in partnership between
TMIC and the Metabolomics Society
Issue 64 - December 2016
Metabolomics Society News
Web link to book: http://www.springer.com/gp/book/9783319463247
|Assistant Professor of Epidemiology in
the Department of Environmental Health Sciences at
Yale School of Public Health, USA
Caroline H. Johnson, PhD, is Assistant Professor of Epidemiology in the Department of Environmental Health Sciences at Yale School of Public Health. She graduated from Imperial College London in 2009 with a PhD in Analytical Chemistry. Since then she has held postdoctoral and staff appointments at the National Cancer Institute and The Scripps Research Institute.
Dr. Johnson's research uses mass spectrometry-based metabolomics to understand the role of metabolites in human health. Her primary research interest is to investigate the relationship between genetic and environmental influences (diet, microbiome) in colon cancer. She is also examining human exposure to chemicals in artificial turf, and chemical exposure during pregnancy.
|CJ: My lab at Yale School of Public
Health is particularly interested in examining the
influence of microbial metabolites in colon cancer (http://medicine.yale.edu/lab/cjohnson/).
Colon cancer is propagated by a series of genetic
mutations, but the environmental diversity in the colon
influence carcinogenesis and therapeutic response,
therefore making it a fascinating disease to study. One
of the most exciting discoveries I made revealed a
symbiosis between host cancers and bacterial biofilms
(large aggregates of bacteria that anchor into colonic
mucosa). Using four different types of metabolomic
platforms (untargeted, targeted, imaging and untargeted
stable isotope analysis), pathway analysis and
orthogonal biological analysis, I showed that
metabolites produced by the cancer cells were used by
bacteria to build biofilms. These biofilms induced a
procarcinogenic state in the host tissues evidenced by
increased proliferation and inflammation. Thus causing a
vicious cycle of cancer and biofilm growth.
Interestingly these biofilms predominantly occurred in
right-sided colon cancers (proximal to hepatic flexure),
which is an area of the colon known to have poorer
clinical outcomes for the patient . Building
on this work, we are now examining the influence of
microbial metabolism in left and right-sided colon
|30 Nov 2016
Renowned Scientist Joins Nutrition Research Institute
Susan Sumner, PhD joins the UNC Nutrition Research Institute (NRI) on December 1, 2016, as a Professor of Nutrition. Dr. Sumner is working to make personalized medicine a reality through metabolomics. Metabolomics involves measuring thousands of metabolites in cells, tissues, and biological fluids. This approach can provide a more comprehensive view of an individuals’ metabolism than the limited measurements (such as glucose and cholesterol) that doctors employ today. Using metabolomics, Dr. Sumner assesses differences in the metabolic profile of individuals that correlate with states of wellness or disease. She is also conducting laboratory studies to identify responses to treatment in areas such as obesity, drug-induced liver injury, infectious disease, and reproductive and developmental biology.
For the past 12 years, Dr. Sumner has worked at the Research Triangle Institute as a Senior Scientist, and the PI/director of the NIH Common Fund Eastern Regional Comprehensive Metabolomics Resource Core (ERCMRC). Her research involves projects designed to identify biomarkers for the early detection of disease, to monitor disease progression or therapeutic intervention, and to gain insights into mechanisms of response. Dr. Sumner has also served as the PI of a National Institute of General Medical Sciences grant that used metabolomics to reveal noninvasive markers of drug-induced liver injury. She has lead research efforts using metabolomics to reveal mechanistic insights related to the impact of environmental exposure in utero or early in life on reproductive and developmental outcomes. She also serves as a PI for NIEH-funded basic research that involves estimating human health risks from exposure to nanoparticles.
“My expertise in using metabolomics in studies of obesity, diet, smoking, cancer, diabetes, cognitive development, liver disease, maternal and child health, and the environmental influence of disease complements the nutrigenomics research at the UNC Nutrition Research Institute,” said Dr. Sumner. “Metabolomics provides a means to determine the link between genes and nutrition requirements, and to understand how nutrition impacts gene function. In addition to contributing metabolomics expertise to NRI projects, my team will expanded studies in the areas of human variation in metabolism, maternal and child health, diabetes, and kidney disease.”
Director Steven H. Zeisel, MD, PhD said, “The UNC NRI is leading the way at the frontiers of nutrition research, developing the science behind personalized nutrition. Dr. Sumner brings to us the ability to see what is happening in our bodies by broadly measuring the results of all of metabolism. Combined with our ability to study genes, we now have powerful new ways to see what we could not see before regarding nutrition and health.”
With Dr. Sumner’s arrival in Kannapolis, the NRI will be home to the Eastern Regional Comprehensive Metabolomics Research Core. This is one of six centers in the United States that work together to establish national standards for metabolomics, to provide training, and to increase national metabolomic capacity in clinical and translational research.
|18 Nov 2016
Announcing the Launch of EmTraG
The European Metabolomics Training Coordination Group (EmTraG) was formed in 2016 by scientists with a passion for training in metabolomics. It was created to address the considerable need to harmonise the rapidly expanding portfolio of metabolomics training courses in Europe. EmTraG’s mission is to harmonise metabolomics training across Europe in order to improve its scientific coverage, geographical reach, quality and impact, thereby empowering the next generation of analytical, computational and applied metabolomics scientists. EmTraG will seek close harmonisation with ELIXIR (and the ELIXIR Training Platform) at a European level and the Metabolomics Society at an international level. We intend that www.EmTraG.eu will serve as the principal European web portal for training associated with metabolomics science. EmTraG was launched on 21-22 July 2016 at a workshop at the University of Birmingham, UK, with 17 attendees from 5 countries. The workshop was funded by ELIXIR-UK.
EmTraG Press Release [PDF]
|15 Nov 2016
Metabolomic Technologies' Lu Deng Receives Canada's National Award for Commercialization
Mitacs & National Research Council-IRAP Award for Commercialization: Lu Deng, a postdoctoral fellow who studied at the University of Alberta’s Department of Computing Science and Biological Sciences. During her Mitacs Elevate fellowship with Edmonton-based Metabolomic Technologies Inc. (MTI), Lu developed a low-cost urine test, PolypDx, to effectively screen for polyps, the precursor to colon cancer.
Her work, which successfully transferred the test from expensive, highly specialized equipment to a mass-spectrometer — the technology commonly used in medical laboratories across North America — directly contributed to the successful launch of the product in the U.S. in May of this year. Lu accepted a full-time senior scientist position at MTI after completing her Mitacs fellowship.
Watch the video acceptance speech.
Source: Mitacs News Release
|8-10 Dec 2016
On behalf of the steering
committee, the Institute of
Cardiometabolism and Nutrition
(ICAN) is delighted to invite you to
the fourth ICAN Conference Series on
Precision Medicine in
Nutrition-related Diseases, which
will take place in Paris, France,
from December 8-10, 2016.
For further details, visit http://www.ican-series.com/.
|12-13 Dec 2016
Quality Assurance and Quality Control in Metabolic Phenotyping
Venue: Birmingham Metabolomics Training Centre, School of Biosciences, University of Birmingham, Birmingham, UK
This 2-day course will provide a comprehensive overview of the application of quality assurance (QA) and quality control (QC) in metabolic phenotyping. The course is aimed at students and researchers who are actively working in the field. Experts who have developed the application of QA and QC procedures within the field will lead the course. It will include both theoretical and practical components to
For further information and registration details, please visit http://www.birmingham.ac.uk/facilities/metabolomics-training-centre/courses/quality-phenotyping.aspx or contact firstname.lastname@example.org.
|23-27 Jan 2017
Hands-on NMR for Metabolic Phenotyping
Venue: Imperial College London, South Kensington, London, UK
This week long course aims to cover how to perform a metabolic profiling experiment, from start to finish. It will cover study design, sample preparation, NMR spectrometer set up for global profiling, 2-dimensional NMR experiments and spectral data analysis.
It combines lectures and tutorial sessions to ensure a thorough understanding of the theory and practical applications. Topics covered include:
or contact Rebecca Smith (email@example.com) for further information.
|10-14 Feb 2017
Venue: Hilton El Conquistador Resort, Tucson, Arizona, USA
The Phenome 2017 conference is an important step in the development of a path toward training and collaboration among disciplines that are poised to address critical social issues and to generate greater understanding about plants and climate change. This first conference will bring together a multidisciplinary community comprising plant biologists, ecologists, engineers, agronomists, and computer scientists.
Please share this flyer with your members of your department and encourage your students to register to attend the meeting. Highly relevant abstracts submitted by November 1 may be considered to give a talk during one of the sessions.
Please visit www.phenome2017.org to register and learn more about the meeting.
|13-17 Feb 2017
EMBO Practical Course on Metabolomics Bioinformatics for Life Scientists
Venue: European Bioinformatics Institute (EMBL-EBI) - Training Room 2 - Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, United Kingdom
Application opens: Monday August 08 2016
Application deadline: Friday November 11 2016
Participation: Open application with selection
Contact: Maria Bacadare Goitia
Registration fee: £350
This course will provide an overview of key issues that affect metabolomics studies, handling datasets and procedures for the analysis of metabolomics data using bioinformatics tools. It will be delivered using a mixture of lectures, computer-based practical sessions and interactive discussions. The course will provide a platform for discussion of the key questions and challenges in the field of metabolomics, from study design to metabolite identification.
This course is aimed at PhD students, post-docs and researchers with at least one year’s experience in the field of metabolomics who are seeking to improve their skills in metabolomics data analysis. Participants ideally must have working experience using R (including a basic understanding of the syntax and ability to manipulate objects).
For more information, please visit https://www.ebi.ac.uk/training/events/2017/embo-practical-course-metabolomics-bioinformatics-life-scientists-3.
|11-13 May 2017
Metabolism in Time and Space: Emerging Links to Cellular and Developmental Programs
Venue: EMBL Heidelberg, Germany
T. Alexandrov, A. Aulehla, P. Dorrestein, O. Leyser, S. McKnight, N. Perrimon
Stay up to date! Add this event
easily to your calendar by
For more information, visit http://www.embo-embl-symposia.org/symposia/2017/EES17-01/index.html
|17-18 May 2017
Conference on Food and Nutritional Metabolomics for Health
Venue: The Ohio State University, Columbus, OH, USA
The purpose of this two-day event is to disseminate state-of-the-art knowledge in the field of food and nutritional metabolomics and foster networking and collaboration among colleagues and industry partners.
For more information please visit: https://discovery.osu.edu/focus-areas/foods-for-health/events/conference-2017.html.
|29 May to 2 June
Workflow4Experimenters International Course (W4E2017)
Venue: Paris, France
Save the date! Analyze your data with Galaxy and the Workflow4metabolomics e-infrastructure! The next Workflow4Experimenters international course (W4E2017) will take place in Paris (May 29 to June 2, 2017). During this one-week course (entirely in English), you will learn how to use the W4M infrastructure and analyze your own LC-MS, GC-MS, or NMR data. Morning sessions will be dedicated to methodology and tools. Afternoon sessions will be devoted to tutoring.
Invited speakers: Tim Ebbels (Imperial College), Steffen Neumann (IPB Halle), and Ralf Weber (Birmingham University).
Registrations will open on January 3, 2017 (http://workflow4metabolomics.org).
|26-29 June 2017
Venue: Brisbane, Australia
The 13th Annual International Conference of the Metabolomics Society will be held in Brisbane from June 26-29, 2017. Check back for updates in the coming months at http://metabolomics2017.org.
This is a resource for
advertising positions in metabolomics. If
you have a job you would like posted in this
newsletter, please email Ian Forsythe (firstname.lastname@example.org).
Job postings will be carried for a maximum
of four issues (eight weeks) unless the
position is filled prior to that date.
Chemometric Modelling of Sensory
||Wageningen University & Research||Wageningen, Netherlands||6-Dec-2016|| 2-Jan-2017
Wageningen University & Research
(click to apply)
||Edith Cowan University||Perth, Australia||3-Dec-2016||22-Jan-2017||
Fellow (Biochemist/Analytical Chemist)
||Edith Cowan University||Perth, Australia||3-Dec-2016||22-Jan-2017||Edith Cowan University|
||University of Florida||Gainesville, FL, USA||2-Dec-2016||9-Dec-2016||University of Florida|
Research Fellow (in Mass Spectrometry
||University of Birmingham||Birmingham,
||1-Dec-2016||4-Jan-2017||University of Birmingham|
Research Fellow (in NMR Metabolomics)
||University of Birmingham||Birmingham, UK||1-Dec-2016||3-Jan-2017||University of Birmingham|
(f/m) in the field of bioinformatics
of plant communities and
||German Centre for Integrative Biodiversity Research (iDiv) at the Leibniz Institute of Plant Biochemistry||Halle, Germany||1-Dec-2016||1-Jan-2017||German Centre for Integrative Biodiversity Research (iDiv)|
|Field Application Specialist Metabolomics-Mass Spectrometry||BIOCRATES Life Sciences AG||East Coast, USA||25-Nov-2016||
in the functional metabolomics of
in the functional metabolomics of
lipid mediators in chronic respiratory
||Karolinska Institutet||Stockholm, Sweden||14-Nov-2016||2-Jan-2017||
|PhD Project "Minimal
invasive biomarkers for the
personalized treatment of neonatal
Hypoxic-Ischemic Encephalopathy (HIE)"
||Health Research Institute of Hospital La Fe||Valencia,
||La Caixa and the European Union; search for "Minimal invasive biomarkers for the personalized treatment of neonatal Hypoxic-Ischemic Encephalopathy (HIE)"|
||Oklahoma Medical Research Foundation||Oklahoma City, Oklahoma, USA||7-Nov-2016||Until filled||Metabolomics Society|
||Mount Sinai Health System||New York City, New York, USA||4-Nov-2016||Until filled||Metabolomics Society|
Chemist, Research Fellow
||Biological Research Centre||Szeged, Hungary||4-Nov-2016||16-Dec-2016||Metabolomics Society|
||Centro Cardiologico Monzino||Milan, Italy||26-Oct-2016||Until filled||Metabolomics Society|
Associate Position Available,
NMR-Based Metabolomics Core Laboratory
||Cincinnati Children’s Hospital Medical Center||Cincinnati, Ohio, USA
||Cincinnati Children’s Hospital Medical Center|
||Philip Morris International (PMI)||Neuchatel, Switzerland||14-Oct-2016|| 1-Jan-2017
Ian J. Forsythe Double AB, MSc
Department of Computing Science
University of Alberta
221 Athabasca Hall
Edmonton, AB, T6G 2E8, Canada
This newsletter is published in partnership between The Metabolomics Innovation Centre (TMIC, http://www.metabolomicscentre.ca/) and the Metabolomics Society (http://www.metabolomicssociety.org) for the benefit of the worldwide metabolomics community.