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    1. Epidemiology and Global Health
    2. Genetics and Genomics

    Genomic epidemiology of COVID-19 in care homes in the east of England

    William L Hamilton et al.
    SARS-CoV-2 can spread efficiently within care homes causing outbreaks among residents, who are at increased risk of severe disease, emphasising the importance of stringent infection control in this population.
    1. Microbiology and Infectious Disease

    A mechanistic model for long-term immunological outcomes in South African HIV-infected children and adults receiving ART

    Eva Liliane Ujeneza et al.
    Long-term immune outcomes vary with age, for both adults and children in HIV-infected populations, e.g. long-term scaled carrying capacity is lower in HIV-infected younger individuals compared to older individuals.
    1. Epidemiology and Global Health
    2. Microbiology and Infectious Disease

    Genomic epidemiology of artemisinin resistant malaria

    MalariaGEN Plasmodium falciparum Community Project
    Plasmodium falciparum kelch13 mutations that cause artemisinin resistant malaria in Southeast Asia show markedly different patterns of evolutionary selection in Africa.
    1. Epidemiology and Global Health

    Research: What makes an eLife paper in epidemiology and global health?

    Mark Jit et al.
    The best papers provide evidence that can be used to make changes that improve the health and lives of people around the world.
    Editorial
    Available as:
    • HTML
    • PDF
    1. Epidemiology and Global Health
    2. Microbiology and Infectious Disease

    A micro-epidemiological analysis of febrile malaria in Coastal Kenya showing hotspots within hotspots

    Philip Bejon et al.
    Malaria 'hotspots' can be identified that range in size from a few homesteads to a village, and it will be necessary to eliminate hotspots at varying scales as we progress towards eliminating malaria.
    1. Epidemiology and Global Health

    Global mapping of highly pathogenic avian influenza H5N1 and H5Nx clade 2.3.4.4 viruses with spatial cross-validation

    Madhur S Dhingra et al.
    The global suitability for avian flu H5N1 in poultry is predicted and spatially cross-validated, highlighting areas where the disease can spread in the absence of prevention and control, and represent a public health threat.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Genome-wide identification of lineage and locus specific variation associated with pneumococcal carriage duration

    John A Lees et al.
    Sequence changes in the pneumococcal genome explain most of the variability in duration of asymptomatic carriage with serotype, antibiotic resistance and prophage accounting for the largest effects.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    The role of interspecies recombination in the evolution of antibiotic-resistant pneumococci

    Joshua C D'Aeth et al.
    Selection by national-level antibiotic consumption and vaccination trends drives atypical recombinations, frequently resulting in interspecies sequence exchange at many sites across a bacterial species’ chromosome.
    1. Epidemiology and Global Health
    2. Microbiology and Infectious Disease

    The distribution of antibiotic use and its association with antibiotic resistance

    Scott W Olesen et al.
    Population-level antibiotic resistance correlates with the breadth of antibiotic use, that is, the proportion of people taking an antibiotic, better than with intensity of use the amount of use among users.
    1. Epidemiology and Global Health

    Previously undetected super-spreading of Mycobacterium tuberculosis revealed by deep sequencing

    Robyn S Lee et al.
    Incorporating within-host diversity in transmission, as identified by deep sequencing, can significantly change previously-held inferences, with major implications for genomic studies of transmission in tuberculosis and other pathogens as well.