Microbial evolution

Richard Neher
Biozentrum, University of Basel

slides at neherlab.org/201806_Paros_lightning.html

Within-patient HIV-1 evolution

Mutation dynamics
Fitness landscapes
  • accurate frequency data across the entire genome
  • replicating virus and integrated reservoir
  • substantial reversion towards consensus
  • → core fitness landscape

Influenza virus evolution

Lost of reassortment
Crude antigenic assays
Challenge: accurate prediction which strain will dominate

What about bacteria?

what are the evolutionary units?

what are the constraints on DNA exchange?