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Showing 1–8 of 8 results
Advanced filters: Author: "Antonis Rokas" Clear advanced filters

  • Determining major branches in the tree of life generally relies on concatenating as much genetic information as possible, but, as shown here, phylogenomic analysis often produces results that are incongruent with the results of concatenation; a method that gives credence to genes or internodes with high average internode support reduces the incongruence.

    • Leonidas Salichos
    • Antonis Rokas
    Research
    Nature
    Volume: 497, P: 327-331

  • There is a need for analytical frameworks to investigate the evolution of complex genetic traits. Here, the authors develop an approach to simultaneously evaluate different evolutionary signatures on trait-associated genetic variants for complex traits and apply it to study spontaneous preterm birth.

    • Abigail L. LaBella
    • Abin Abraham
    • John A. Capra
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-12

  • Replicate runs of maximum likelihood phylogenetic analyses can generate different tree topologies due to differences in parameters, such as random seeds. Here, Shen et al. demonstrate that replicate runs can generate substantially different tree topologies even with identical data and parameters.

    • Xing-Xing Shen
    • Yuanning Li
    • Antonis Rokas
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-14

  • Thanks to phylogenomics, reconstruction of the tree of life is now possible, yet different datasets and methods can yield contradictory relationships. Here, the authors quantify phylogenetic signals and show that contentious relationships can be supported by a tiny amount of data.

    • Xing-Xing Shen
    • Chris Todd Hittinger
    • Antonis Rokas
    Research
    Nature Ecology & Evolution
    Volume: 1, P: 1-10

  • Incongruence occurs when phylogenetic trees show conflicting evolutionary histories such as patterns of branching or relationships among taxa. This Review discusses the biological and analytical factors that lead to incongruence, methodological advances to identify and resolve incongruence, and avenues for future research.

    • Jacob L. Steenwyk
    • Yuanning Li
    • Antonis Rokas
    Reviews
    Nature Reviews Genetics
    Volume: 24, P: 834-850

  • Genetic dissection of a yeast gene-regulatory pathway shows that the logical output of such a pathway can remain the same even though the molecular mechanisms underlying the output have diverged remarkably.

    • Antonis Rokas
    News & Views
    Nature
    Volume: 443, P: 401-402

  • Understanding the mechanisms and evolution of pathogenicity in fungi will bring us a step closer to reducing the annual toll of 1.6 million deaths from fungal disease.

    • Antonis Rokas
    Reviews
    Nature Microbiology
    Volume: 7, P: 607-619

  • In this Review, Rokas, Wisecaver and Lind discuss the diversity in the structure and content of fungal metabolic gene clusters, their population-level and species-level variation, the evolutionary mechanisms that underlie their formation, maintenance and decay, and their ecological and evolutionary impact on fungal populations.

    • Antonis Rokas
    • Jennifer H. Wisecaver
    • Abigail L. Lind
    Reviews
    Nature Reviews Microbiology
    Volume: 16, P: 731-744