Publications

Below are some recent publications. For a full list of publications, see Benjamin Wolfe’s CV.

Kamelamela N, M Zalesne, J Morimoto, A Robbat, BE Wolfe. 2018. Indigo- and indirubin-producing strains of Proteus and Psychrobacter are associated with purple rind defect in a surface-ripened cheese. Food Microbiology in press

Jessica L. Cleary, JL, S Kolachina, BE Wolfe, LM Sanchez. 2018. Coproporphyrin III produced by the bacterium Glutamicibacter arilaitensis binds zinc and is upregulated by fungi in cheese rinds. mSystems in press

Zhang Y, EK Kastman, JS Guasto, BE Wolfe. 2018. Fungal networks shape dynamics of bacterial dispersal and community assembly in cheese rind microbiomes. Nature Communications 9:336

Wolfe, BE. 2018. Using cultivated communities to dissect microbiome assembly: challenges, limitations and the path ahead. mSystems 3:e00161-17-e00161-17

Bonham KS, Wolfe BE, Dutton RJ. 2017. Extensive horizontal gene transfer in cheese-associated bacteria. eLife. 6: e22144

Schaeffer R,C Wilson, L Radville, E Whitney, M Barrett, S Roitman, E Miller, BE Wolfe, C Thornber, C Orians, E Preisser. 2017. Individual and non-additive effects of exotic sap-feeders on root functional and mycorrhizal traits of a shared conifer host. Functional Ecology 31: 2024-2033

Fu X, SG Harshman, X Shen, DB Haytowitz, JP Karl, BE Wolfe, SL Booth. 2017. Multiple vitamin K forms exist in dairy foods. Current Developments in Nutrition 1: e000638

Morokuma J, FR Durant, KB Williams, JM Finkelstein, DJ Blackiston, T Clements, DW Reed, M Roberts, M Jain, K Kimel, SA Trauger, BE Wolfe, M Levin. 2017. Planarian regeneration in space: persistent anatomical, behavioral, and bacteriological changes induced by space travel. Regeneration  4: 85-102

Kastman, EK, N Kamelamela, J Norville, C Cosetta, RJ Dutton, and BE Wolfe. 2016. Biotic interactions shape the ecological distributions of Staphylococcus species. mBio 7(5):e01157-16.

Bokulich, N, JR Rideout, W Mercurio, A Shiffer, BE Wolfe, C Maurice, R Dutton, P Turnbaugh, R Knight, JG Caporaso. 2016. Mockrobiota: a public resource for microbiome bioinformatics benchmarking. mSystems 1(5): e00062-16

Karl, JP, X Fu, X Wang, Y Zhao, J Shen, C Zhang, BE Wolfe, E Saltzman, L Zhao, and SL Booth. 2015. Fecal menaquinone profiles of overweight adults are associated with gut microbiota composition during a gut microbiota–targeted dietary intervention. The American Journal of Clinical Nutrition: ajcn109496.

Wolfe, BE, and RJ Dutton. 2015. Fermented foods as experimentally tractable microbial ecosystems. Cell 161:49-55.

Wolfe, BE, JE Button, M Santarelli, RJ Dutton. 2014. Cheese rind communities provide tractable systems for in situ and in vitro studies of microbial diversity. Cell 158: 422-433.

Hess, J, I Skrede, BE Wolfe, K LaButti, RA Ohm, IV Grigoriev, and A Pringle. 2014. Transposable element dynamics among asymbiotic and ectomycorrhizal Amanita fungi. Genome Biology and Evolution 6: 1564-1578.

Lawrence, DA, CF Maurice, RN Carmody, DB Gootenberg, JE Button, BE Wolfe, AV Ling, S Devlin, M Fischbach, SB Biddinger, RJ Dutton, PJ Turnbaugh. 2014. Diet rapidly and reproducibly alters the human gut microbiome. Nature 505: 559-563.

Cheng-Chih H, MS ElNaggar, Y Peng, J Fang, LM Sanchez, SJ Mascuch, KA Møller, EK Alazzeh, J Pikula, RA Quinn, Y Zeng, BE Wolfe, RJ Dutton, L Gerwick, L Zhang, X Liu, M Mansson, and Pieter C. Dorrestein. 2013. Real-time metabolomics on living microorganisms using ambient electrospray ionization flow-probe. Analytical Chemistry 85: 7014−7018.

Wolfe, BE, RE Tulloss, and A Pringle. 2012. The irreversible loss of a decomposition pathway marks the single origin of an ectomycorrhizal symbiosis.  PLoS One 7(7): e39597.