A pair of recent papers from the lab were highlighted for the creative use of DNA metabarcoding to solve problems and ask new questions in fields that span ecology and biomedical science.
1. Our recent paper documenting variation in diet-microbiome linkages in African megafauna was highlighted on the cover of PNAS, Brown University's news, The Division of Biomedicine's 'Kudos' memo, and in the media. This open access paper reflects the results of a long-term collaboration with Rob Pringle from Princeton, Paul Musili from the National Museums of Kenya, a creative honors thesis by Julianna Hsing, and the microbiome-bioinformatics chops of current grad student Bianca Brown.
2. Our recent paper in mSystems creatively translated the DNA metabarcoding approaches that we've been using for wildlife research into a biomedical context to evaluate the plant component of human diets. Using DNA-based evidence of human diet composition could be highly complementary to the current standard of asking human subjects to maintain diet logs in research on human health and nutrition. The paper was highlighted as Editor's pick in the area of Clinical Science and Epidemiology by the journal, as well as in a thoughtful commentary by Frank Maixner, who further highlighted the connections between this work and the fields of archaeology and ancient DNA. The paper was co-led by Aspen Reese based on samples from a prior experimental study investigating the influences of diet interventions on human gut microbiomes, which was led by Lawrence David.
The full text of this exciting new paper is online today: Feeding immunity: physiological and behavioral responses to infection and resource limitation. The article appears in a special feature of Frontiers in Immunology entitled Wild immunity -- the answers are out there. Congratulations to Sarah Budischak, Andrea Graham, and coauthors!
One of the most exciting aspects of this paper is the idea of "rewilding laboratory mice" to begin understanding the ecology of this model organism in genetics and medicine. What happens when lab mice are infected with an intestinal parasite, put outside, and tasked with surviving in a world with limited resources?
Add on top of that all of the exciting technology brought together to probe this creative experiment for mechanism -- PIT tags, DNA metabarcoding, NMR spectroscopy -- and you've got the makings of a classic. In this experiment, custom-built feeding devices capable of tracking foraging behavior, paired with DNA metabarcoding, revealed compensatory feeding behaviors by mice that otherwise might have masked the effects of infection.
Especially relevant to research in our lab, a hormone called leptin that serves as an indicator of hunger and body fat was correlated with consumption of different species of wild plants. Animals with higher leptin concentrations tended to eat more protein-rich clovers and other legumes than did animals with lower leptin, potentially pointing to different foraging behaviors and differential selectivity for wild foods as mechanisms for dealing with infection while reestablishing a dietary niche after generations in the laboratory. Although the effect sizes for the DNA metabarcoding data were small, these tantalizing trends highlight the importance of these measurements and the value of the technique. A valuable contribution.
Proud to contribute to a paper by Adam Pellegrini and coauthors that was just published in Ecology Letters: "Convergence of bark investment according to fire and climate structures ecosystem vulnerability to future change" (PDF).
Our work finds that some ecosystems contain tree species that are well adapted to the predicted changes in global fire regimes due to climate change, while others are composed of trees that may be particularly vulnerable. The paper was highlighted on Princeton's homepage and in Nature News!