Adaptation of influenza virus: identifying selective landscape in H1N1 based on time-sampled data

Speaker: Yu-Ping Poh , EMBL/UMass Medical School, Jensen Lab

Date: Friday, April 25, 2014

Time: 9:00 AM to 10:00 AM Note: all times are in the Eastern Time Zone

Public: Yes

Location: Kiva/Patil 32G-449, 32 Vassar St. 4th Floor, Cambridge MA

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Host: Manolis Kellis, MIT

Contact: Manolis Kellis, 617-253-2419, manoli@csail.mit.edu

Relevant URL: http://jensenlab.epfl.ch/

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Reminders to: seminars@csail.mit.edu, talks@broad.mit.edu

Reminder Subject: TALK: Adaptation of influenza virus: identifying selective landscape in H1N1 based on time-sampled data 4/25 at 9am

Adaptation of influenza virus: identifying selective landscape in H1N1 based on time-sampled data
Yu-Ping Poh
EMBL/UMass Medical School, Jensen Lab

Influenza is an important pathogen in the human population, which 5 to 15% global population is infected each year. The extremely rapid evolution of influenza genome, especially in the surface protein neuraminidase (NA) and hemagglutinin (HA), has led to the hypothesis of recurrent positive selection has driven the rapid adaptation in the host. The adaptation process of influenza is of great interests in population genetics because of its rapid mutation rate, no homologous recombination but reassortment occurred when co-infection. Here we had generated a closed viral evolutionary platform in which to study influenza virus under selective pressures. We first introduced oseltamivir, as a NA inhibitor that has been used commonly for the treatment of influenza, to the both influenza A/H1N1 virus population that have not evolved to drug-resistant and the influenza genomes were sequenced for every passage. Within only a few passages, we successfully reproduce the drug resistant strains in the culture cells. Besides the pre-identified drug resistant sites, we also find a few more sites showing distinct trajectories aiming to fixation and those sites are largely reappearing in the following replication. A number of parallel replacements are also detected. Conversely, we do not find any sites getting fixed without drug treatment, but there are still a few sites showing monotonically increased trajectory. Those sites might be responsible for the influenza adaptation to the new cell type. Thus, the global selective landscapes are hopefully established under different adaptation scenario.

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Created by Manolis Kellis at Monday, April 21, 2014 at 11:06 AM.