KITP Program: Eco-Evolutionary Dynamics in Nature and the Lab
(Jul 24 - Sep 15, 2017)
Coordinators: Michael Desai, Anthony Long, Paul Rainey, and Christian Schlötterer

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Speakers: Please contact us about file upload for your slides.

Time Speaker Title
7/17, 9:30am All Students Organizational meeting with students
7/24, 10:00am All Students and Participants Introduction with the rest of the program
7/24, 10:30am Paul Rainey
Overview talk/kick-off[Podcast][Aud][Cam]
7/24, 1:30pm All Students Safety instructions & project presentation
7/24, 2:00pm All Students and Participants Orientation meeting for workshop
7/25, 9:30am Bruce Levin
Emory & KITP
A Personal (biased) Perspective on Microbiology: Some History, Some Cool Experiments, and Opinions about Where the Action is[Slides][Podcast][Aud][Cam]
7/25, 11:00am Erdal Toprak
UT Southwestern & KITP
Molecular Evolution of Antibiotic Resistance[Podcast][Aud][Cam]
7/25, 3:45pm Tim Cooper
U Houston
Mutation interactions and the repeatability, evolvability and basis of adaptation in experimentally evolved bacteria[Podcast][Aud][Cam]
7/26, 9:30am Rachel Dutton
Deconstucting and Reconstructing Microbial Communities Using Cheese[Podcast][Aud][Cam]
7/26, 11:30am Bruce Levin
Emory & KITP
Excursions into the Population and Evolutionary Dynamics of Bacteriophage[Slides][Podcast][Aud][Cam]
7/27, 9:30am Otto Cordero
Microbial Genome Evolution[Slides][Podcast][Aud][Cam]
7/27, 11:00am Seppe Kuehn
Univ. of Illinois & KITP
Constraints on Communities and Characters[Slides][Podcast][Aud][Cam]
7/28, 9:30am Lizzy Wilbanks
The Wild Microbe: Challenges, joys and tools for the microbial world[Podcast][Aud][Cam]
7/28, 11:00am Silvia De Monte
Self-organized Assortment and the Evolution of Collective Function[Slides][Podcast][Aud][Cam]
7/31, 9:30am Otto Cordero
The Structure-Function Mapping of ?-Scale Microbial Ecosystems[Podcast][Aud][Cam]
7/31, 11:00am Richard Neher
HIV-1 evolution, immune escape and latency[Podcast][Aud][Cam]
8/01, 9:30am Erik Van Nimwegen
Univ. of Basel
How do prokaryotic genomes evolve? Of SNPs, phylogenies, recombination, and population structure.
8/01, 11:00am Josh Quick
Univ. Birmingham
How to deploy a portable lab for the surveillance of emerging infectious diseases[Slides][Podcast][Aud][Cam]
8/01, 2:00pm Thomas Julou
ETH Zurich
Stochastic gene expression in changing environments and why slackers persist[Podcast][Aud][Cam]
8/02, 9:30am Lin Chao
Theoretical and experimental study of the effects of non-genetic damage on cellular aging, lineage immortality, and fitness variance in a bacterial population[Podcast][Aud][Cam]
8/02, 11:00am Rees Kassen
U. Ottawa
The sounds of silence: Fitness effects of synonymous mutations in a gene under selection[Slides][Podcast][Aud][Cam]
8/02, 2:00pm Olin Silander
Univ. of Basel
The evolution of bacterial gene regulation[Slides][Podcast][Aud][Cam]
8/03, 9:30am Shelley Copley
Metabolic innovation in microbial communities: who gets to play?[Podcast][Aud][Cam]
8/03, 11:00am Greg Lang
Lehigh Univ.
Yeast experimental evolution: sequence dynamics, targets of selection, an example of synergistic epistasis, and maybe some ploidy stuff too[Slides][Podcast][Aud][Cam]
8/03, 2:00pm Bruce Levin
Rees Kassen
(U. Ottawa)
Lin Chao
Informal discussion of topics related to antibiotic resistance[Podcast][Aud][Cam]
8/04, 9:30am Andrew Murray
Does experimental evolution tell us anything useful?[Slides][Podcast][Aud][Cam]
8/04, 11:00am Sasha Levy
Stony Brook
The dynamics of adaptive genetic diversity during the early stages of clonal evolution[Slides][Podcast][Aud][Cam]
8/07, 9:30am Aleksandra Walczak
ENS Paris & KITP
Analyzing immune repertoires[Slides][Podcast][Aud][Cam]
8/07, 11:00am Alfred Spormann
How Micobes Use Energy[Podcast][Aud][Cam]
8/08, 9:30am Joshua Weitz
Georgia Tech
Synergistic Elimination of Bacterial Pathogens by Phage and the Innate Immune System[Slides][Podcast][Aud][Cam]
8/08, 11:00am Paul Turner
Using phage to select for evolution of reduced virulence in pathogenic bacteria[Slides][Podcast][Aud][Cam]
8/08, 1:30pm Daniel Huson
Univ. Tübingen
Tutorial: Metagenomic analysis with MEGAN[Podcast][Aud][Cam]
8/08, 3:30pm Michael Lässig
Univ. of Cologne & KITP
Adaptive traits of influenza proteins[Podcast][Aud][Cam]
8/09, 9:30am Molly Burke
Oregon State & KITP
What can we learn from experimental evolution in sexual populations?[Slides][Podcast][Aud][Cam]
8/09, 11:00am Terry Hwa
What does chemotaxis do for bacteria: beyond mechanisms and buzz words[Podcast][Aud][Cam]
8/09, 2:00pm All This slot is open for topics that come up during the week
8/09 6:15pm Rachel Dutton
The Wonderful Microbial World of Cheese[Podcast][Aud][Cam]
KITP Chalk Talk
8/10, 9:30am Gurol Suel
Electrical signaling in bacterial communities[Podcast][Aud][Cam]
8/10, 11:00am Joshua Weitz
Georgia Tech
Space-time Frontiers of Marine Viral Ecology[Slides][Podcast][Aud][Cam]
8/10, 3:30pm Terry Hwa
What does chemotaxis do for bacteria: beyond mechanisms and buzz words, cont'd[Podcast][Aud][Cam]
8/11, 9:30am Alfred Spormann
Ecological Consequences of Metabolic Pathways[Podcast][Aud][Cam]
8/11, 11:00am Daniel Huson
Univ. Tübingen
Metagenome analysis and assembly[Slides][Podcast][Aud][Cam]
8/14, 9:30am Aneil Agrawal
Univ. of Toronto & KITP
Experimental evolution in flies: plasticity evolution & sexual interactions[Podcast][Aud][Cam]
8/14, 11:00am Pankaj Mehta
Statistical physics approaches to community ecology[Slides][Podcast][Aud][Cam]
08/14 12:15pm Terry Hwa
Re-learning how to do phenomenological theories and why this is so important in biology[Podcast][Aud][Cam]
KITP Blackboard Lunch
8/15, 9:30am Ned Wingreen
Modeling microbial diversity[Slides][Podcast][Aud][Cam]
8/15, 11:00am Rich Lenski
Dynamics of Adaptation and Genome Evolution in a Long-Term Experiment with E. coli[Slides][Podcast][Aud][Cam]
8/15, 3:30pm Claudia Bank
Fitness landscapes and the predictability of evolution[Slides][Podcast][Aud][Cam]
8/16, 9:30am Oskar Hallatschek
Berkeley & KITP
Recurrent jackpot events (typically) favor majorities[Podcast][Aud][Cam]
8/16, 11:00am Paul Rainey
Big fleas, little fleas, lesser fleas[Podcast][Aud][Cam]
8/16, 2:00pm All This slot is open for topics that come up during the week
8/17, 9:30am Olivier Tenaillon
Genomics of E. coli adaptation in vitro, in vivo, in infectio[Podcast][Aud][Cam]
8/17, 11:00am Philipp Messer
Cornell & KITP
Genetic manipulation of entire populations with CRISPR gene drives[Slides][Podcast][Aud][Cam]
8/17, 3:30pm Oskar Hallatschek
Berkeley & KITP
Recurrent jackpot events (typically) favor majorities, cont'd[Podcast][Aud][Cam]
8/18, 9:30am Rich Lenski
Back to the Freezer: Assorted Experiments, Old and New[Podcast][Aud][Cam]
8/18, 11:00am Students Presentations from QBIO School students[Podcast][Aud][Cam]
8/18, 1:00pm Students Presentations from QBIO School students, cont'd[Podcast][Aud][Cam]
8/21, 11:00am Thierry Mora
ENS Paris & KITP
Evolution and ecology of well-adapted immune systems[Slides][Podcast][Aud][Cam]
8/21, 3:45pm Aleksandra Walczak
ENS Paris & KITP
Analyzing Immune repertories part 2[Slides][Podcast][Aud][Cam]
8/22, 9:30am David Nelson
Harvard & KITP
Structured environments, spatial gene drives and pushed genetic waves[Slides][Podcast][Aud][Cam]
8/22, 11:00am Aneil Agrawal
Univ. of Toronto & KITP
The physical environment mediates how sexual interactions affect purging, adaptation, and sexual phenotypes[Podcast][Aud][Cam]
8/23, 9:30am Daniel Fisher
Eco-Evo Dynamics in High Dimensions
8/23, 11:00am Tony Long
What is the molecular basis of adaptation in sexual outbreds?[Podcast][Aud][Cam]
8/23, 2:00pm Rees Kassen
U. Ottawa & KITP
From so simple a beginning: Experimental evolution of diversity in Pseudomonas populations[Slides][Podcast][Aud][Cam]
8/24, 9:30am Christian Schlötterer
VU Wien
What can be learned about adaptation from E&R experiments in Drosophila?[Podcast][Aud][Cam]
8/24, 11:00am Maud Tenaillon
Univ. of Paris-Sud & KITP
Exploring the genetic determinants of maize phenotypic evolution[Slides][Podcast][Aud][Cam]
8/24, 3:30pm All This slot is open for topics that come up during the week
8/25, 9:30am Cassandra Extavour
Harvard & KITP
Establishing Hawaiian Drosophila as as study system for eco-evo-dynamics[Podcast][Aud][Cam]
8/25, 11:00am Ned Wingreen
Building a biofilm the Vibrio cholerae way[Slides][Podcast][Aud][Cam]
8/28, 9:30am Olivier Tenaillon
Some phenotypic bases of epistasis[Podcast][Aud][Cam]
8/28, 11:00am Alan Perelson
How we cured HCV and a bit of HCV evolution and drug resistance[Slides][Podcast][Aud][Cam]
8/29, 9:30am Joachim Krug
Univ. of Cologne & KITP
Epistasis and genotypic complexity in Fisher's geometric model[Slides][Podcast][Aud][Cam]
8/29, 11:00am Henrique Teotónio
ENS Paris & KITP
Understanding natural selection on pre-existing genetic diversity in variable environments[Slides][Podcast][Aud][Cam]
8/29, 3:30pm All This slot is open for topics that come up during the week
8/30, 9:30am Andreas Futschik
Statistical Methods for Experimental Evolution[Podcast][Aud][Cam]
8/30, 3:30pm Calin Plesa
Exploring Protein Functional Landscapes using Multiplexed Gene Synthesis and Characterization[Slides][Podcast][Aud][Cam]
8/31, 9:30am Wenying Shou
Fred Hutch
Evolution of microbial community function[Podcast][Aud][Cam]
8/31, 11:00am Cassandra Extavour
Harvard & KITP
Is QTL analysis really good at predicting causal loci of evolutionary change?[Podcast][Aud][Cam]
8/31, 3:30pm All This slot is open for topics that come up during the week
9/01, 9:30am Michael Desai
Harvard & KITP
The dynamics of adaptation from new mutations and from standing variation: stories from E. coli and yeast[Slides][Podcast][Aud][Cam]
9/05, 9:30am Patrick Phillips
Oregon & KITP
Experimental evolution and the evolution of genetic architecture[Slides][Podcast][Aud][Cam]
9/05, 11:00am Ben Good
Berkeley & KITP
Eco-evolutionary dynamics in consumer-resource models[Podcast][Aud][Cam]
9/05, 3:30pm All This slot is open for topics that come up during the week
9/06, 9:30am Carolin Kosiol
VU Wien
Modeling evolutionary trajectories[Podcast][Aud][Cam]
9/06, 11:00am Ivana Cvijovic
The effect of background selection of mutational trajectories and genetic diversity[Podcast][Aud][Cam]
9/07, 9:30am Wolfram Moebius
Front dynamics and evolution associated with spatial spread in heterogeneous environments[Slides][Podcast][Aud][Cam]
9/07, 11:00am Robert Kofler
VU Wien & KITP
An open problem with transposable element abundance[Slides][Podcast][Aud][Cam]
9/07, 3:30pm All This slot is open for topics that come up during the week
9/08, 9:30am Fernanda Pinheiro
Univ. of Cologne & KITP
Adaptive genome evolution by punctuated fitness waves[Podcast][Aud][Cam]
9/08, 11:00am Klas Udekwu
Stockholm Univ.
Modeling antimicrobial treatment based on Collateral Network theory
9/11, 9:30am Ben Good
Berkeley & KITP
The population-genetic environment of the gut microbiome[Podcast][Aud][Cam]
9/11, 11:00am Christian Schlotterer
VU Wien & KITP
Temperature effects on gene expression in Drosophila[Podcast][Aud][Cam]
9/11, 3:30pm All Participants Informal discussion of the architecture of adaptation: many versus few locus models[Podcast][Aud][Cam]
9/12, 9:30am Michael Doebeli
From individual-level processes to large-scale patterns in ecology and evolution[Podcast][Aud][Cam]
9/12, 11:00am Neda Barghi
VU Wien & KITP
Genomic signatures of polygenic adaptation in Drosophila simulans[Podcast][Aud][Cam]
9/12, 3:30pm Klas Udekwu
Stockholm Univ.
Modeling antimicrobial treatment based on Collateral Network theory
9/13, 9:30am Sergey Nuzhdin
Evolve and resequence in Drosophila, challenges[Podcast][Aud][Cam]
9/13, 11:00am Patrick Phillips
Oregon & KITP
Evolutionary recovery from spontaneous vs segregating deleterious mutations[Podcast][Aud][Cam]
9/13, 2:00pm Steve Proulx UCSB Bet-hedging, trans-generational effects, and population dynamics[Podcast][Aud][Cam]
9/14, 9:30am Santiago Elena
Experimental evolution of plant RNA virus interactions[Slides][Podcast][Aud][Cam]
9/14, 11:00am Michael Desai
Harvard & KITP
Statistics of epistasis and pleiotropy
9/14, 3:30pm All This slot is open for topics that come up during the week
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