Location & dates EMBL Heidelberg, Germany 16 - 19 Sep 2018
Deadlines Registration closed Abstract submission closed
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Programme

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Day 1 - Sunday 16 September 2018
TimeSpeaker
12:15 - 14:15

Arrival and Registration
with light refreshments

14:15 - 14:30
Opening Remarks
14:30 - 17:45

Session 1: Microbiome Technologies
Chair: Alice McHardy

14:30 - 15:00

The Human Microbiome Project and next steps in microbiome population studies
Curtis Huttenhower - Harvard University, United States of America

15:00 - 15:15

Bacterial communities within the intestinal mucus layer exhibit distinct spatial variation in composition and diversity
Kellyanne Duncan - Brown University, United States of America

15:15 - 15:30

Fusobacterium nucleatum (FN) visualization and quantification in colorectal cancer (CRC) using RNA in situ hybridization (ISH) and image analysis (IA)
Garazi Serna Alonso - Vall d'Hebron Institute of Oncology, Spain 

15:30 - 15:45

Cell wall lysis with Adaptive Focused Acoustics reveals hidden components of microbiome diversity
Shurjo Sen - National Institutes of Health, United States of America

15:45 - 16:15

Coffee Break and Meet the Speakers with:
Curtis Huttenhower - Harvard University, United States of America
Rob Knight - University of California, San Diego, United States of America
Gary Borisy - The Forsyth Institute, United States of America

16:15 - 16:45

Mapping the mammalian microbiome in 3D
Rob Knight - University of California, San Diego, United States of America

16:45 - 17:00

Genotyping microbes and mobile elements in the gut microbiome using Hi-C
Eitan Yaffe - Stanford University, United States of America

17:00 - 17:15

Experimental dissection of host- and microbiome-mediated metabolism to model drug pharmacokinetics and toxicity
Michael Zimmermann - Yale University, United States of America

17:15 - 17:45

Mapping the human oral microbiome at the micron scale
Gary Borisy - The Forsyth Institute, United States of America

17:45 - 19:00 Speed Networking Session in ATC Foyer
19:00 - 20:30 Dinner in EMBL Canteen 
20:30 - 23:00 Welcome Reception with Live Music by Blue Note Jazz Duo in ATC Foyer
Day 2 - Monday 17 September 2018
TimeSpeaker
09:00 - 12:00

Session 2: Challenges in Microbiome Bioinformatics
Chair: Rob Knight

09:00 - 09:30

Identifying subgenomic variation across the gut microbiota and unraveling its role in host metabolic health
Eran Segal - Weizmann Institute of Science, Israel

09:30 - 09:45

Strain profiling of bacterial species from metagenomic sequencing using Lasso regression
Donati Claudio - Edmund Mach Foundation, Italy

09:45 - 10:00

The dynamic landscape of human intestinal microbiota: a population-level view
Leo Lahti - University of Turku, Finland

10:00 - 10:30

Critical assessment of metagenome interpretation
Alice McHardy - Helmholtz Centre for Infection Research, Germany

10:30 - 11:00

Coffee Break and Meet the Speakers with:
Eran Segal - Weizmann Institute of Science, Israel
Alice McHardy - Helmholtz Centre for Infection Research, Germany
Christopher Quince - University of Warwick, United Kingdom

11:00 - 11:30

Resolving de novo strain variation from metagenomes for high resolution analysis of the human microbiome
Christopher Quince - University of Warwick, United Kingdom

11:30 - 11:45

Resolving the context of AMR genes
Sebastien Raguideau - University of Warwick, United Kingdom

11:45 - 12:00

Meta-analysis of colorectal cancer metagenomic studies
Jakob Wirbel - EMBL Heidelberg, Germany

12:00 - 13:15

Lunch and Meet the Editors in ATC Foyer
Penelope Austin – BioMedCentral, UK
Celine Carret - EMBO Molecular Medicine, EMBO Press, Germany
Nikla Emambokus - Cell Press, USA
Hannah Clark - Springer Nature, UK
Andrea Leibfried - Life Science Alliance – Journal, EMBO Press, Germany
Javier Martinez-Vesga - Springer Nature, Germany

13:15 - 17:15

Session 3: Host-microbiome Interactions
Chair: Jeroen Raes

13:15 - 13:45

Social microbes: microbiome as a key regulator of brain and behaviour
John Cryan - University College Cork, Ireland

13:45 - 14:00

Intestinal serotonin and antidepressant exposure regulate bacterial colonization in the gut
Thomas Fung - University of California, Los Angeles, United States of America

14:00 - 14:15

Global evolution of genomes and functions in the human gut microbiome
Mathieu Groussin - Massachusetts Institute of Technology, United States of America

14:15 - 14:30

Akkermansia muciniphila in fecal microbiota transplantation
Barbara Jelusic - Medical University of Graz, Austria

14:30 - 15:00

Origin of the human gut virome in early life
Frederic Bushman - University of Pennsylvania, United States of America

15:00 - 15:30

Coffee Break and Meet the Speakers with:
John Cryan - University College Cork, Ireland
Frederic Bushman - University of Pennsylvania, United States of America
Andrew Goodman - Yale University, United States of America
Elizabeth Grice - University of Pennsylvania, United States of America

15:30 - 16:00

Disentangling host and microbiome contributions to the production of a toxic drug metabolite
Andrew Goodman - Yale University, United States of America

16:00 - 16:15

Unexpected diversity of Prevotella copri lineages in the human gut and its loss in westernized populations
Adrian Tett - University of Trento, Italy

16:15 - 16:30

Neuroactive potential of the gut microbiota: a framework for gut-brain axis annotation from metagenomic data
Mireia Valles-Colomer - VIB-KU Leuven, Belgium

16:30 - 16:45

Host genetics and microbial impact on plasma metabolites and proteomics is linked to disease risk
Alexandra Zhernakova - University Medical Center Groningen, The Netherlands

16:45 - 17:15

Skin microbiome-host interactions: contributions to skin defense, inflammation and repair
Elizabeth Grice - University of Pennsylvania, United States of America

17:15 - 19:00

Poster Session I (odd numbers)
with beer and snacks

19:00 - 20:30 Dinner in EMBL Canteen 
20:30 - 23:00 After Dinner Drinks in ATC Rooftop Lounge
Day 3 - Tuesday 18 September 2018
TimeSpeaker
09:00 - 12:00

Session 4: Microbiome in Nutrition and Metabolism
Chair: Patrice Cani

09:00 - 09:30

Tackling metabolic health through diet-microbiome-host alliances
Yolanda Sanz - National Research Council, Spain

09:30 - 09:45

Diet and specific commensal microbes alter brain and behavior in a murine model of environmental enteropathy
Kylynda Bauer - University of British Columbia, Canada

09:45 - 10:00

The phylogeographic structure of the strain-level variation of the human oral microbiome  
Alexander Hübner - Max Planck Institute for Evolutionary Anthropology, Germany

10:00 - 10:30

Publishing Panel Discussion
Co-chairs: Peer Bork and Celine Carret
Nikla Emambokus - Cell Press, USA
Ella Hinson - Cell Host & Microbe, Cell Press, USA
Andrea Leibfried - Life Science Alliance – Journal, EMBO Press, Germany
Tal Nawy - Nature Methods, Germany
Nonia Pariente - Nature, UK
Maria Polychronidou - Molecular Systems Biology, EMBO Press, Germany

10:30 - 11:00

Coffee Break and Meet the Speakers with:
Yolanda Sanz - National Research Council, Spain
Fredrik Bäckhed - University of Gothenburg, Sweden

11:00 - 11:30 Mechanistic studies of the impact of the gut microbiome on obesity and type 2 diabetes
Fredrik Bäckhed - University of Gothenburg, Sweden
11:30 - 11:45 Bacterial microcompartments and glycyl radical enzymes in the human gut microbiome: a comparative genomic analysis
Dmitry Ravcheev - University of Luxembourg, Luxembourg
11:45 - 12:00 Red meat derived glycan alters gut microbiome: discovery of bacterial sialidases with novel substrate preferences
Livia Zaramela - University of California, San Diego, United States of America
12:00 - 13:15 Lunch and Meet the Editors in ATC Foyer
Ella Hinson - Cell Host & Microbe, Cell Press, USA
Nonia Pariente - Nature, UK
Maria Polychronidou - Molecular Systems Biology, EMBO Press, Germany
Tal Nawy - Nature Methods, Germany
Kevin Pang - Genome Biology, Springer Nature, USA
13:15 - 16:30

Session 5: Microbiome-mediated Therapies
Chair: Yolanda Sanz

13:15 - 13:45

Charting the drug-bug interaction landscape: towards personalized medicine 
Kiran Patil - EMBL Heidelberg, Germany

13:45 - 14:00

Human beta Defensin 2 is effective in the treatment of experimental colitis and is reversibly increasing microbiome diversity
Louis Koeninger - University Hospital Tübingen, Germany

14:00 - 14:15

Optimization of allosteric modulation of digestive enzymes and the potential impact in the gut microbiome
Ariane Menden - Roskamp Institute, United States of America

14:15 - 14:45

Using FMT to dissect causality in human cardiometabolic disease: from lead to cure
Max Nieuwdorp - Academic Medical Center, The Netherlands

14:45 - 15:15

Coffee Break and Meet the Speakers with:
Kiran Patil - EMBL Heidelberg, Germany
Patrice Cani - Université catholique de Louvain and WELBIO, Belgium
Max Nieuwdorp - Academic Medical Center, The Netherlands

15:15 - 15:45

Identification of novel beneficial microbes: from the bench to the bedside
Patrice Cani - Université Catholique de Louvain and WELBIO, Belgium

15:45 - 16:00 Computer-guided design of optimal microbial consortia for immune system modulation
Richard R Stein - Dana-Farber Cancer Institute, United States of America
16:00 - 16:30

Flash Talks Session
Ranko Gacesa (abstract no. 94) - University Medical Center Groningen, University of Groningen, The Netherlands
Serena Manara (abstract no. 138) - University of Trento, Italy
Stefan Panaiotov (abstract no. 153) - National Center of Infectious and Parasitic Diseases, Bulgaria
Scarlett Puebla-Barragán (abstract no. 162) - University of Western Ontario, Canada
Jakob Stokholm (abstract no. 176) - University of Copenhagen, Denmark
Vincent Thomas (abstract no. 187) - BIOASTER, France
Pascale Vonaesch (abstract no. 197) - Institut Pasteur, France
Wei-Kai Wu (abstract no. 204) - National Taiwan University, Taiwan
Zhe Zhang (abstract no. 211) - BGI-Shenzhen, China
Romy Zwittink (abstract no. 213) - Leiden University Medical Center, The Netherlands

16:30 - 18:30

Poster Session II (even numbers)
with beer and snacks

18:30 - 20:30 Conference Dinner in EMBL Canteen 
20:30 - 00:00 Conference Party with Live Band by The Taylor Brothers in ATC Foyer 
Day 4 - Wednesday 19 September 2018
TimeSpeaker
09:00 - 12:45

Session 6: Human Microbiome and Infections
Chair: Manimozhiyan Arumugam 

09:00 - 09:30

Microbiota-mediated defense against infection with antibiotic-resistant intestinal pathogens
Eric Pamer - Memorial Sloan Kettering Cancer Center, United States of America

09:30 - 09:45

Strain-level and functional characterization of supragingival microbiome associated with dental caries in children
Divyashri Baraniya - Temple University, United States of America

09:45 - 10:00

HIV-associated gut microbiome differences are dependent on host context
David B Gootenberg - Ragon Institute of MGH, MIT, and Harvard, United States of America

10:00 - 10:15

The biogeography of the human eye microbiota
Jerome Ozkan - University of New South Wales, Australia

10:15 - 10:45

Drug:Microbe interactions in HIV transmission
Nichole Klatt - University of Miami, United States of America

10:45 - 11:15

Coffee Break and Meet the Speakers with:
Eric Pamer - Memorial Sloan Kettering Cancer Center, United States of America
Nichole Klatt - University of Miami, United States of America
Katherine Lemon - The Forsyth Institute, United States of America
Andreas Peschel - University of Tübingen, Germany

11:15 - 11:45

Nose picking for progress: mining the nasal microbiome for new insights into pathobionts
Katherine Lemon - The Forsyth Institute, United States of America

11:45 - 12:00

Integrative systems analysis of host-fungal pathogenicity interactions
Stefania Vaga - King's College London, United Kingdom

12:00 - 12:15

Obtaining natural antibiotic-producing microbes from tonsillar microbiomes via culturomics
Peter van Baarlen - Wageningen University and Research, The Netherlands

12:15 - 12:45

Facultative pathogens in human microbiomes – fighting the enemy within
Andreas Peschel - University of Tübingen, Germany

12:45 - 13:00 Poster Prize and Closing Remarks
13:00 Packed Lunch and Departure