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  1. Rosin, Samuel, Xia, Kai, Azcarate-Peril, M Andrea, Carlson, Alexander L, Propper, Cathi B, Thompson, Amanda L, Grewen, Karen, Knickmeyer, Rebecca C. (2020) A Preliminary Study of Gut Microbiome Variation and HPA Axis Reactivity in Healthy Infants. Psyconeuroendocrinology. 2020 Nov 12;124:105046.
  2. Emami-Khoyi, Arsalan, Benmazouz, Isma, Paterson, Adrian M, Ross, James G, Murphy, Elaine C, Bothwell, Jennifer, Alizadeh, Hossein, van Vuuren, Bettine Jansen, Teske, Peter R. (2020) Oral microbiome metabarcoding in two invasive small mammals from New Zealand. Diversity 2020, 12(7), 278
  3. Sasada, Ryan., Weinstein, Michael., Danko, David., Wolfe, Elaine., Tang, Shuiguan.,Jarvis, Karen., Grim, Christopher., Lagishetty, Venu., Jacobs, Jonathan., Arnold, Jason., Kemp, Ryan., Mason, Christopher. (2020) Progress towards standardizing metagenomics: Applying metagenomic reference material to develop reproducible microbial lysis methods with minimum bias. J Biomol Tech. 2020 Aug; 31(suppl): S30-S31.
  4. Trippe, Leslie H, Ribeiro, Apoena Aguiar, Azcarate-Peril, M Andrea, Preisser, John S, Wang, Rujin, Zandona, Andrea Ferreira (2020) Is Fluorescence Technology a Promising Tool for Detecting Infected Dentin in Deep Carious Lesions? Caries Res. 2020;54(3):205-217. doi:10.1159/000505643. Epub 2020 Jun 24.
  5. Dugyala, Supritha, Ptacek, Travis S, Simon, Jeremy M, Li, Yuhui, Fröhlich, Flavio.(2020) Putative modulation of the gut microbiome by probiotics enhances preference for novelty in a preliminary double-blind placebo-controlled study in ferrets. Animal Microbiome 2020;2:14. doi: 10.1186/s42523-020-00030-y. Epub 2020 May 5.
  6. Marsh, Alan J, Yaya, Al-Mounawara A, Ng, Sandy, Chandrashekhar, Kshipra, Roach, Jeff, Magness, Scott T, Azcarate-Peril, M Andrea. (2020) Lumen and mucosa-associated Lactobacillus rhamnosus from the intestinal tract of organ donors. Gut Microbiome, Volume 1, 2020, e4, Cambridge University Press.
  7. Divaris, Kimon, Slade, Gary D, Ferreira Zandona, Andrea G, Preisser, John S, Ginnis, Jeannie, Simancas-Pallares, Miguel A, Agler, Cary S, Shrestha, Poojan, Karhade, Deepti S, Ribeiro, Apoena de Aguiar. (2020) Cohort Profile: ZOE 2.0—A Community-Based Genetic Epidemiologic Study of Early Childhood Oral Health. International Journal of Environmental Research and Public Health. 2020 Nov 1;17(21):8056. doi:10.3390/ijerph17218056.
  8. Chey, William, Sandborn, William, Ritter, Andrew J, Foyt, Howard, Azcarate-Peril, M Andrea, Savaiano, Dennis A. (2020) Galacto-Oligosaccharide RP-G28 Improves Multiple Clinical Outcomes in Lactose-Intolerant Patients. 2020 Apr 10;12(4):1058. doi: 10.3390/nu12041058.
  9. Koutzoumis, Dimitri N, Vergara, Macarena, Pino, Jose, Buddendorff, Julia, Khoshbouei, Habibeh, Mandel, Ronald J, Torres, Gonzalo E. (2020) Alterations of the gut microbiota with antibiotics protects dopamine neuron loss and improve motor deficits in a pharmacological rodent model of Parkinson’s disease. Experimental Neurology 2020 Mar;325:113159. doi:10.1016/j.expneurol.2019.113159.Epub 2019 Dec 13.
  10. Desrosiers, Matthew R, Mittelman, Alexis, Weathers, Pamela J. (2020) Dried Leaf Artemisia Annua Improves Bioavailability of Artemisinin via Cytochrome P450 Inhibition and Enhances Artemisinin Efficacy Downstream. 2020 Feb 7;10(2):254. doi:10.3390/biom10020254.
  11. Guo, Hao, Chou, Wei-Chun, Lai, Yunjia, Liang, Kaixin, Tam, Jason W, Brickey, W June, Chen, Liang, Montgomery, Nathan D, Li, Xin, Bohannon, Lauren M., Sung, Anthony D., Chao, Nelson J., Peled, Jonathan U., Gomes, Antonio L.C., van den Brink, Marcel R.M., French, Matthew J., Macintyre, Andrew N., Sempowski, Gregory D., Tan, Xianming., Sartor, R. Balfour., Lu, Kun., Ting, Jenny P.Y. (2020) Multi-omics analyses of radiation survivors identify radioprotective microbes and metabolites. Science. 2020 Oct 30;370(6516):eaay9097. doi:10.1126/science.aay9097.
  12. Fix, Jonathan, Chandrashekhar, Kshipra, Perez, Johann, Bucardo, Filemon, Hudgens, Michael G, Yuan, Lijuan, Twitchell, Erica, Azcarate-Peril, Maria Andrea, Vilchez, Samuel, Becker-Dreps, Sylvia. (2020) Association between Gut Microbiome Composition and Rotavirus Vaccine Response among Nicaraguan Infants. American Journal of Tropical Medicine and Hygiene 2020 Jan;102(1):213-219.doi:10.4269/ajtmh.19-0355.
  13. Carter, Philip B, Norin, Elisabeth, Swennes, Alton G. (2020) Gnotobiotics and the Microbiome. The Laboratory Rat 2020:827-848.
  14. Marsh, Alan J, Chandrashekhar, Kshipra, Ng, Sandy, Roach, Jeff, Magness, Scott T, Azcarate-Peril, M Andrea. (2020) ,Genome Sequence of Citrobacter freundii AMC0703, Isolated from the Intestinal Lumen of an 11-Year-Old Organ Donor. Microbiology Resource Announcements 2020 Nov 12;9(46):e00994-20.doi:10.1128/MRA.00994-20.
  15. Marsh, Alan J, Chandrashekhar, Kshipra, Ng, Sandy, Roach, Jeff, Magness, Scott T, Azcarate-Peril, M Andrea. (2020) Genome Sequence of Eubacterium callanderi AMC0717, Isolated from the Colonic Mucosa of an 11-Year-Old Organ Donor. Microbiology Resource Announcements 2020 Nov 12;9(46):e00995-20.doi:10.1128/MRA.00995-20.
  16. Whittington, Hunter D, Singh, Mahatam, Ta, Chanh, Azcárate-Peril, M Andrea, Bruno-Bárcena, José M. (2020) Accelerated Biodegradation of the Agrochemical Ametoctradin by Soil-Derived Microbial Consortia. Frontiers in Microbiology 2020 Aug 25;11:1898.doi:10.3389/fmicb.2020.01898. eCollection 2020.
  17. Canipe, Larry Grant. (2020) Individualized Cognitive Decline and the Impact of Gut Microbiome Composition. doi:10.17615/befd-s096.
  18. Arnold, Jason W, Roach, Jeffery, Fabela, Salvador, Moorfield, Emily, Ding, Shengli, Blue, Eric, Dagher, Suzanne, Magness, Scott, Tamayo, Rita, Bruno-Barcena, Jose M., Azcarate-Peril, M Andrea. (2020) The pleiotropic effects of prebiotic galacto-oligosaccharides on the aging gut. doi:10.21203/rs.2.24333/v1.
  19. Muñana, Karen R, Jacob, Megan E, Callahan, Benjamin J. (2020) Evaluation of fecal Lactobacillus populations in dogs with idiopathic epilepsy. Animal Microbiome May 11(2)/19 (2020).
  20. Lee, Mi Kyeong, Wyss, Annah B, Carnes, Megan U, Richards, Marie, Parks, Christine G, Freeman, Laura E Beane, Thorne, Peter S, Umbach, David M, Azcarate-Peril, M Andrea, Peddada, Shyamal D. London, Stephanie J. (2020) House dust microbiota in relation to adult asthma and atopy in a US farming population. Journal of Allergy and Clinical Immunology. July 2020. doi:10.1016/j.jaci.2020.06.013.
  21. Pal, Anandita, Al-Shaer, Abrar E, Guesdon, William, Torres, Maria J, Armstrong, Michael, Quinn, Kevin, Davis, Traci, Reisdorph, Nichole, Neufer, P Darrell, Spangenburg, Espen E., Carroll, Ian., Bazinet, Richard P., Claria, Joan., Shaikh, Saame R. (2020) Eicosapentaenoic acid prevents obesity-induced metabolic impairments through the host-genetic dependent effects of resolvin E1. bioRxiv Jan 2020. doi:10.1096/jf.202000830R.
  22. Dorsey, Achsah. (2020) Iron, Infection, and Malnutrition: An Exploration of Childhood Anemia in a Peri-urban Community in Lima, Peru. doi:10.17615/n9fa-3031.
  23. Koutzoumis, D. N., Vergara, M., Pino, J., Buddendorff, J., Khoshbouei, h., Mandel, R. J. and Torres, G. E. (2020) Alterations of the gut microbiota with antibiotics protects dopamine neuron loss and improve motor deficits in a pharmacological rodent model of Parkinson’s disease. Experimental Neurology Volume 325, March 2020, 113159
  24. Chey W, Sandborn W, Ritter AJ, Foyt H, Azcarate-Peril MA, Savaiano DA. Galacto-Oligosaccharide RP-G28 Improves Multiple Clinical Outcomes in Lactose-Intolerant Patients. 2020 Apr 10;12(4):E1058. doi:10.3390/nu12041058. PMID: 32290344.
  25. Fix, J., Chandrashekhar, K., Perez, J., Bucardo, F., Hudgens, M. G., Yuan, L., Twitchell, E., Azcarate-Peril, M. A., Vilchez, S., and Becker-Dreps, S. (2020) Association between Gut Microbiome Composition and Rotavirus Vaccine Response among Nicaraguan Infants. The American Journal of Tropical Medicine and Hygiene 102(1) DOI:

  1. Lei, S., Twitchell, E. L., Ramesh, A. K., Bui, T., Majette, E., Tin, C. M., Avery, R., Arango-Argoty, G., Zhang, L., Becker-Dreps, S., Azcarate-Peril, M. A., Jiang, X., and Yuan, L. (2019) Enhanced GII.4 human norovirus infection in gnotobiotic pigs transplanted with a human gut microbiota. J. Gen. Virology Vol 100, Issue 11
  2. Travanty, N. V., Ponnusamy, L., Kakumanu, M., Nicholson, W., and Apperson C. S. (2019) Diversity and structure of the bacterial microbiome of the American dog tick, Dermacentor variabilis, is dominated by the endosymbiont Francisella . Symbiosis
  3. Divaris, K., Shungin, D., Rodriguez-Cortes, A., Basta, P. V., Roach, J., Cho, H., Wu, D., Ferreira Zandona, A. G., Ginnis, J., Ramamoorthy, S., Kinchen, J. M., Kwintkiewicz, J., Butz, N., Ribeiro, A. A., and Azcarate-Peril, M. A. (2019) The supragingival biofilm in early childhood caries: clinical and laboratory protocols and bioinformatics pipelines supporting oral metagenomics, metatranscriptomics and metabolomics studies of the oral microbiome. Methods in Molecular Biology, vol 1922. doi:10.1007/978-1-4939-9012-2_40.
  4. Guadamuro, Lucía, M Andrea Azcárate-Peril, Rafael Tojo, Baltasar Mayo, Susana Delgado 2019. “Use of High Throughput Amplicon Sequencing and Ethidium Monoazide Dye to Track Microbiota Changes in an Equol-Producing Menopausal Woman Receiving a Long-Term Isoflavones Treatment.” AIMS Microbiology 5 (1): 102–16. doi:10.3934/microbiol.2019.1.102.
  5. Thompson, Amanda L, Kelly M Houck, and Johanna R Jahnke. 2019. “Pathways Linking Caesarean Delivery to Early Health in a Dual Burden Context: Immune Development and the Gut Microbiome in Infants and Children from Galápagos, Ecuador.” American Journal of Human Biology, January, e23219. doi:10.1002/ajhb.23219.
  6. Brahmstedt, Evie S., Hao Zhou, Erin M. Eggleston, Thomas M. Holsen, and Michael R. Twiss. 2019. “Assessment of Mercury Mobilization Potential in Upper St. Lawrence River Riparian Wetlands Under New Water Level Regulation Management.” Journal of Great Lakes Research, March. doi:10.1016/j.jglr.2019.03.001.
  7. Schey, K. C. (2019). Changes and oral microbiome shifts in HIV+ patients following periodontal therapy (Order No. 13857990). Available from Dissertations & Theses @ University of North Carolina at Chapel Hill; ProQuest Dissertations & Theses Global. (2236375172). Retrieved from
  8. Mason, M. R. (2019). Microbiological analysis of a humanized oral microbiome murine model (Order No. 13858579). Available from Dissertations & Theses @ University of North Carolina at Chapel Hill; ProQuest Dissertations & Theses Global. (2241701294). Retrieved from
  9. Gao, W., Salzwedel, A. P., Carlson, A. L., Xia, K., Azcarate-Peril, M. A., Styner, M. A., Thompson, A. L., Geng, X., Goldman, B. D., Gilmore, J. H. and R. C. Knickmeyer (2019) “Gut microbiome and brain functional connectivity in infants-a preliminary study focusing on the amygdala” Psychopharmacology
  10. Pérez-Díaz, I. M., J. S. Hayes, E. Medina, A. M. Weber, N. Butz, A. N. Dickey, Z. Lu and M. A. Azcarate-Peril (2019). “Assessment of the non-lactic acid bacteria microbiota in fresh cucumbers and commercially fermented cucumber pickles brined with 6% NaCl.” Food Microbiology Volume 77, Pages 10-20

  1. Ponnusamy, L., Wilcox, A. C., Roe, R. M., Davidson, S. A., Linsuwanon, P., Schuster, A. L., Richards, A. L., Meshnick, S. R. and Apperson, C. S. (2018) Bacterial microbiome of the chigger mite Leptotrombidium imphalum varies by life stage and infection with the scrub typhus pathogen Orientia tsutsugamushi PloS One
  2. Ho, N. T., Li, F., Lee-Sarwar, K. A., Tun, H. M., Brown, B., Pannaraj, P. S., Bender, J. M., Azad, M. B., Thompson, A. L., Weiss, S. T. , Azcarate-Peril, M. A., Litonjua, A. A., Kozyrskyj, A. L., Jaspan, H. B., Aldrovandi, G. M. and Kuhn, L. (2018) Meta-analysis of effects of exclusive breastfeeding on infant gut microbiota across populations Nature Communications Volume 9, Article number: 4169
  3. Li, Y., Dugyala, S. R., Ptacek T. S., Gilmore, J. H. and F. Frohlich (2018) Maternal immune activation alters adult behavior, gut microbiome and juvenile brain oscillations in ferrets Sep-Oct; 5(5): ENEURO.0313-18.2018.
  4. Truax, A. D., Chen, L., Tam, J. W., Cheng, N., Guo, H., Koblansky, A. A., Chou, W., Wilson, J. E., Brickey, W. J., Petrucelli, A., Liu, R., Cooper, D. E., Koenigsknecht, M. J., Young, V. B., Netea, M. G., Stienstra, R., Sartor, R. B., Montgomery, S. A., Coleman, R. A. and J. P.-Y. Ting (2018) The inhibitory innate immune sensor NLRP12 maintains a threshold against obesity by regulating gut microbiota homeostasis Cell Host & Microbe Volume 24, Issue 3, 12 September 2018, Pages 364-378.e6.
  5. Xu, J. and H. S. Seifert (2018) Analysis of pilin antigenic variation in Neisseria meningitidis by next-generation sequencing J Bacteriol 200:e00465-18. .00465-18
  6. Ulici, V., K. L. Kelley, M. A. Azcarate-Peril, R. J. Cleveland, R. B. Sartor, T. A. Schwartz and R. F. Loeser (2018). “Osteoarthritis induced by destabilization of the medial meniscus is reduced in germ-free mice.” Osteoarthritis and carilage.  Volume 26, Issue 8, August 2018, Pages 1098-1109
  7. Thoemmes, M. S., F. A. Stewart, R. A. Hernandez-Aguilar, M. A. Bertone, D. A. Baltzegar, R. J. Borski, N. Cohen, K. P. Coyle, A. K. Piel and R. R. Dunn (2018). “Ecology of sleeping: the microbial and arthropod associates of chimpanzee beds.” Royal Society open science 5(5): 180382.
  8. Robinson, J., F. N. Anike, W. Willies and O. Isikhuemhen (2018). “Medicinal Mushrooms Supplements Alters Chicken Intestinal Microbiome.” Int J Med Mushrooms. 2018;20(7):685-693. doi: 10.1615/IntJMedMushrooms.2018026969.
  9. Ramos-Garcia, A. A., V. Shankar, C. A. Saski, T. Hsiang and D. L. Freedman (2018). “Draft Genome Sequence of the 1, 4-Dioxane-Degrading Bacterium Pseudonocardia dioxanivorans BERK-1.” Genome announcements 6(14): e00207-00218.
  10. Lee, M. K., M. U. Carnes, N. Butz, M. A. Azcarate-Peril, M. Richards, D. M. Umbach, P. S. Thorne, L. E. B. Freeman, S. D. Peddada and S. J. London (2018). “Exposures Related to House Dust Microbiota in a US Farming Population.Environmental Health Perspectives (Online) 126(6).
  11. Koudelka, G. B., J. W. Arnold and D. Chakraborty (2018). “Evolution of STEC virulence: Insights from the antipredator activities of Shiga toxin producing E. coli.” International Journal of Medical Microbiology.
  12. Smid, M. C., N. M. Ricks, A. Panzer, A. N. Mccoy, M. A. Azcarate-Peril, T. O. Keku and K. A. Boggess (2018). “Maternal gut microbiome biodiversity in pregnancy.” American journal of perinatology 35(01): 024-030.
  13. Ho, N. T., F. Li, K. A. Lee-Sarwar, H. M. Tun, B. Brown, P. S. Pannaraj, J. M. Bender, M. B. Azad, A. L. Thompson and S. T. Weiss (2018). “Effects of exclusive breastfeeding on infant gut microbiota: a meta-analysis across studies and populations.” bioRxiv: 292755.
  14. Jones, R. B., X. Zhu, E. Moan, H. J. Murff, R. M. Ness, D. L. Seidner, S. Sun, C. Yu, Q. Dai, A. A. Fodor, M. A. Azcarate-Peril and M. J. Shrubsole (2018). “Inter-niche and inter-individual variation in gut microbial community assessment using stool, rectal swab, and mucosal samples.” Scientific reports 8(1): 4139.
  15. Carlson, A. L., K. Xia, M. A. Azcarate-Peril, B. D. Goldman, M. Ahn, M. A. Styner, A. L. Thompson, X. Geng, J. H. Gilmore and R. C. Knickmeyer (2018). “Infant gut microbiome associated with cognitive development.” Biological psychiatry 83(2): 148-159.
  16. Azcarate-Peril, M. A., N. Butz, M. B. Cadenas, M. Koci, A. Ballou, M. Mendoza, R. Ali and H. Hassan (2018). “An Attenuated Salmonella enterica Serovar Typhimurium Strain and Galacto-Oligosaccharides Accelerate Clearance of Salmonella Infections in Poultry through Modifications to the Gut Microbiome.” Applied and environmental microbiology 84(5): e02526-02517.
  17. Arnold, J. W., J. B. Sympson, J. Roach, J. Kwintkiewicz and M. A. Azcarate-Peril (2018). “Intra-species genomic and physiological variability impact stress resistance in strains of probiotic potential.” Frontiers in microbiology 9: 242.

  1. Houck, K. M. (2017). Early Life Effects of a Dual Burden Environment: Childhood Intestinal Health and Immune Function in Galápagos, Ecuador, The University of North Carolina at Chapel Hill.
  2. Zhai, Y. and I. Pérez‐Díaz (2017). “Fermentation Cover Brine Reformulation for Cucumber Processing with Low Salt to Reduce Bloater Defect.” Journal of food science 82(12): 2987-2996.
  3. Whitham, J. M., M. J. Schulte, B. G. Bobay, J. M. Bruno-Barcena, M. S. Chinn, M. C. Flickinger, J. J. Pawlak and A. M. Grunden (2017). “Characterization of Clostridium ljungdahlii OTA1: a non-autotrophic hyper ethanol-producing strain.” Applied microbiology and biotechnology 101(4): 1615-1630.
  4. Westmoreland, L. S., J. N. Niemuth, H. S. Gracz and M. K. Stoskopf (2017). “Altered acrylic acid concentrations in hard and soft corals exposed to deteriorating water conditions.” FACETS.
  5. Walker, M. Y., S. Pratap, J. H. Southerland, C. Farmer-Dixon, L. Kesavalu and P. Gangula (2017). “Role of oral and gut microbiome in nitric oxide mediated colon motility.” Nitric Oxide.
  6. Stepper, P., G. Kungulovski, R. Z. Jurkowska, T. Chandra, F. Krueger, R. Reinhardt, W. Reik, A. Jeltsch and T. P. Jurkowski (2017). “Efficient targeted DNA methylation with chimeric dCas9–Dnmt3a–Dnmt3L methyltransferase.” Nucleic acids research 45(4): 1703-1713.
  7. Sanz‐Martin, I., J. Doolittle‐Hall, R. Teles, M. Patel, G. Belibasakis, C. Hämmerle, R. Jung and F. Teles (2017). “Exploring the microbiome of healthy and diseased peri‐implant sites using Illumina Sequencing.” Journal of Clinical Periodontology.
  8. Sandoval-Espinola, W., M. Chinn, M. Thon and J. Bruno-Bárcena (2017). “Evidence of mixotrophic carbon-capture by n-butanol-producer Clostridium beijerinckii.” Scientific reports 7(1): 12759.
  9. Romano-Keeler, J., M. A. Azcarate-Peril, J.-H. Weitkamp, J. C. Slaughter, W. H. McDonald, S. Meng, M. S. Latuga and J. L. Wynn (2017). “Oral colostrum priming shortens hospitalization without changing the immunomicrobial milieu.” Journal of Perinatology 37(1): 36-41.
  10. Ribeiro, A. A., M. A. Azcarate-Peril, M. B. Cadenas, N. Butz, B. J. Paster, T. Chen, E. Bair and R. R. Arnold (2017). “The oral bacterial microbiome of occlusal surfaces in children and its association with diet and caries.” PloS one 12(7): e0180621.
  11. Pérez-Díaz, I., J. Hayes, E. Medina, K. Anekella, K. Daughtry, S. Dieck, M. Levi, R. Price, N. Butz and Z. Lu (2017). “Reassessment of the succession of lactic acid bacteria in commercial cucumber fermentations and physiological and genomic features associated with their dominance.” Food microbiology 63: 217-227.
  12. Manderino, L., I. Carroll, M. A. Azcarate-Peril, A. Rochette, L. Heinberg, C. Peat, K. Steffen, J. Mitchell and J. Gunstad (2017). “Preliminary Evidence for an Association Between the Composition of the Gut Microbiome and Cognitive Function in Neurologically Healthy Older Adults.” Journal of the International Neuropsychological Society 23(8): 700-705.
  13. Hughes, R.-A., R. A. Ali, M. A. Mendoza, H. M. Hassan and M. D. Koci (2017). “impact of Dietary galacto-Oligosaccharide (gOs) on chicken’s gut Microbiota, Mucosal gene expression, and Salmonella colonization.” Frontiers in veterinary science 4.
  14. Gray, J., K. Oehrle, G. Worthen, T. Alenghat, J. Whitsett and H. Deshmukh (2017). “Intestinal commensal bacteria mediate lung mucosal immunity and promote resistance of newborn mice to infection.” Science translational medicine 9(376): eaaf9412.
  15. Chen, L., J. E. Wilson, M. J. Koenigsknecht, W.-C. Chou, S. A. Montgomery, A. D. Truax, W. J. Brickey, C. D. Packey, N. Maharshak and G. K. Matsushima (2017). “The intracellular innate immune sensor NLRP12 attenuates colon inflammation by maintaining colonic microbial diversity and promoting protective commensal bacterial growth.” Nature immunology 18(5): 541.
  16. Bartelt, L. A., D. T. Bolick, J. Mayneris-Perxachs, G. L. Kolling, G. L. Medlock, E. I. Zaenker, J. Donowitz, R. V. Thomas-Beckett, A. Rogala and I. M. Carroll (2017). “Cross-modulation of pathogen-specific pathways enhances malnutrition during enteric co-infection with Giardia lamblia and enteroaggregative Escherichia coli.” PLoS pathogens 13(7): e1006471.
  17. Azcarate-Peril, M. A., A. J. Ritter, D. Savaiano, A. Monteagudo-Mera, C. Anderson, S. T. Magness and T. R. Klaenhammer (2017). “Impact of short-chain galactooligosaccharides on the gut microbiome of lactose-intolerant individuals.” Proceedings of the National Academy of Sciences: 201606722.
  18. Arnold, J. W., A. Monteagudo-Mera, E. Altermann, M. B. Cadenas, A. L. Thompson and M. A. Azcarate-Peril (2017). “Genome Sequences of Potential Probiotic Lactobacillus rhamnosus Isolates from Human Infants.” Genome announcements 5(14): e00107-00117.
  19. Anderson, J. R., I. Carroll, M. A. Azcarate-Peril, A. D. Rochette, L. J. Heinberg, C. Peat, K. Steffen, L. M. Manderino, J. Mitchell and J. Gunstad (2017). “A preliminary examination of gut microbiota, sleep, and cognitive flexibility in healthy older adults.” Sleep Medicine 38: 104-107.
  20. Allali, I., J. W. Arnold, J. Roach, M. B. Cadenas, N. Butz, H. M. Hassan, M. Koci, A. Ballou, M. Mendoza and R. Ali (2017). “A comparison of sequencing platforms and bioinformatics pipelines for compositional analysis of the gut microbiome.” BMC microbiology 17(1): 194.

  1. Yang, T., L. M. Nigro, T. Gutierrez, S. B. Joye, R. Highsmith and A. Teske (2016). “Pulsed blooms and persistent oil-degrading bacterial populations in the water column during and after the Deepwater Horizon blowout.” Deep Sea Research Part II: Topical Studies in Oceanography 129: 282-291.
  2. Vanucci, S., F. Guidi, R. Pistocchi and R. A. Long (2016). “Phylogenetic structure of bacterial assemblages co-occurring with Ostreopsis cf. ovata bloom.” Harmful algae 55: 259-271.
  3. Twitchell, E. L., C. Tin, K. Wen, H. Zhang, S. Becker-Dreps, M. A. Azcarate-Peril, S. Vilchez, G. Li, A. Ramesh and M. Weiss (2016). “Modeling human enteric dysbiosis and rotavirus immunity in gnotobiotic pigs.” Gut pathogens 8(1): 51.
  4. Noar, J. D. (2016). “Aerobic Hydrogen Production in Azotobacter vinelandii: Genetics, Physiology, and Optimization.”
  5. Monteagudo-Mera, A., J. Arthur, C. Jobin, T. Keku, J. Bruno-Barcena and M. Azcarate-Peril (2016). “High purity galacto-oligosaccharides enhance specific Bifidobacterium species and their metabolic activity in the mouse gut microbiome.” Beneficial microbes 7(2): 247-264.
  6. Mideo, N., J. A. Bailey, N. J. Hathaway, B. Ngasala, D. L. Saunders, C. Lon, O. Kharabora, A. Jamnik, S. Balasubramanian and A. Björkman (2016). “A deep sequencing tool for partitioning clearance rates following antimalarial treatment in polyclonal infections.” Evolution, medicine, and public health 2016(1): 21-36.
  7. Medina, E., I. M. Pérez‐Díaz, F. Breidt, J. Hayes, W. Franco, N. Butz and M. A. Azcarate‐Peril (2016). “Bacterial Ecology of Fermented Cucumber Rising pH Spoilage as Determined by Nonculture‐Based Methods.” Journal of food science 81(1).
  8. Grogan, K. E., G. J. McGinnis, M. L. Sauther, F. P. Cuozzo and C. M. Drea (2016). “Next-generation genotyping of hypervariable loci in many individuals of a non-model species: technical and theoretical implications.” BMC genomics 17(1): 204.
  9. Fromen, C. A., T. B. Rahhal, G. R. Robbins, M. P. Kai, T. W. Shen, J. C. Luft and J. M. DeSimone (2016). “Nanoparticle surface charge impacts distribution, uptake and lymph node trafficking by pulmonary antigen-presenting cells.” Nanomedicine: Nanotechnology, Biology and Medicine 12(3): 677-687.
  10. Dagher, S. F. and J. M. Bruno-Barcena (2016). “A novel N-terminal region of the membrane β-hexosyltransferase: its role in secretion of soluble protein by Pichia pastoris.Microbiology 162(1): 23-34.
  11. Arnold, J. W., J. Roach and M. A. Azcarate-Peril (2016). “Emerging technologies for gut microbiome research.” Trends in microbiology 24(11): 887-901.

  1. Wong, S. M. (2015). Assembly of intestinal microbiota is determined by host development, diet, and environment, The University of North Carolina at Chapel Hill.
  2. Whitham, J. M. (2015). Identifying Genetic Targets and Growth Conditions for Higher Ethanol Production by the Synthesis Gas Fermenting Bacterium Clostridium ljungdahlii, North Carolina State University.
  3. Venema, K. and A. P. do Carmo (2015). Probiotics and prebiotics, Caister Academic Press.
  4. Van Treuren, W., L. Ponnusamy, R. J. Brinkerhoff, A. Gonzalez, C. M. Parobek, J. J. Juliano, T. G. Andreadis, R. C. Falco, L. B. Ziegler and N. Hathaway (2015). “Variation in the microbiota of Ixodes ticks with regard to geography, species, and sex.” Applied and environmental microbiology 81(18): 6200-6209.
  5. Tzanetakis, G. N., M. A. Azcarate-Peril, S. Zachaki, P. Panopoulos, E. G. Kontakiotis, P. N. Madianos and K. Divaris (2015). “Comparison of bacterial community composition of primary and persistent endodontic infections using pyrosequencing.” Journal of endodontics 41(8): 1226-1233.
  6. Thompson, A. L., A. Monteagudo-Mera, M. B. Cadenas, M. L. Lampl and M. Azcarate-Peril (2015). “Milk-and solid-feeding practices and daycare attendance are associated with differences in bacterial diversity, predominant communities, and metabolic and immune function of the infant gut microbiome.” Frontiers in cellular and infection microbiology 5.
  7. Seidel, D., K. Hicks, S. Taddeo, M. Azcarate-Peril, R. Carroll and N. Turner (2015). “Dried plums modify colon microbiota composition and spatial distribution, and protect against chemically-induced carcinogenesis.” The FASEB Journal 29(1 Supplement): 394.397.
  8. Rodgers-Vieira, E. A., Z. Zhang, A. C. Adrion, A. Gold and M. D. Aitken (2015). “Identification of anthraquinone-degrading bacteria in soil contaminated with polycyclic aromatic hydrocarbons.” Applied and environmental microbiology 81(11): 3775-3781.
  9. Ritchie, L. E., S. S. Taddeo, B. R. Weeks, F. Lima, S. A. Bloomfield, M. A. Azcarate-Peril, S. R. Zwart, S. M. Smith and N. D. Turner (2015). “Space environmental factor impacts upon murine colon microbiota and mucosal homeostasis.” PloS one 10(6): e0125792.
  10. Ritchie, L. E., J. M. Sturino, R. J. Carroll, L. W. Rooney, M. A. Azcarate-Peril and N. D. Turner (2015). “Polyphenol-rich sorghum brans alter colon microbiota and impact species diversity and species richness after multiple bouts of dextran sodium sulfate-induced colitis.” FEMS microbiology ecology 91(3).
  11. Reina, L., I. Pérez-Díaz, F. Breidt, M. A. Azcarate-Peril, E. Medina and N. Butz (2015). “Characterization of the microbial diversity in yacon spontaneous fermentation at 20° C.” International journal of food microbiology 203: 35-40.
  12. Piccini, C. and J. García-Alonso (2015). “Bacterial diversity patterns of the intertidal biofilm in urban beaches of Río de la Plata.” Marine pollution bulletin 91(2): 476-482.
  13. Noar, J., T. Loveless, J. L. Navarro-Herrero, J. W. Olson and J. M. Bruno-Bárcena (2015). “Aerobic hydrogen production via nitrogenase in Azotobacter vinelandii CA6.” Applied and environmental microbiology 81(13): 4507-4516.
  14. Kleiman, S. C., H. J. Watson, E. C. Bulik-Sullivan, E. Y. Huh, L. M. Tarantino, C. M. Bulik and I. M. Carroll (2015). “The intestinal microbiota in acute anorexia nervosa and during renourishment: relationship to depression, anxiety, and eating disorder psychopathology.” Psychosomatic medicine 77(9): 969.
  15. Keys, J. R., S. Zhou, J. A. Anderson, J. J. Eron Jr, L. A. Rackoff, C. Jabara and R. Swanstrom (2015). “Primer ID informs next-generation sequencing platforms and reveals preexisting drug resistance mutations in the HIV-1 reverse transcriptase coding domain.” AIDS research and human retroviruses 31(6): 658-668.
  16. Fraga, M., S. Fernández, C. Cajarville, M. Martínez, J. A. Abin-Carriquiry and P. Zunino (2015). “In vitro modulation of rumen microbiota and fermentation by native microorganisms isolated from the rumen of a fed-exclusively-on-pasture bovine.” Annals of microbiology 65(4): 2355-2362.
  17. Fraga, M. (2015). “Modulación de la microbiota y la fermentación ruminal con microorganismos ruminales nativos.”
  18. Douglas, G. L., M. A. Azcarate‐Peril and T. R. Klaenhammer (2015). “Genomic Evolution of Lactic Acid Bacteria: From Single Gene Function to the Pan‐genome.” Biotechnology of Lactic Acid Bacteria: Novel Applications: 32.
  19. Bruno-Barcena, J. M. and M. A. Azcarate-Peril (2015). “Galacto-oligosaccharides and colorectal cancer: feeding our intestinal probiome.” Journal of functional foods 12: 92-108.
  20. Becker-Dreps, S., I. Allali, A. Monteagudo, S. Vilchez, M. G. Hudgens, E. T. Rogawski, I. M. Carroll, L. E. Zambrana, F. Espinoza and M. A. Azcarate-Peril (2015). “Gut microbiome composition in young nicaraguan children during diarrhea episodes and recovery.” The American journal of tropical medicine and hygiene 93(6): 1187-1193.
  21. Bahr, S., B. Tyler, N. Wooldridge, B. Butcher, T. Burns, L. Teesch, C. Oltman, M. Azcarate-Peril, J. Kirby and C. Calarge (2015). “Use of the second-generation antipsychotic, risperidone, and secondary weight gain are associated with an altered gut microbiota in children.” Translational psychiatry 5(10): e652.
  22. Bahr, S. (2015). Characterization of risperidone-induced weight gain mediated by alterations of the gut microbiome and suppression of host energy expenditure, The University of Iowa.
  23. Allali, I., S. Delgado, P. I. Marron, A. Astudillo, J. J. Yeh, H. Ghazal, S. Amzazi, T. Keku and M. A. Azcarate-Peril (2015). “Gut microbiome compositional and functional differences between tumor and non-tumor adjacent tissues from cohorts from the US and Spain.” Gut microbes 6(3): 161-172.

  1. Yang, T. (2014). Microbial community dynamics of the Deepwater horizon oil spill, The University of North Carolina at Chapel Hill.
  2. Xu, Y. (2014). Interaction of dietary coarse corn with litter conditions on broiler live performance and gastrointestinal tract function, North Carolina State University.
  3. Ponnusamy, L., A. Gonzalez, W. Van Treuren, S. Weiss, C. M. Parobek, J. J. Juliano, R. Knight, R. M. Roe, C. S. Apperson and S. R. Meshnick (2014). “Diversity of Rickettsiales in the microbiome of the lone star tick, Amblyomma americanum.” Applied and environmental microbiology 80(1): 354-359.
  4. McKay, L. J. (2014). Microbial ecology of a manmade oil spill in the Gulf of Mexico and a natural, hydrothermal oil seep in the Gulf of California, The University of North Carolina at Chapel Hill.
  5. Ibarbalz, F. M., M. V. Pérez, E. L. Figuerola and L. Erijman (2014). “The bias associated with amplicon sequencing does not affect the quantitative assessment of bacterial community dynamics.” PloS one 9(6): e99722.
  6. Grogan, K. E. (2014). Exploring the Impacts of Major Histocompatibility Complex Variation on Fitness in the Ring-tailed Lemur (Lemur catta): Parasite Resistance, Survival, Mate Choice and Olfactory Ornamentation, and Reproduction, Duke University.
  7. Deshmukh, H. S., Y. Liu, O. R. Menkiti, J. Mei, N. Dai, C. E. O’leary, P. M. Oliver, J. K. Kolls, J. N. Weiser and G. S. Worthen (2014). “The microbiota regulates neutrophil homeostasis and host resistance to Escherichia coli K1 sepsis in neonatal mice.” Nature medicine 20(5): 524-530.
  8. Cardman, Z. (2014). Active prokaryotic communities along a thermally and geochemically variable transect in Guaymas Basin hydrothermal sediments, The University of North Carolina at Chapel Hill.

  1. Wong, S., T. Waldrop, S. Summerfelt, J. Davidson, F. Barrows, P. B. Kenney, T. Welch, G. D. Wiens, K. Snekvik and J. F. Rawls (2013). “Aquacultured rainbow trout (Oncorhynchus mykiss) possess a large core intestinal microbiota that is resistant to variation in diet and rearing density.” Applied and environmental microbiology 79(16): 4974-4984.
  2. Sofi, M. H., R. R. Gudi, S. Karumuthil-Melethil, N. Perez, B. M. Johnson and C. Vasu (2013). “pH of drinking water influences the composition of gut microbiome and type 1 diabetes incidence.” Diabetes: DB_130981.
  3. Sandoval-Espinola, W. J., S. T. Makwana, M. S. Chinn, M. R. Thon, M. A. Azcárate-Peril and J. M. Bruno-Barcena (2013). “Comparative phenotypic analysis and genome sequence of Clostridium beijerinckii SA-1, an offspring of NCIMB 8052.” Microbiology 159(12): 2558-2570.
  4. Resistant, C. I. M. T. I. (2013). “Aquacultured Rainbow Trout.”
  5. Noar, J. D. and J. M. Bruno-Bárcena (2013). “Complete genome sequences of Azotobacter vinelandii wild-type strain CA and tungsten-tolerant mutant strain CA6.” Genome announcements 1(3): e00313-00313.
  6. Menon, R., S. E. Watson, L. N. Thomas, C. D. Allred, A. Dabney, M. A. Azcarate-Peril and J. M. Sturino (2013). “Diet complexity and estrogen receptor β-status affect the composition of the murine intestinal microbiota.” Applied and environmental microbiology: AEM. 01182-01113.
  7. McCoy, A. N., F. Araujo-Perez, A. Azcarate-Peril, J. J. Yeh, R. S. Sandler and T. O. Keku (2013). “Fusobacterium is associated with colorectal adenomas.” PloS one 8(1): e53653.
  8. Keku, T. O., A. N. McCoy and A. M. Azcarate-Peril (2013). “Fusobacterium spp. and colorectal cancer: cause or consequence?Trends in microbiology 21(10): 506-508.
  9. Devine, A. A., A. Gonzalez, K. E. Speck, R. Knight, M. Helmrath, P. K. Lund and M. A. Azcarate-Peril (2013). “Impact of ileocecal resection and concomitant antibiotics on the microbiome of the murine jejunum and colon.” PLoS One 8(8): e73140.
  10. Dagher, S. F., M. A. Azcarate-Peril and J. M. Bruno-Bárcena (2013). “Heterologous Expression of a Bioactive β-Hexosyltransferase, an Enzyme Producer of Prebiotics, from Sporobolomyces singularis.” Applied and environmental microbiology 79(4): 1241-1249.
  11. Carper, D. L. (2013). A comparative study of the bacterial communities in California vernal pools.
  12. Bruno-Barcena, J. M., M. S. Chinn and A. M. Grunden (2013). “Genome sequence of the autotrophic acetogen Clostridium autoethanogenum JA1-1 strain DSM 10061, a producer of ethanol from carbon monoxide.” Genome announcements 1(4): e00628-00613.

Albury, R. (2012). Detection of Enterovirus in Marine Recreational Waters of Southern California using Quantitative and Nested PCR techniques, doi:10.17615/cc42-tt85.The University of North Carolina at Chapel Hill.

Azcarate-Peril, M. A., D. M. Foster, M. B. Cadenas, M. R. Stone, S. K. Jacobi, S. H. Stauffer, A. Pease and J. L. Gookin (2011). “Acute necrotizing enterocolitis of preterm piglets is characterized by dysbiosis of ileal mucosa-associated bacteria.” Gut microbes 2(4): 234-243.

  1. Montero, D. V. B. (2010). Nutritional influences on the ultra-structural development of the small intestinal epithelium of the perinatal turkey embryo and poultry, North Carolina State University.
  2. Goicoechea, S. M., B. Bednarski, C. Stack, D. W. Cowan, K. Volmar, L. Thorne, E. Cukierman, A. K. Rustgi, T. Brentnall and R. F. Hwang (2010). “Isoform-specific upregulation of palladin in human and murine pancreas tumors.” PloS one 5(4): e10347.