2021-22 CQLS Seminar Series Schedule

Fall Term 2021
September 29, 2021Chris Plaisier
Arizona State University
Finding new therapies for mesothelioma
October 13, 2021TRACE
Oregon State University
TRACE COVID Community Surveillance Project
October 27, 2021David Garcia
University of Oregon
Prion-based forms of RNA-modifying enzymes
November 10, 2021Ya-chieh Hsu
Harvard University
Deep: Stem Cells at the Nexus of the Niche, Physiology, and the External Environment
Winter Term 2022
January 5, 2022TBD
January 19, 2022Carrie Hanna
Oregon Health and Science University
Using genome editing technology to create biomedical models in the nonhuman primate
February 2, 2022Jennifer Nemhauser
University of Washington
Babbage’s Cabbage: The Logic of Information Processing In Plants
February 16, 2022Yanming Di
Oregon State University
What is a replicate?
March 2, 2022Dr. Shobhan Gaddameedhi
North Carolina State University
Environmental Regulation of Genomic Stability and Human Health through the Circadian Clock
Spring Term 2022
March 30, 2022Mike Harms
University of Oregon
Ensembles, epistasis, and evolution: how biophysics shapes evolutionary outcomes
April 13, 2022Andrew Gentles
Stanford University
Atlas of Clinically Distinct Cell States and Cellular Ecosystems Across Human Solid Tumors
April 27, 2022CANCELLED – Yehenew Agazie
West Virginia University
TBD
May 18, 2022 (rescheduled for Fall2022)Elias Fernandez
University of Tennessee
TBD
June 1, 2022 (rescheduled for Fall2022)Sourav Ghosh
Yale School of Medicine
TBD
Fall Term 2021
September 29, 2021Chris Plaisier
Arizona State University
Finding new therapies for mesothelioma
October 13, 2021TRACE
Oregon State University
TRACE COVID Community Surveillance Project
October 27, 2021David Garcia
University of Oregon
Prion-based forms of RNA-modifying enzymes
November 10, 2021Ya-chieh Hsu
Harvard University
Deep: Stem Cells at the Nexus of the Niche, Physiology, and the External Environment
Winter Term 2022
January 5, 2022TBD
January 19, 2022Carrie Hanna
Oregon Health and Science University
Using genome editing technology to create biomedical models in the nonhuman primate
February 2, 2022Jennifer Nemhauser
University of Washington
Babbage’s Cabbage: The Logic of Information Processing In Plants
February 16, 2022Yanming Di
Oregon State University
What is a replicate?
March 2, 2022Dr. Shobhan Gaddameedhi
North Carolina State University
Environmental Regulation of Genomic Stability and Human Health through the Circadian Clock
Spring Term 2022
March 30, 2022Mike Harms
University of Oregon
Ensembles, epistasis, and evolution: how biophysics shapes evolutionary outcomes
April 13, 2022Andrew Gentles
Stanford University
Atlas of Clinically Distinct Cell States and Cellular Ecosystems Across Human Solid Tumors
April 27, 2022CANCELLED – Yehenew Agazie
West Virginia University
TBD
May 18, 2022 (rescheduled for Fall2022)Elias Fernandez
University of Tennessee
TBD
June 1, 2022 (rescheduled for Fall2022)Sourav Ghosh
Yale School of Medicine
TBD
Fall Term 2020
September 30, 2020Liang Huang
Oregon State University
Fighting COVID-19 with RNA Folding and RNA Design
October 14, 2020Mak Saito
Woods Hole Oceanographic Institution
Host: Steve Giovannoni
Exploring the use of metals in biogeochemically important enzymes in the oceans, and development of the Biogeochemical AUV Clio and the Ocean Protein Portal
October 28, 2020Scott Doney
University of Virginia
Host: Kim Halsey
Developing models of marine planktonic systems
November 18, 2020A. Murat Eren
University of Chicago
Host: Maude David and Steve Giovannoni
High-resolution insights into the genomic dynamism of closely related gut microbial populations in unrelated humans
December 2, 2020Katherine Amato
Northwestern University
Host: Tom Sharpton
A case for comparative research: Using primates to gain insight into the human gut microbiome
Winter Term 2021
January 20, 2021Maria Clara Franco (Maca)
Oregon State University
Host: Michael Freitag
The relevance of oxidatively-modified proteins as therapeutic tumor-directed targets
February 3, 2021Bruce Hungate
Northern Arizona University
Host: David Myrold
Frontiers in ecosystem science: microbial ecology to biogeochemistry
February 17, 2021Yuanchao Wang
Nanjing Agricultural University
Host: Brett Tyler
The story of XEG1: From a core effector to broad spectrum resistance
March 3, 2021Francesca Marassi
Sanford Burnham Prebys Medical Discovery Institute
Host: Elisar Barbar
Spring Term 2021
March 31, 2021Martin Egan
University of Arkansas
Host: Weihong Qiu
Forging the Rings of Power – Formation and remodeling of higher-order septin structures for plant invasion by the blast fungus
April 14, 2021Clare Bird
University of Stirling
Host: Jennifer Fehrenbacher
The microbiomes of single cells
April 28, 2021Zachary Lippman
Cold Spring Harbor Laboratory
Host: Steven Strauss
Dissecting and exploiting mechanisms of quantitative trait variation in pl
May 12, 2021Xiangshu Xiao
Oregon Health & Science University
Host: Siva Kolluri
Cancer Drug Discovery Targeting Transcription and DNA Repair
May 26, 2021Peter Ralph
University of Oregon
Host: Aaron Liston

Keynote Speaker

Charisse Madlock-Brown
University of Tennessee Health Science Center

Charisse Madlock-Brown is a faculty member in Health Informatics and Information Management at the University of Tennessee Health Science Center. She received her Master’s in Library Science and Ph.D. in Health Informatics from the University of Iowa. She has expertise in data management, data mining, and visualization. She has a broad background in health informatics, with a current focus on obesity trends and multimorbidity. Other areas of interest are network analysis and emerging topic detection in biomedicine. She has authored several book chapters and journal articles and continues to keep up-to-date on data integration, data architecture, database management, and analytic methods. She runs the UTHSC Research Pipelines labs, which provide online interfaces for distributed computing and storage systems. Her lab can manage projects from data extraction and transformation to modeling and visualization for small-scale and big data projects. 

Introductions from DSPG Leaders
1:00 PMIntroduction to the Oregon State University Date Science for the Public Good ProjectBrett Tyler, Director, Center for Quantitative Life Sciences, Oregon State University
1:05 PMTri-state Data Science for the Public Good ProjectSallie Keller, Director, Social and Decision Analytics Division, University of Virginia’s Biocomplexity Institute
1:10 PM Data Science Knowledge and Resources for Extension ProfessionalsLindsey Shirley, Associate Provost, Oregon State University Outreach and Engagement
Keynote Speaker
1:15 PM Social determinants of health related to COVID-19: disparities between urban and rural communities– Charisse Madlock-Brown, University of Tennessee Health Science Center
1:45 PMBreak
Presentations
2:00 PMMeasuring Economic and Social Infrastructure: Intergenerational Poverty in Page County, VA
2:15 PMWintertime air quality health impacts in Oakridge and Westfir
2:30 PMMapping Iowa’s Substance Use Care Infrastructure
2:45 PMImpacts of dam water release policy on Deschutes River health and recreation
3:00 PMBarriers to Health Care Access and Use in Patrick County, VA
3:15 PMForecasting tools for cost analysis of water and wastewater facilities in Oregon small towns and cities
3:30 PMEconomic Mobility Baseline and Comparative Analysis for the South Wasco County School District Area, Oregon
3:45 PMRegulatory impacts on economic development in the Eastern Oregon border region
4:00 PMWater quality requirements for fresh produce growers

DSPG is a coalition of five public universities across three states: Oregon State University, Iowa State University, Virginia Tech, University of Virginia, and Virginia State University.

Fall Term 2019
October 9, 2019Marilyn Roossinck
The Pennsylvania State University
Lessons in Virus Ecology from Forty Years of Research
Host: Jerri Bartholomew
October 23, 2019Ran Blekhman
The University of Minnesota
Population and Functional Genomics of Host-Microbiome Interactions
Host: Tom Sharpton
November 6, 2019Mark Farman
UC Davis
Telomeric transposons: major drivers of fungal genome evolution and guards against genome change
Host: Michael Freitag
December 4, 2019Carolina Tropini
The University of British Columbia
Physical perturbations to the gut microbiota during health and disease
Host: Natalia Shulzhenko
Winter Term 2020
January 8, 2020Chris Hittinger
University of Wisconsin-Madison
Host: Joey Spatafora
Genomic and metabolic evolution across budding yeasts
January 22, 2020Audrey Gasch
University of Wisconsin-Madison
Host: Michael Freitag
The genetic basis of aneuploidy tolerance in wild yeast
February 19, 2020Jill Banfield
UC Berkeley
Host: Steve Giovannoni
March 4, 2020Josh Cuperus
University of Washington
Host: Molly Megraw, John Fowler
Spring Term 2020
April 1, 2020Pankaj Kapahi
USC Leonard Davis
Host: Jaga Giebultowicz
April 15, 2020Jose Dinneny
Stanford University
Host: John Fowler
May 13, 2020TBD
May 27, 2020TBD
Fall Term 2018
September 26, 2018Andrew Cato
Karlsruhe Institutue of Technology, Germany
Development of Bag-1L as a Therapeutic Target in Androgen Receptor-Dependent Prostate Cancer
Host: Siva Kolluri
October 10, 2018Samara Reck-Peterson
UC San Diego
Molecular mechanisms of microtubule-based motors: how teams of motors work
Host: Michael Freitag
October 24, 2018Siobhan Brady
UC Davis
From networks to switches: systems approaches to unravel the control of biological processes necessary for plant life
Host: John Fowler/Molly Megraw
November 7, 2018Fitnat Yildiz
UC Santa Clara
Mechanisms and regulation of biofilm formation in Vibrio cholerae
Host: Claudia Hase
Winter Term 2019
Feruary 8, 2019William Hersh
OHSU
Three amazing ideas about microbial biogeography that will blow your mind
Host: Denise Hynes
March 6, 2019Nadja Cech
University of North Carolina – Greensboro
Anti-Virulence Strategies Against Drug Resistant Superbugs
Host: Sandra Loesgen
Spring Term 2019
April 3, 2019Chris Marx
University of Idaho
Phenotypic heterogeneity between genetically identical cells permits growth with letal levels of formaldehyde stress
Host: Patrick de Leenheer
April 17,. 2019Melissa Haendel
OHSU/OSU
The Yellow Brick Road of Open Science: Barriers to bringing data to its highest valued use
Host: Brett Tyler
May 1, 2019Kristine Alpi
OHSU
Host: Melissa Haendel
May 15, 2019Lucia Carbone
OHSU
Host: Tom Sharpton
May 29, 2019Andrew Kern
University of Oregon
Putting the HAL in Haldane: leveraging supervised machine learning for population genetics
Host: Aaron Liston
Fall Term 2017
September 27, 2017Geoffrey Wahl
The Salk Institute
Understanding Intra-tumoral heterogeneity using a developmental lens
Host: Arup Indra
October 11, 2017David Thomas
Biochemistry, Molecular Biology and Biophysics
University of Minnesota
Muscle Protein Structural Dynamics and Therapeutic Discovery 
Host: Weihong Qiu
October 25, 2017
Cosponsored by the Departments of Microbiology and Chemistry

ROOM CHANGE
**Withycombe 109**
Paul Jensen
Center for Marine Biotechnology & Biomedicine
UC San Diego
Ecological and evolutionary perspectives on secondary metabolism in marine actinobacteria
Host: Sandra Loesgen
November 8, 2017Brenna Henn
Stony Brook University
What do we gain by studying African genomes? : Examples from human evolution
Host: Thomas Sharpton 
December 6, 2017
Pat Schloss
University of Michigan
Understanding Disease through the Lens of the Microbiome
Host: Thomas Sharpton 
Winter Term 2018
February 7, 2018Scott Landfear
Dept of Molecular Microbiology & Immunology
OHSU
Critical Roles for Glucose Transporters in Parasitic Protozoa: From Cell Biology to Drug Discovery
Host: Sandra Loesgen
February 21, 2018Jason Slot
Fungal Evolutionary Genomics
The Ohio State University
Investigating fungal chemical ecology with evolutionary genomics
Host: Michael Freitag
March 7, 2018Rosalie Sears
Molecular and Medical Genetics
OHSU
Modeling and targeting intra-tumor phenotypic heterogeneity and cellular plasticity
Host: Siva Kolluri
Spring Term 2018
April 4, 2018John Taylor
UC Berkeley
The species problem for fungi in the era of genomics
Host: Nik Grünwald
April 18, 2018Catherine Royer
Biological Sciences
Rensselaer Polytechnic Institute
Pressure-based mapping of protein conformational landscapes
Host: Elisar Barbar
May 2, 2018Maret Traber
Linus Pauling Institute
Oregon State University
Ferroptosis, Mechanism of Cell Death in Vitamin E Deficiency During Embryogenesis?
May 16, 2018Steve Reichow
Chemistry
Portland State  University
Native Lens Gap Junctions Visualized at Near-Atomic Resolution by CryoEM
Host: Elisar Barbar
May 29, 2018
NOTE: Date change
Tuesday, May 29   3:30-4:30    ALS 4001
Rebecca Fry
Environmental Sciences and Engineering
UNC Chapel Hill 
The placental epigenome as a driver of early and later life health effects
Host: Molly Kile
Fall Term 2016
September 28, 2016Matthew Andrews 
Associate Dean for Strategic Initiatives and Administration
OSU, Dept of Biochemistry & Biophysics
Genes that control hibernation in mammals
October 12, 2016Zhongchi Liu
University of Maryland
Genomic approaches to identify genes and gene networks that regulate strawberry fruit development 

Host: Steve Strauss
October 26, 2016Susannah Tringe
Joint Genome Institute
Microbial communities and greenhouse gas cycling in coastal wetlands
Host: Dave Myrold
November 9, 2016William Cresko
University of Oregon
The genomic basis of stickleback evolution in 50 years
Host: Brett Tyler
December 7, 2016
 Speaker rescheduled to February 1, 2017
Winter Term 2017
January 18, 2017Keith Dunker
Indiana University
A Toolkit for Developmental Biology:
Intrinsically Disordered Protein, Alternative Splicing, and Post-translational Modification (IDP-AS-PTM)
Host: Andy Karplus 
February 1, 2017Liang Huang
OSU, Computer Science
Linear-Time Prediction of RNA Secondary Structures 
February 15, 2017Sue Biggins
Fred Hutchinson Cancer Research Center
How do cells get the right chromosomes?
Host: Michael Freitag 
March 7, 2017Special Seminar
4:00 – 5:00 pm
ALS 4001
Yuanchao Wang
Nanjing Agricultural University, China
Defense and counter-defense during Phytophthora infection
Host: Brett Tyler
March 15, 2017Aaron Wright
Pacific Northwest National Laboratory
Activity-based profiling of nutrient acquisition and metabolism in microbes and microbial communities
Host: Dave Myrold
Spring Term 2017
April 5, 2017Noah Fierer
University of Colorado Boulder
Searching for simplicity amidst the complexity of the soil microbiome
Host: Thomas Sharpton 
April 19, 2017Lisa Fauci
Tulane University
Explorations in the bio-fluid-mechanics of locomotion
Host: Juan Restrepo 
May 3, 2017John Reinitz
University of Chicago
From Drosophilidae to Sepsidae…and Back Again
Host: David Hendrix
May 17, 2017Laura Heiser
Oregon Health & Science University
An integrative systems biology approach to study therapeutic response in breast cancer
Host: Siva Kolluri
May 31, 2017June Medford
Colorado State University
Plant Synthetic Biology:  From Computational Protein Designs and Engineering Approaches comes a pathway to sustainable systems
Host: Molly Megraw

History of the Knudson Lecture Series

The Collins Pine Company established the Gene Knudson Lectures in Molecular Genetics in 1983 as a way to honor Gene Knudson for his many years of service to the company as a director. Knudson was intimately involved in the planning progress to develop programs in molecular genetics and materials science at Oregon State University. Creating this lectureship was seen by the University as a fitting way to pay tribute to Knudson and to help develop programs that would be beneficial to the entire state of Oregon.
 
Past lecturers have included:

  • Richard Lenski (2016)
  • Francis Martin (2013)  Event Poster
  • Peter and Rosemary Grant (2010) Event Poster
  • Susan Lindquist (2007)
  • Mario Capecchi (2005)
  • Victor Ambros (2003)
  • Russ Doolittle (1999)
  • Rich Roberts (1997)
  • Bud Ryan (1996)
  • Edwin Krebs (1995)
  • Sharon Long (1994)
  • Bruce Alberts (1993)
  • Nina Fedoroff (1992)
  • Paul Berg (1990)
  • Roger Beachy (1989)
  • Harold Varmus (1988)

Gene D. Knudson Biography

Gene D. Knudson was born in 1916 in Washtucna, Washington (near Pullman), to Andrew Christian and Eta Chapman Knudson. He graduated from high school in Weston, Oregon. He graduated with honors from the School of Forestry at Oregon State College in 1939 and then served in Europe as an artillery officer during the Second World War. He was awarded the Bronze Star and the French Croix de Guerre with silver star.
 
Knudson started his career in 1949 as chief forester of Willamette Valley Lumber Company, as Willamette Industries was then called. He earned successive promotions to logging manager, vice president for raw material supply, and executive vice president, and in 1970 became president and chief operating officer. He became chief executive officer in 1974, and was elected chair of Willamette’s board of directors in 1976. He retired from his position as CEO in 1981, and from the board chairship in 1984.
 
Knudson was a well-liked and respected chief. In 1984, in a letter to then-Forestry dean Carl Stoltenberg, Cathy Baldwin Dunn, corporate communications manager for Willamette Industries, wrote that Knudson was “universally loved and respected…a man of his word, a straight-shooter; extremely modest; highly intelligent yet a very practical thinker; …he likes people and knows how to manage them.” He was similarly esteemed by his peers in the wood-products industry.
 
Knudson served on the Oregon State Board of Forestry from 1961 to 1968; in 1961 he was influential in transferring the state’s forestry research program from the Department of Forestry to Oregon State University and placing it under the direction of the Dean of the College of Forestry. He was a member of the Forest Research Laboratory’s statutory Advisory Committee.
 
He served in leadership roles in many industry-related organizations, including the Oregon Logging Congress, Associated Oregon Industries and its legislative arm the Oregon Forest Industries Council, the Industrial Forestry Association, the National Forest Products Association, the Western Forestry and Conservation Association, and the Forest History Society.
 
For 25 years, he was on the board of Keep Oregon Green, a fire-prevention organization. He joined the board of Portland’s Western Forestry Center (now World Forestry Center) in 1973 and was president from 1983 to 1985. He was a member of the Society of American Foresters.
 
Knudson had strong ties to Oregon State University and built many warm relationships over the years with people at OSU. He was named a trustee of the OSU Foundation Board of Trustees in 1975 and joined the board’s fundraising committee in 1980. He served as the board’s president from 1981-83. He also served on the steering committee of the FourSight! Campaign, a major University effort to raise funds for four areas of the University including funds for materials science research programs.
 
A founding member of the OSU Presidents Club, Knudson gave generously to support several University programs including the Valley Library renovation, the OSU Research Council, and teaching and research in the College of Forestry.
 
Knudson received OSU’s Distinguished Service Award in 1985. In nominating him for this award, Dean Stoltenberg said, “Mr. Knudson has made generous and significant contributions through his behind-the-scenes sharing of managerial skills with public and non-profit organizations. And although not as widely recognized, his quiet, generous sharing of personal resources has inspired many others to give similarly…To every organization he has served, Gene Knudson brought leadership, respect, integrity, performance, and commitment.”
 
Gene Knudson passed away on April 9, 1998.

 

Fall Term 2015
September 30, 2015Steven Henikoff
Fred Hutchinson Cancer Research Center

High-resolution mapping of epigenome dynamics
Host: Molly Megraw
October 14, 2015Bruce McDonald
Dept of Environmental Systems Science
ETH ZurichThe genetic basis of pathogen adaptation in agroecosystems

Host: Nik Grunwald
October 28, 2015Eric Gouaux
Vollum Institute
Oregon Health & Science University
Principles of signal transduction at the chemical synapses of the brain
Host: Andy Karplus
Winter Term 2016
January 6, 2016Julie Pfeiffer
UT Southwestern Medical Center
How gut microbes enhance enteric virus infectivity
Host: Natalia Shulzhenko
January 20, 2016Weihong Qiu
OSU, Dept of Physics
Single-molecule studies of plant kinesin motor proteins
February 3, 2016Nathan Swenson
Department of Biology
University of Maryland
Transcriptomic analyses of tree communities: moving beyond functional traits and phylogenetic relatedness
Host: Andy Jones
February 17, 2016Marian Waterman
UC Irvine, Cancer Research Institute
Wnt Signaling in Stem Cells and Cancer
Host:  Chris Mathews
February 22, 2016Special Seminar2:00 – 3:00 pm
ALS 4001
Eugene Koonin
National Center for Biotechnology Information, NIH
Discovery of new genome editing systems and novel viruses by genome and metagenome mining
Host: Valerian Dolja
March 2, 2016David Hendrix
OSU, Dept of Biochemistry & Biophysics
School of Electrical Engineering & Computer Science Biological Discovery Through Bioinformatics: From Deep Sequencing to Deep Learning
March 8, 2016Special Seminar3:30 – 4:30 pm
ALS 4001
Frank Kempken
Christian-Albrechts-Universität zu Kiel, Germany
Secondary metabolites from marine and terrestrial fungi – genome analysis and biological function
Host: Michael Freitag
Spring Term 2016
March 30, 2016Knudson LectureRichard Lenski
Michigan State University
Host:  Brett Tyler
April 27, 2016Matthew Revington
University of Windsor
Structural and Dynamic Studies of Proteins using NMR
Host: Elisar Barbar
May 11, 2016Sara A. Courtneidge
Oregon Health & Science University
The Control of Invasion and Metastasis
Host:  Siva Kolluri
May 25, 2016Steven Almo
Albert Einstein College of Medicine
High-throughput Approaches for Enzyme Functional Annotation and Metabolism Discovery
Host:  Stephen Giovannoni