Now showing items 1-15 of 15

    • Analysis of genetic systems using experimental evolution and whole-genome sequencing 

      Hegreness, Matthew; Kishony, Roy (BioMed Central, 2007)
      The application of whole-genome sequencing to the study of microbial evolution promises to reveal the complex functional networks of mutations that underlie adaptation. A recent study of parallel evolution in populations ...
    • Drugs That Thwart Antibiotic Resistance 

      Stone, Laura (2015-05-20)
      Antibiotics are often credited with being one of the major forces behind the expansion of human life expectancy in the past 60 years. Yet at the root of this advancement lies its potential undoing: using antibiotics promotes ...
    • Gene-Drug Interactions and the Evolution of Antibiotic Resistance 

      Palmer, Adam Christopher (2013-03-18)
      The evolution of antibiotic resistance is shaped by interactions between genes, the chemical environment, and an antibiotic's mechanism of action. This thesis explores these interactions with experiments, theory, and ...
    • Genetic variation of a bacterial pathogen within individuals with cystic fibrosis provides a record of selective pressures 

      Lieberman, Tami D.; Flett, Kelly B.; Yelin, Idan; Martin, Thomas R.; McAdam, Alexander J.; Priebe, Gregory P.; Kishony, Roy (2014)
      Advances in sequencing have enabled the identification of mutations acquired by bacterial pathogens during infection1-10. However, it remains unclear whether adaptive mutations fix in the population or lead to pathogen ...
    • Genomic insights into bacterial adaptation during infection 

      Lieberman, Tami Danielle (2014-06-06)
      Bacteria evolve during the colonization of human hosts, yet little is known about the selective pressures and evolutionary forces that shape this evolution. Illumination of these processes may inspire new therapeutic ...
    • High-order species interactions shape ecosystem diversity 

      Bairey, Eyal; Kelsic, Eric D.; Kishony, Roy (Nature Publishing Group, 2016)
      Classical theory shows that large communities are destabilized by random interactions among species pairs, creating an upper bound on ecosystem diversity. However, species interactions often occur in high-order combinations, ...
    • Inexpensive Multiplexed Library Preparation for Megabase-Sized Genomes 

      Baym, Michael; Kryazhimskiy, Sergey; Lieberman, Tami D.; Chung, Hattie; Desai, Michael M.; Kishony, Roy (Public Library of Science, 2015)
      Whole-genome sequencing has become an indispensible tool of modern biology. However, the cost of sample preparation relative to the cost of sequencing remains high, especially for small genomes where the former is dominant. ...
    • Networks from Drug–Drug Surfaces 

      Yeh, Pamela; Kishony, Roy (EMBO and Nature Publishing Group, 2007)
    • Optimal Drug Synergy in Antimicrobial Treatments 

      Torella, Joseph; Chait, Remy Paul; Kishony, Roy (Public Library of Science, 2010)
      The rapid proliferation of antibiotic-resistant pathogens has spurred the use of drug combinations to maintain clinical efficacy and combat the evolution of resistance. Drug pairs can interact synergistically or antagonistically, ...
    • Optimization and control in bacterial Lag phase 

      Schultz, Daniel; Kishony, Roy (BioMed Central, 2013)
      The lag phase of bacterial growth is important from a medical and food safety perspective, but difficult to study due to the low density and metabolic rate of cells. A new study by Alon and colleagues reveals that the gene ...
    • Pervasive selection for and against antibiotic resistance in inhomogeneous multistress environments 

      Chait, Remy; Palmer, Adam C.; Yelin, Idan; Kishony, Roy (Nature Publishing Group, 2016)
      Antibiotic-sensitive and -resistant bacteria coexist in natural environments with low, if detectable, antibiotic concentrations. Except possibly around localized antibiotic sources, where resistance can provide a strong ...
    • Polyploidy can drive rapid adaptation in yeast 

      Selmecki, Anna; Maruvka, Yosef E.; Richmond, Phillip A.; Guillet, Marie; Shoresh, Noam; Sorenson, Amber; De, Subhajyoti; Kishony, Roy; Michor, Franziska; Dowell, Robin; Pellman, David (2015)
      Polyploidy is observed across the tree of life, yet its influence on evolution remains incompletely understood1–4. Polyploidy, usually whole genome duplication (WGD), is proposed to alter the rate of evolutionary adaptation. ...
    • Quantifying the Integration of Quorum-Sensing Signals with Single-Cell Resolution 

      Long, Tao; Tu, Kimberly C; Ong, N. P; Bassler, Bonnie L; Wingreen, Ned S; Wang, Yufang; Mehta, Pankaj; Kishony, Roy (Public Library of Science, 2009)
      Cell-to-cell communication in bacteria is a process known as quorum sensing that relies on the production, detection, and response to the extracellular accumulation of signaling molecules called autoinducers. Often, bacteria ...
    • Systematic approaches to deciphering genes and ecosystems 

      Kelsic, Eric David (2015-04-03)
      In this thesis I investigate how the individual components of biological systems interact, and how the form of these interactions determines overall system behavior. The interactions I study occur at widely different scales: ...
    • Using Live Cell Imaging to Probe Biogenesis of the Gram-Negative Cell Envelope 

      Yao, Zhizhong (2013-02-08)
      In Gram-negative bacteria, the three-layered cell envelope, including the cell wall, outer and inner membranes, is essential for cell survival in the changing, and often hostile environments. Conserved in all prokaryotes, ...