Research & Publications
Extensive Research Description
Microbial metabolites and colon cancer
Colon cancers that present on the right versus the left side of the colon have significantly worse prognosis for the patient. A recent discovery revealed that right-sided colon cancers (RCCs) harbor mucosal bacterial biofilms, whereas left-sided colon cancers (LCC) are predominantly devoid of biofilms. These biofilms are associated with increased cellular proliferation and inflammation even in normal colon tissues. Using mass spectrometry-based metabolomics, we investigated the metabolism of colon cancers with and without biofilms, and observed a correlation between increased diacetylspermine production and biofilm presence on RCCs. Using antibiotic treatment, IHC, and stable isotope-assisted metabolomics we showed that diacetylspermine is an end product of polyamine metabolism produced by bacterial biofilms. We thus hypothesized that microbiota use host-derived polyamines to form biofilms. It is still not known why biofilms only form only on RCC, but it could be due to other factors such as diet and genetic predisposition.
Therefore, we aim are to examine the influence of these factors in LCC and RCC pathogenicity by investigating the roles of dietary metabolites, microbial communities and genetic predisposition.
Identifying the biological effects of exposures
In the Johnson Lab, we use metabolomics to simultaneously analyze both exogenous chemicals, their metabolites, and changes to the endogenous metabolome to allow assessment of exposures and their biological impact. We also adjust for confounding using epidemiologic techniques, as shared factors could influence the metabolome and exposure measured. We are using this framework within various projects outlined below:
Peri-conception exposures and effects on the urinary metabolome
Conception is a critical window for female reproductive function, and environmental exposures may influence fertility. Using a metabolome-wide association study (MWAS) framework, we are investigating how parabens modulate the urinary metabolome of women attempting to conceive, to provide insight into mechanisms that may underlie the biological effects of these exposures.
We also discovered that changes to kidney function across the menstrual cycle can impact urine metabolite concentration, therefore we assessed different post-acquisition normalization approaches to identify the optimal method for urinary metabolomics. Our published data shows that either specific gravity or probabilistic quotient normalization are reliable methods to adjust for urinary concentration.
Dried blood spots are a window to early-life exposures that contribute to later-life cancers
Early-life exposures can have biological effects that lead to later-life adverse outcomes such as cancer. Dried blood spots (DBS) have been collected in large populations for decades, to screen infants for congenital metabolic disorders, however they represent an untapped resource for studies in epidemiology and population sciences. Metabolomics analysis of DBS from newborns provides the opportunity to measure both environmental exposures and metabolic perturbations simultaneously, offering both biomarkers of exposure and biological effect to gain insight into mechanisms of later life diseases.
No consensus exists for the optimal method for metabolite normalization in DBS untargeted LC-MS-based metabolomics. To address this issue and setup a robust experimental protocol for DBS metabolomics, we assessed the performance of various normalization methods. We identified that normalization using hemoglobin (Hb) is the best method. We also introduced a novel role of specific gravity as a predictor of Hb in DBS.
Environmental Exposure; Mass Spectrometry; Metabolomics; Biostatistics
Public Health Interests
Biomarkers; Cancer; Environmental Health; Genetics, Genomics, Epigenetics; Maternal & Child Health; Women's Health; Microbiome; Metabolomics; Perinatal/Prenatal Health