Infection and Immunity (Li)

Yuping, Li et al. (2025) ‘Jumbo phage killer immune system targets early infection of nucleus-forming phages’, Cell, p. Online ahead of print. Available at: https://doi.org/10.1016/j.cell.2025.02.016.

Kinsler, G. et al. (2024) ‘A high-resolution two-step evolution experiment in yeast reveals a shift from pleiotropic to modular adaptation’, PLoS Biology, 22(12). Available at: https://doi.org/10.1371/journal.pbio.3002848.

Chen, Daphne F. et al. (2024) ‘AcrIF11 is a potent CRISPR-specific ADP-ribosyltransferase encoded by phage and plasmid’, bioRxiv [Preprint]. Cold Spring Harbor Laboratory (bioRxiv). Available at: https://doi.org/10.1101/2024.08.26.609590.

Acosta-Zaldívar, M. et al. (2024) ‘Candida albicans’ inorganic phosphate transport and evolutionary adaptation to phosphate scarcity’, PLoS Genetics, 20(8). Available at: https://doi.org/10.1371/journal.pgen.1011156.

Kinsler, Grant et al. (2024) ‘A shift from pleiotropic to modular adaptation revealed by a high-resolution two-step adaptive walk’, bioRxiv [Preprint]. Cold Spring Harbor Laboratory (bioRxiv). Available at: https://doi.org/10.1101/2024.04.17.589938.

Fossati, A. et al. (2023) ‘Next-generation proteomics for quantitative Jumbophage-bacteria interaction mapping’, Nature Communications, 14(1). Available at: https://doi.org/10.1038/s41467-023-40724-w.

Chen, Vivian K. et al. (2023) ‘Far From Home: Evolution of haploid and diploid populations reveals common, strong, and variable pleiotropic effects in non-home environments’, bioRxiv [Preprint]. Cold Spring Harbor Laboratory (bioRxiv). Available at: https://doi.org/10.1101/2023.02.28.530341.

Li, Yuping et al. (2022) ‘A family of novel immune systems targets early infection of nucleus-forming jumbo phages’, bioRxiv [Preprint]. Cold Spring Harbor Laboratory (bioRxiv). Available at: https://doi.org/10.1101/2022.09.17.508391.

Aggeli, Dimitra, Li, Yuping and Sherlock, Gavin (2021) ‘Changes in the distribution of fitness effects and adaptive mutational spectra following a single first step towards adaptation’, Nature Communications, 12(1). Available at: https://doi.org/10.1038/s41467-021-25440-7.

Li, Y. and Bondy-Denomy, J. (2021) ‘Anti-CRISPRs go viral: The infection biology of CRISPR-Cas inhibitors’, Cell Host and Microbe, 29(5), pp. 704–714. Available at: https://doi.org/10.1016/j.chom.2020.12.007.

Aggeli, Dimitra, Li, Yuping and Sherlock, Gavin (2020) ‘Changes in the distribution of fitness effects and adaptive mutational spectra following a single first step towards adaptation’, bioRxiv [Preprint]. Cold Spring Harbor Laboratory (bioRxiv). Available at: https://doi.org/10.1101/2020.06.12.148833.

Li, Yuping, Petrov, Dmitri A. and Sherlock, Gavin (2019) ‘Single nucleotide mapping of trait space reveals Pareto fronts that constrain adaptation’, Nature Ecology and Evolution, 3(11), pp. 1539–1551. Available at: https://doi.org/10.1038/s41559-019-0993-0.

Li, Yuping, Petrov, Dmitri A. and Sherlock, Gavin (2019) ‘Single Nucleotide Mapping of the Locally Accessible Trait Space in Yeast Reveals Pareto Fronts that Constrain Initial Adaptation’, bioRxiv [Preprint]. Cold Spring Harbor Laboratory (bioRxiv). Available at: https://doi.org/10.1101/593947.

Li, Y. et al. (2018) ‘Hidden Complexity of Yeast Adaptation under Simple Evolutionary Conditions’, Current Biology, 28(4), pp. 515–525.e6. Available at: https://doi.org/10.1016/j.cub.2018.01.009.

Venkataram, S. et al. (2016) ‘Development of a Comprehensive Genotype-to-Fitness Map of Adaptation-Driving Mutations in Yeast’, Cell, 166(6), pp. 1585–1596.e22. Available at: https://doi.org/10.1016/j.cell.2016.08.002.

Lin, L. et al. (2015) ‘LSY-2 is essential for maintaining the germ-soma distinction in C. elegans’, Protein and Cell, 6(8), pp. 599–609. Available at: https://doi.org/10.1007/s13238-015-0173-1.

Wu, F. et al. (2012) ‘Differential function of the two Atg4 homologues in the aggrephagy pathway in Caenorhabditis elegans’, Journal of Biological Chemistry, 287(35), pp. 29457–29467. Available at: https://doi.org/10.1074/jbc.M112.365676.