U.S. Department of Health and Human Services

Workshop on Best Practices for Studies of Diet and the Intestinal Microbiome

6/13/2017 12:00 AM
6/14/2017 12:00 AM

Program Content

Chris Lynch, Ph.D.
Office of Nutrition Research
T: 301-827-3988
E: christopher.lynch@nih.gov

Meeting Logistics

Nadine Kessler
E: Diet-Microbiome-Workshop@ars.usda.gov

Natcher Conference Center (Balcony C)

Event Details


Many studies of the intestinal microbiome, whether in vitro, in animal models, or in humans report only minimal information on dietary components even though there is substantial evidence that diet modulates composition of the microbiota. Although many aspects of microbiome studies show improved quality control over time, this has not always extended to diet.

Meeting Objectives

The purpose of this workshop is to improve rigor and reproducibility in research on the colonic microbiome, identify important dietary information that should be reported and parameters to consider in design of studies, particularly for clinical studies on diet and the intestinal microbiome. A summary for the research community will be published in a peer-reviewed journal.

Organizing Committee

Christopher Lynch, Office of Nutrition/NIH
Cindy Davis, Office of Dietary Supplements/NIH
Robert Karp, NIDDK/NIH
David Klurfeld, Agricultural Research Service/USDA


USDA/Agricultural Research Service
International Life Sciences Institute

Registration Deadline

Registration Is FULL;
In-person registration is FULL;
Registration for web-ex participation is FULL.​


June 13, 2017

8:45 a.m. – 9:00 a.m. Welcome and Introductions
David​ Klurfeld, USDA ARS
Gregory G. Germino, M.D., Deputy Director, NIDDK

Session I

Characterization of dietary fibers and other nutrients that feed the microbiome

9:00 a.m. – 9:35 a.m. Keynote Talk: Chemical and physical characteristics of dietary fibers that affect their utilization by the gut microbiota and the host
George Fahey, University of Illinois
9:45 a.m. – 10:05 a.m. The broad range of structures of dietary fibers and their specificity to bacterial fermentation
Bruce Hamaker, Purdue University
10:15 a.m. – 10:35 a.m. Fiber-microbiome effects on health and disease: connecting real foods with specific microbial responses
Eric Martens, University of Michigan
10:45 a.m. – 11:00 a.m. Break

Session II

Animal Models

11:00 a.m. – 11:35 a.m. Keynote Talk: Diet-microbiota dynamics: leveraging animal models to hasten translatable discovery
Justin Sonnenburg
11:45 a.m. – 12:05 p.m. The role of gut microbial and host circadian rhythms in metabolic health and disease
Eugene Chang, University of Chicago
12:15 p.m. – 1:15 p.m. Lunch
1:15 p.m. – 1:35 p.m. Prebiotic action of food polyphenols on gut microbiota to alleviate obesity-linked inflammatory diseases
Andre Marette, University of Laval
1:45 p.m. – 2:05 p.m. Food additives and microbiota interactions in the etiology of intestinal inflammation
Benoit Chassaing, Georgia State University
2:15 p.m. – 2:35 p.m. Utility of Non-Rodent Models for Gastrointestinal Microbiome Research
Kelly Swanson, University of Illinois
2:45 p.m. – 3:00 p.m. Break
3:00 p.m. – 4:30 p.m. General Discussion on nutrients affecting microbiome and animal models

June 14, 2017

8:45 a.m. – 9:00 a.m. Welcome and Introductions
David Klurfeld, USDA ARS
Griffin P. Rodgers, M.D., M.A.C.P., Director, NIDDK

Session III

In Vitro Models

9:00 a.m. – 9:20 a.m. Culturing gut microbial ecosystems in vitro: using bioreactors as model systems
Emma Allen-Vercoe, University of Guelph
9:30 a.m. – 9:50 a.m. Effect of host diet on fecal fermentation outcomes
Devin Rose, University of Nebraska
10:00 a.m. – 10:30 a.m. General Discussion on in vitro models
10:30 a.m. – 10:45 a.m. Break

Session IV

Human Studies

10:45 a.m. – 11:20 a.m. Keynote Talk: Impact of diet on the human gut microbiome and its metabolome: relevance to health and disease
Gary Wu
11:30 a.m. – 11:50 a.m. What are the ideal fiber requirements for humans?
Stephen O’Keefe, University of Pittsburgh
12:00 p.m. – 12:20 p.m. Effect of diet on gut microbiota
Maria Saarela, VTT Finland
12:30 p.m. – 1:30 p.m. Lunch
1:30 p.m. – 1:50 p.m. Nutrients vs diets: using controlled feeding studies to evaluate diet-microbiome interactions in humans
Johanna Lampe, Fred Hutchinson Cancer Center
2:00 p.m. – 2:20 p.m. Beyond dietary fiber: foods, food additives, and supplements that alter gut bacteria
Joanne Slavin, University of Minnesota
2:30 p.m. – 2:50 p.m. Regulatory considerations in diet and microbiome studies
Barbara Schneeman, FDA (retired)
3:00 p.m. – 4:30 p.m. General Discussion: identification of critical dietary issues for design and reporting, terminology (e.g., fiber, prebiotics), research gaps that should be addressed in all studies of diet and gut microbiome, any issues remaining from previous discussions. Challenges in relating models to human situation.


Hotel Accommodations

Bethesda Marriott Hotel
5151 Pooks Hill Road
Bethesda, MD  20814

Attendees will be responsible for their own travel arrangements and expenses.

To reserve a room under the room block at the Bethesda - Pooks Hill Marriott, please use this URL:


The room block will be available until April 20, 2017, or until full. Shuttle service to the NIH campus will be available.

For attendees who plan to stay for the George Vahouny Dietary Fiber Symposium on June 15-16, 2017, the same rate is available at the Bethesda North Marriott, 5701 Marinelli Rd., North Bethesda, MD. This hotel is two Metro stops north of the NIH campus on the Red Line.

Reservation Dates

Book arrival on Monday, June 12, 2017, and departure on Wednesday, June 14, 2017.

NIH Visitor Information 

Information on visiting the NIH, campus maps, shuttle schedules, driving directions, security, and more can be found on the NIH Visitor Information page.​


Minutes are currently unavailable.


Attendees are currently unavailable.


Abstracts are currently unavailable.


  • NIH Campus
  • Building 45
  • MD 20894



Program Content

Chris Lynch, Ph.D.
Office of Nutrition Research
T: 301-827-3988
E: christopher.lynch@nih.gov

Meeting Logistics

Nadine Kessler
E: Diet-Microbiome-Workshop@ars.usda.gov