Methylated CpG sites are saturated for T mutations in a sample of 390K human exomes, providing a test case for inferences about fitness effects in human genes, and insight into the interpretation of mutations as pathogenic using reference datasets.
    1. Chromosomes and Gene Expression

    Cooperation between a hierarchical set of recruitment sites targets the X chromosome for dosage compensation

    Sarah Elizabeth Albritton, Anna-Lena Kranz ... Sevinc Ercan
    Gene regulatory elements can target a chromatin regulatory complex to a single chromosome in the genome through hierarchical specification and long distance cooperation.
    1. Chromosomes and Gene Expression

    Translational initiation in E. coli occurs at the correct sites genome-wide in the absence of mRNA-rRNA base-pairing

    Kazuki Saito, Rachel Green, Allen R Buskirk
    E. coli ribosomes incapable of base-pairing with the Shine-Dalgarno sequence are still selective for annotated start sites, indicating these sites are hard-wired for initiation by other mRNA features.
    1. Chromosomes and Gene Expression

    An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites

    Peter J Skene, Steven Henikoff
    CUT&RUN (Cleavage Under Targets & Release Using Nuclease) profiles antibody-targeted DNA-binding proteins in situ with high resolution and low background, providing a simple, robust and scalable alternative to chromatin immunoprecipitation.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Multi-step recognition of potential 5' splice sites by the Saccharomyces cerevisiae U1 snRNP

    Sarah R Hansen, David S White ... Aaron A Hoskins
    The yeast U1 snRNP recognizes multiple features of target RNAs to reversibly identify splicing-competent 5' splice sites.

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