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Research Areas

Microbiome Metabolic Engineering: Publications

Sun, H., Mei, R., Zhang, X. X., Ren, H., Liu, W. T., & Ye, L. (2020). Bacterial enrichment in highly-selective acetate-fed bioreactors and its application in rapid biofilm formation. Water Research, 170, [115359].

Chen, L., Ling, F., Bakker, G., Liu, W. T., Medema, G., van der Meer, W., & Liu, G. (2020). Assessing the transition effects in a drinking water distribution system caused by changing supply water quality: an indirect approach by characterizing suspended solids. Water Research, 168, [115159].

Ragunathan, P. T., & Vanderpool, C. K. (2019). Cryptic-prophage-encoded small protein dicb protects Escherichia coli from phage infection by inhibiting inner membrane receptor proteins. Journal of bacteriology, 201(23), [e00475-19].

Yamamoto, K., Hackley, K. C., Kelly, W. R., Panno, S. V., Sekiguchi, Y., Sanford, R. A., ... Tamaki, H. (2019). Diversity and geochemical community assembly processes of the living rare biosphere in a sand-and-gravel aquifer ecosystem in the Midwestern United States. Scientific reports, 9(1), [13484].

Wang, M., Radlowski, E. C., Li, M., Monaco, M. H., & Donovan, S. M. (2019). Feeding Mode, but Not Prebiotics, Affects Colonic Microbiota Composition and Volatile Fatty Acid Concentrations in Sow-Reared, Formula-Fed, and Combination-Fed Piglets. The Journal of nutrition, 149(12), 2156-2163.

Liu, J. J., Zhang, G. C., Kwak, S., Oh, E. J., Yun, E. J., Chomvong, K., ... Jin, Y-S. (2019). Overcoming the thermodynamic equilibrium of an isomerization reaction through oxidoreductive reactions for biotransformation. Nature communications, 10(1), [1356].

Dinh, H. V., Suthers, P. F., Chan, S. H. J., Shen, Y., Xiao, T., Deewan, A., ... Maranas, C. D. (2019). A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data. Metabolic Engineering Communications, 9, [e00101].

Cheng, H., Cheng, D., Mao, J., Lu, T., & Hong, P. Y. (2019). Identification and characterization of core sludge and biofilm microbiota in anaerobic membrane bioreactors. Environment International, 133, [105165].

Chekan, J. R., Ongpipattanakul, C., & Nair, S. K. (2019). Steric complementarity directs sequence promiscuous leader binding in RiPP biosynthesis. Proceedings of the National Academy of Sciences of the United States of America, 116(48), 24049-24055.

Mei, R., & Liu, W. T. (2019). Quantifying the contribution of microbial immigration in engineered water systems. Microbiome, 7(1), [144].

De Souza Nogueira, J. P., He, F., Mangian, H. F., Oba, P. M., & De Godoy, M. R. C. (2019). Dietary supplementation of a fiber-prebiotic and saccharin-eugenol blend in extruded diets fed to dogs. Journal of animal science, 97(11), 4519-4531.

Jagtap, S. S., Bedekar, A. A., Liu, J. J., Jin, Y. S., & Rao, C. V. (2019). Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880. Biotechnology for Biofuels, 12(1), [250].

Kim, J. W., Lee, Y. G., Kim, S. J., Jin, Y-S., & Seo, J. H. (2019). Deletion of glycerol-3-phosphate dehydrogenase genes improved 2,3-butanediol production by reducing glycerol production in pyruvate decarboxylase-deficient Saccharomyces cerevisiae. Journal of Biotechnology, 304, 31-37.

Xu, H., Liu, J. J., Liu, Z., Li, Y., Jin, Y. S., & Zhang, J. (2019). Synchronization of stochastic expressions drives the clustering of functionally related genes. Science Advances, 5(10), [aax6525].

Kim, H. J., Lee, W. H., Turner, T. L., Kwak, S., & Jin, Y. S. (2019). An extra copy of the β-glucosidase gene improved the cellobiose fermentation capability of an engineered Saccharomyces cerevisiae strain. 3 Biotech, 9(10), [367].

Bianco, C. M., Fröhlich, K. S., & Vanderpool, C. (2019). Bacterial Cyclopropane Fatty Acid Synthase mRNA Is Targeted by Activating and Repressing Small RNAs. Journal of bacteriology, 201(19).

Bobrovskyy, M., Azam, M. S., Frandsen, J. K., Zhang, J., Poddar, A., Ma, X., ... Vanderpool, C. K. (2019). Determinants of target prioritization and regulatory hierarchy for the bacterial small RNA SgrS. Molecular Microbiology, 112(4), 1199-1218.

Greening, C., Geier, R., Wang, C., Woods, L. C., Morales, S. E., McDonald, M. J., ... Mackie, R. I. (2019). Diverse hydrogen production and consumption pathways influence methane production in ruminants. ISME Journal, 13(10), 2617-2632.

Kim, K., Palmer, A. D., Vanderpool, C., & Slauch, J. M. (2019). The small RNA pint contributes to phop-mediated regulation of the salmonella pathogenicity island 1 type III secretion system in salmonella enterica serovar typhimurium. Journal of bacteriology, 201(19), [e00312-19].

Sun, L., Kwak, S., & Jin, Y. S. (2019). Vitamin A Production by Engineered Saccharomyces cerevisiae from Xylose via Two-Phase in Situ Extraction. ACS synthetic biology, 8(9), 2131-2140.

Zhang, Y., Lane, S., Chen, J. M., Hammer, S. K., Luttinger, J., Yang, L., ... Avalos, J. L. (2019). Xylose utilization stimulates mitochondrial production of isobutanol and 2-methyl-1-butanol in Saccharomyces cerevisiae. Biotechnology for Biofuels, 12(1), [223].

Rattan, S., Beers, H. K., Kannan, A., Ramakrishnan, A., Brehm, E., Bagchi, I. C., ... Flaws, J. A. (2019). Prenatal and ancestral exposure to di(2-ethylhexyl) phthalate alters gene expression and DNA methylation in mouse ovaries. Toxicology and Applied Pharmacology, 379, [114629].

Hamed, S., Wang, X., Shawky, R. M., Emara, M., Aldridge, P. D., & Rao, C. V. (2019). Synergistic action of SPI-1 gene expression in Salmonella enterica serovar typhimurium through transcriptional crosstalk with the flagellar system. BMC microbiology, 19(1).

Donovan, S. M., & Goulet, O. (2019). Introduction to the Sixth Global Summit on the Health Effects of Yogurt: Yogurt, More than the Sum of Its Parts. Advances in Nutrition, 10(5), 913S-916S.

Kern, S., & Laurent, H. K. (2019). Childhood abuse predicts affective symptoms via HPA reactivity during mother-infant stress. Psychoneuroendocrinology, 107, 19-25.

Oosterkamp, M. J., Bauer, S., Ibáñez, A. B., Méndez-García, C., Hong, P. Y., Cann, I., & Mackie, R. I. (2019). Identification of methanogenesis and syntrophy as important microbial metabolic processes for optimal thermophilic anaerobic digestion of energy cane thin stillage. Bioresource Technology Reports, 7, [100254].

Bothwell, I. R., Cogan, D. P., Kim, T., Reinhardt, C. J., van der Donk, W. A., & Nair, S. K. (2019). Characterization of glutamyl-tRNA–dependent dehydratases using nonreactive substrate mimics. Proceedings of the National Academy of Sciences of the United States of America, 116(35), 17245-17250.

Turner, T. L., Lane, S., Jayakody, L. N., Zhang, G. C., Kim, H., Cho, W., & Jin, Y. S. (2019). Deletion of JEN1 and ADY2 reduces lactic acid yield from an engineered Saccharomyces cerevisiae, in xylose medium, expressing a heterologous lactate dehydrogenase. FEMS yeast research, 19(6), [foz050].

Knight, L. C., Wang, M., Donovan, S. M., & Dilger, R. N. (2019). Early-Life Iron Deficiency and Subsequent Repletion Alters Development of the Colonic Microbiota in the Pig. Frontiers in Nutrition, 6, [120].

Feng, Y., Ibarra-Sánchez, L. A., Luu, L., Miller, M. J., & Lee, Y. (2019). Co-assembly of nisin and zein in microfluidics for enhanced antilisterial activity in Queso Fresco. LWT, 111, 355-362.

Splichal, I., Donovan, S. M., Splichalova, Z., Bunesova, V. N., Vlkova, E., Jenistova, V., ... Splichalova, A. (2019). Colonization of germ-free piglets with commensal lactobacillus amylovorus, lactobacillus mucosae, and probiotic e. Coli nissle 1917 and their interference with salmonella typhimurium. Microorganisms, 7(8), [273].

Hull, N. M., Ling, F., Pinto, A. J., Albertsen, M., Jang, H. G., Hong, P. Y., ... Liu, W-T. (2019). Drinking Water Microbiome Project: Is it Time? Trends in Microbiology, 27(8), 670-677.

Prendergast, M. E., Lipson, M., Sawchuk, E. A., Olalde, I., Ogola, C. A., Rohland, N., ... Reich, D. (2019). Ancient DNA reveals a multistep spread of the first herders into sub-Saharan Africa. Science, 365(6448), [eaaw6275].

Shin, M., Kim, J. W., Ye, S., Kim, S., Jeong, D., Lee, D. Y., ... Kim, S. R. (2019). Comparative global metabolite profiling of xylose-fermenting Saccharomyces cerevisiae SR8 and Scheffersomyces stipitis. Applied Microbiology and Biotechnology, 103(13), 5435-5446.

Gan, L., Narisetty, N. N., & Liang, F. (2019). Bayesian Regularization for Graphical Models With Unequal Shrinkage. Journal of the American Statistical Association, 114(527), 1218-1231.

Narisetty, N., Shen, J., & He, X. (2019). Skinny Gibbs: A Consistent and Scalable Gibbs Sampler for Model Selection. Journal of the American Statistical Association, 114(527), 1205-1217.

Zhang, Y., & Liu, W-T. (2019). The application of molecular tools to study the drinking water microbiome–Current understanding and future needs. Critical Reviews in Environmental Science and Technology, 49(13), 1188-1235.

Zhang, L., Holle, M. J., Kim, J. S., Daum, M. A., & Miller, M. J. (2019). Nisin incorporation enhances the inactivation of lactic acid bacteria during the acid wash step of bioethanol production from sugarcane juice. Letters in Applied Microbiology, 69(1), 50-56.

Tang, L., Zhong, L., Xue, K., Wang, S., Xu, Z., Lin, Q., ... Wang, Y. (2019). Warming counteracts grazing effects on the functional structure of the soil microbial community in a Tibetan grassland. Soil Biology and Biochemistry, 134, 113-121.

Mohamed, E. T., Mundhada, H., Landberg, J., Cann, I., MacKie, R. I., Nielsen, A. T., ... Feist, A. M. (2019). Generation of an E. coli platform strain for improved sucrose utilization using adaptive laboratory evolution. Microbial cell factories, 18(1), [116].

Wright, D. K., Maceachern, S., Ambrose, S. H., Choi, J., Choi, J., Lang, C., & Wang, H. (2019). Iron Age landscape changes in the Benoué River Valley, Cameroon. Quaternary Research, 1-17.

Lundquist, A., McBride, B. A., Donovan, S. M., & Kieffer, A. (2019). An Exploratory Look at the Role of Childcare Providers as a Support and Resource for Breastfeeding Mothers. Breastfeeding Medicine, 14(5), 313-319.

Han, S. O., Inui, M., & Jin, Y. S. (2019). Bioenergy and Biorefinery. Biotechnology Journal, 14(6), [1900160].

Dong, S. H., Liu, A., Mahanta, N., Mitchell, D. A., & Nair, S. K. (2019). Mechanistic Basis for Ribosomal Peptide Backbone Modifications. ACS Central Science, 5(5), 842-851.

Gao, H., Mao, Y., Zhao, X., Liu, W. T., Zhang, T., & Wells, G. (2019). Genome-centric metagenomics resolves microbial diversity and prevalent truncated denitrification pathways in a denitrifying PAO-enriched bioprocess. Water Research, 155, 275-287.

Robinson, K. N., Rowitz, B. M., Oliphant, U. J., Donovan, S. M., & Teran-Garcia, M. D. L. (2019). Larger omental adipocytes correlate with greater Fetuin-A reduction following sleeve gastrectomy. BMC Obesity, 6(1), [15].

Schilling, B., Basisty, N., Christensen, D. G., Sorensen, D., Orr, J. S., Wolfe, A. J., & Rao, C. V. (2019). Global lysine acetylation in Escherichia coli results from growth conditions that favor acetate fermentation. Journal of bacteriology, 201(9), [e00768-18].

Barakat, R., Seymore, T., Lin, P. C. P., Park, C. J., & Ko, C. (2019). Prenatal exposure to an environmentally relevant phthalate mixture disrupts testicular steroidogenesis in adult male mice. Environmental Research, 172, 194-201.

Narisetty, N., Mukherjee, B., Chen, Y. H., Gonzalez, R., & Meeker, J. D. (2019). Selection of nonlinear interactions by a forward stepwise algorithm: Application to identifying environmental chemical mixtures affecting health outcomes. Statistics in Medicine, 38(9), 1582-1600.

Petronikolou, N., Ortega, M. A., Borisova, S. A., Nair, S. K., & Metcalf, W. W. (2019). Molecular Basis of Bacillus subtilis ATCC 6633 Self-Resistance to the Phosphono-oligopeptide Antibiotic Rhizocticin. ACS chemical biology, 14(4), 742-750.

Mei, R., Kim, J., Wilson, F. P., Bocher, B. T. W., & Liu, W-T. (2019). Coupling growth kinetics modeling with machine learning reveals microbial immigration impacts and identifies key environmental parameters in a biological wastewater treatment process. Microbiome, 7(1), [65].

Laurent, H. (2019). Challenges in Characterizing the “Mommy Brain”. Parenting, 19(1-2), 94-96.

Lin, C. Y., Alexander, C., Steelman, A. J., Warzecha, C. M., De Godoy, M. R. C., & Swanson, K. S. (2019). Effects of a Saccharomyces cerevisiae fermentation product on fecal characteristics, nutrient digestibility, fecal fermentative end-products, fecal microbial populations, immune function, and diet palatability in adult dogs. Journal of animal science, 97(4), 1586-1599.

Cannavale, C. N., Hassevoort, K. M., Edwards, C. G., Thompson, S. V., Burd, N. A., Holscher, H. D., ... Khan, N. A. (2019). Serum lutein is related to relational memory performance. Nutrients, 11(4), [768].

Devendran, S., Shrestha, R., Alves, J. M. P., Wolf, P. G., Ly, L., Hernandez, A. G., ... Ridlon, J. M. (2019). Clostridium scindens ATCC 35704: Integration of nutritional requirements, the complete genome sequence, and global transcriptional responses to bile acids. Applied and environmental microbiology, 85(7), [e00052-19].

Kim, D. H., Park, H. J., Park, H. S., Lee, J. U., Ko, C. M., Gye, M. C., & Choi, J. M. (2019). Estrogen receptor α in T cells suppresses follicular helper T cell responses and prevents autoimmunity. Experimental and Molecular Medicine, 51(4), [41].

Liu, J. J., Lee, J. W., Yun, E. J., Jung, S. M., Seo, J. H., & Jin, Y-S. (2019). L-Fucose production by engineered Escherichia coli. Biotechnology and bioengineering, 116(4), 904-911.

Oba, P. M., Utterback, P. L., Parsons, C. M., De Godoy, M. R. C., & Swanson, K. S. (2019). Chemical composition, true nutrient digestibility, and true metabolizable energy of chicken-based ingredients differing by processing method using the precision-fed cecectomized rooster assay. Journal of animal science, 97(3), 998-1009.

Detweiler, K. B., He, F., Mangian, H. F., Davenport, G. M., & De Godoy, M. R. C. (2019). Effects of high inclusion of soybean hulls on apparent total tract macronutrient digestibility, fecal quality, and fecal fermentative end-product concentrations in extruded diets of adult dogs. Journal of animal science, 97(3), 1027-1035.

Detweiler, K. B., He, F., Mangian, H. F., Davenport, G. M., & De Godoy, M. R. C. (2019). Extruded feline diets formulated with high inclusion of soybean hulls: Effects on apparent total tract macronutrient digestibility, and fecal quality and metabolites. Journal of animal science, 97(3), 1042-1051.

Kwak, S., Jo, J. H., Yun, E. J., Jin, Y-S., & Seo, J. H. (2019). Production of biofuels and chemicals from xylose using native and engineered yeast strains. Biotechnology Advances, 37(2), 271-283.

Zukher, I., Pavlov, M., Tsibulskaya, D., Kulikovsky, A., Zyubko, T., Bikmetov, D., ... Severinova, K. (2019). Reiterative synthesis by the ribosome and recognition of the N-terminal formyl group by biosynthetic machinery contribute to evolutionary conservation of the length of antibiotic microcin c peptide precursor. mBio, 10(2), [e00768-19].

Juneja, A., Zhang, G., Jin, Y-S., & Singh, V. (2019). Bioprocessing and technoeconomic feasibility analysis of simultaneous production of D-psicose and ethanol using engineered yeast strain KAM-2GD. Bioresource Technology, 275, 27-34.

Kim, K., Golubeva, Y. A., Vanderpool, C., & Slauch, J. M. (2019). Oxygen-dependent regulation of SPI1 type three secretion system by small RNAs in Salmonella enterica serovar Typhimurium. Molecular Microbiology, 111(3), 570-587.

Park, C. J., Barakat, R., Ulanov, A., Li, Z., Lin, P. C., Chiu, K., ... Ko, C. M. J. (2019). Sanitary pads and diapers contain higher phthalate contents than those in common commercial plastic products. Reproductive Toxicology, 84, 114-121.

Oh, E. J., Wei, N., Kwak, S., Kim, H., & Jin, Y-S. (2019). Overexpression of RCK1 improves acetic acid tolerance in Saccharomyces cerevisiae. Journal of Biotechnology, 292, 1-4.

Yun, E. J., Liu, J. J., Lee, J. W., Kwak, S., Yu, S., Kim, K. H., & Jin, Y. S. (2019). Biosynthetic Routes for Producing Various Fucosyl-Oligosaccharides. ACS synthetic biology, 8(2), 415-424.

Larmon, J. T., Mcdonald, H. G., Ambrose, S., Desantis, L. R. G., & Lucero, L. J. (2019). A year in the life of a giant ground sloth during the Last Glacial Maximum in Belize. Science Advances, 5(2), [eaau1200].

Hannon, B. A., Thompson, S. V., Edwards, C. G., Skinner, S. K., Niemiro, G. M., Burd, N. A., ... Khan, N. A. (2019). Dietary fiber is independently related to blood triglycerides among adults with overweight and obesity. Current Developments in Nutrition, 3(2), [nzy094].

Kim, J. H., Shin, J. C., & Donovan, S. M. (2019). Effectiveness of Workplace Lactation Interventions on Breastfeeding Outcomes in the United States: An Updated Systematic Review. Journal of Human Lactation, 35(1), 100-113.

Siegel, M. H., Gurung, R. B., & Donovan, S. M. (2019). Safety evaluation of 3′-siallylactose sodium salt supplementation on growth and clinical parameters in neonatal piglets. Regulatory Toxicology and Pharmacology, 101, 57-64.

Zhang, S., Jagtap, S. S., Deewan, A., & Rao, C. V. (2019). pH selectively regulates citric acid and lipid production in Yarrowia lipolytica W29 during nitrogen-limited growth on glucose. Journal of Biotechnology, 290, 10-15.

Bobeica, S. C., Dong, S. H., Huo, L., Mazo, N., McLaughlin, M. I., Jiménez-Osés, G., ... van der Donk, W. A. (2019). Insights into AMS/PCAT transporters from biochemical and structural characterization of a double Glycine motif protease. eLife, 8.

Zurita, M. F., Cárdenas, P. A., Sandoval, M. E., Peña, M. C., Fornasini, M., Flores, N., ... Baldeón, M. E. (Accepted/In press). Analysis of gut microbiome, nutrition and immune status in autism spectrum disorder: a case-control study in Ecuador. Gut Microbes.

Khan, F., & Laurent, H. K. (2019). Assessing the Impact of Mindfulness and Life Stress on Maternal Well-Being. Mindfulness, 10(1), 26-35.

Taylor, A. M., Thompson, S. V., Edwards, C. G., Musaad, S. M. A., Khan, N. A., & Holscher, H. D. (2019). Associations among diet, the gastrointestinal microbiota, and negative emotional states in adults. Nutritional Neuroscience.

Narisetty, N. N. (Accepted/In press). Bayesian model selection for high-dimensional data. Handbook of Statistics.

Dong, S. H., Kulikovsky, A., Zukher, I., Estrada, P., Dubiley, S., Severinov, K., & Nair, S. K. (2019). Biosynthesis of the RiPP trojan horse nucleotide antibiotic microcin C is directed by the N-formyl of the peptide precursor. Chemical Science, 10(8), 2391-2395.

Huo, L., Zhao, X., Acedo, J. Z., Estrada, P., Nair, S. K., & van der Donk, W. A. (Accepted/In press). Characterization of a Dehydratase and Methyltransferase in the Biosynthesis of Ribosomally Synthesized and Post-translationally Modified Peptides in Lachnospiraceae. ChemBioChem.

Nguyen, K., DeSieno, M. A., Bae, B., Johannes, T. W., Cobb, R. E., Zhao, H., & Nair, S. K. (2019). Characterization of the flavin monooxygenase involved in biosynthesis of the antimalarial FR-900098. Organic and Biomolecular Chemistry, 17(6), 1506-1518.

Badur, A. H., Ammar, E. M., Yalamanchili, G., Hehemann, J. H., & Rao, C. V. (Accepted/In press). Characterization of the GH16 and GH17 laminarinases from Vibrio breoganii 1C10. Applied Microbiology and Biotechnology.

Neff, A. M., Blanco, S. C., Flaws, J. A., Bagchi, I. C., & Bagchi, M. K. (2019). Chronic Exposure of Mice to Bisphenol-A Alters Uterine Fibroblast Growth Factor Signaling and Leads to Aberrant Epithelial Proliferation. Endocrinology, 160(5), 1234-1246.

Li, Y., Li, Y., Jin, W., Sharpton, T. J., Mackie, R. I., Cann, I., ... Zhu, W. (2019). Combined genomic, transcriptomic, proteomic, and physiological characterization of the growth of Pecoramyces sp. F1 in Monoculture and Co-culture with a Syntrophic Methanogen. Frontiers in Microbiology, 10(MAR), [435].

Edwards, C. G., Walk, A. M., Cannavale, C. N., Flemming, I. R., Thompson, S. V., Reeser, G. R., ... Khan, N. A. (2019). Dietary choline is related to neural efficiency during a selective attention task among middle-aged adults with overweight and obesity. Nutritional Neuroscience.

Orr, J. S., Christensen, D. G., Wolfe, A. J., & Rao, C. V. (2019). Extracellular acidic pH inhibits acetate consumption by decreasing gene transcription of the tricarboxylic acid cycle and the glyoxylate shunt. Journal of bacteriology, 201(2), [e00410-18].

Madak-Erdogan, Z., Band, S., Zhao, Y. C., Smith, B. P., Kulkoyluoglu-Cotul, E., Zuo, Q., ... Flaws, J. A. (2019). Free fatty acids rewire cancer metabolism in obesity-associated breast cancer via estrogen receptor and mTOR signaling. Cancer Research, 79(10), 2494-2510.

the STRONG Kids Research Team, Donovan, S. M., & Teran-Garcia, M. D. L. (2019). Genetic risk scores demonstrate the cumulative association of single nucleotide polymorphisms in gut microbiome-related genes with obesity phenotypes in preschool age children. Pediatric Obesity, 14(9), [e12530].

Donovan, S. M., & Rao, G. (2019). Health benefits of yogurt among infants and toddlers aged 4 to 24 months: A systematic review. Nutrition reviews, 77(7), 478-486.

Donovan, S. M. (2019). Human Milk Proteins: Composition and Physiological Significance. Nestle Nutrition Institute Workshop Series, 90, 93-101.

Edwards, C. G., Walk, A. M., Cannavale, C. N., Thompson, S. V., Reeser, G. E., Holscher, H. D., & Khan, N. A. (2019). Macular Xanthophylls and Event-Related Brain Potentials among Overweight Adults and Those with Obesity. Molecular Nutrition and Food Research, 63(15), [1801059].

Nelson, B. W., Wright, D. B., Allen, N. B., & Laurent, H. K. (2019). Maternal stress and social support prospectively predict infant inflammation. Brain, Behavior, and Immunity.

Chekan, J. R., Ongpipattanakul, C., Wright, T. R., Zhang, B., Martin Bollinger, J., Rajakovich, L. J., ... Nair, S. K. (2019). Molecular basis for enantioselective herbicide degradation imparted by aryloxyalkanoate dioxygenases in transgenic plants. Proceedings of the National Academy of Sciences of the United States of America, 116(27), 13299-13304.

Zealand, A. M., Mei, R., Roskilly, A. P., Liu, W. T., & Graham, D. W. (2019). Molecular microbial ecology of stable versus failing rice straw anaerobic digesters. Microbial Biotechnology, 12(5), 879-891.

Yuan, H., Mei, R., Liao, J., & Liu, W. T. (2019). Nexus of stochastic and deterministic processes on microbial community assembly in biological systems. Frontiers in Microbiology, 10(JULY), [1536].

Duffy, D. M., Ko, C., Jo, M., Brannstrom, M., & Curry, T. E. (2019). Ovulation: Parallels with inflammatory processes. Endocrine reviews, 40(2), 369-416.

Yang, X. D., Li, W., Zhang, S., Wu, D., Jiang, X., Tan, R., ... Su, B. (Accepted/In press). PLK4 deubiquitination by Spata2-CYLD suppresses NEK7-mediated NLRP3 inflammasome activation at the centrosome. EMBO Journal, [e102201].

Donovan, S. M., German, J. B., Lönnerdal, B., & Lucas, A. (2019). Preface. Nestle Nutrition Institute Workshop Series, 90, VII-IX.

Kwak, S., Yun, E. J., Lane, S., Oh, E. J., Kim, K. H., & Jin, Y. S. (Accepted/In press). Redirection of the Glycolytic Flux Enhances Isoprenoid Production in Saccharomyces cerevisiae. Biotechnology Journal, [1900173].

King, A. M., Vanderpool, C. K., & Degnan, P. H. (2019). sRNA target prediction organizing tool (SPOT) integrates computational and experimental data to facilitate functional characterization of bacterial small RNAs. mSphere, 4(1), [e00561-18].

Doden, H. L., Pollet, R. M., Mythen, S. M., Wawrzak, Z., Devendran, S., Cann, I., ... Ridlon, J. M. (2019). Structural and biochemical characterization of 20-hydroxysteroid dehydrogenase from Bifidobacterium adolescentis strain L2-32. Journal of Biological Chemistry, 294(32), 12040-12053.

Donovan, S. M. (2019). Summary on Clinical Aspects of Human Milk on Infant Health Outcomes. Nestle Nutrition Institute Workshop Series, 90, 175-178.

Dawson, D. N., Volpe, V. V., & Laurent, H. K. (2019). Synergistic Effects of Psychological Intimate Partner Violence Exposure and Gender Discrimination on Postnatal Mental Health Trajectories. Journal of interpersonal violence.

Lu, T., Liu, F., Mao, J., & Hua, Q. (2019). Synthetic, Context-Dependent Microbial Consortium of Predator and Prey. ACS synthetic biology.

Ridlon, J. M., Devendran, S., Alves, J. M., Doden, H., Wolf, P. G., Pereira, G. V., ... Gaskins, H. R. (2019). The ‘in vivo lifestyle’ of bile acid 7α-dehydroxylating bacteria: comparative genomics, metatranscriptomic, and bile acid metabolomics analysis of a defined microbial community in gnotobiotic mice. Gut Microbes.

Nelson, B. W., Bernstein, R., Allen, N. B., & Laurent, H. K. (Accepted/In press). The quality of early infant-caregiver relational attachment and longitudinal changes in infant inflammation across 6 months. Developmental psychobiology.

Lane, S., Zhang, Y., Yun, E. J., Ziolkowski, L., Zhang, G., Jin, Y. S., & Avalos, J. L. (Accepted/In press). Xylose assimilation enhances the production of isobutanol in engineered Saccharomyces cerevisiae. Biotechnology and bioengineering.

Kaczmarek, J. L., Liu, X., Charron, C. S., Novotny, J. A., Jeffery, E. H., Seifried, H. E., ... Holscher, H. D. (2019). Broccoli consumption affects the human gastrointestinal microbiota. Journal of Nutritional Biochemistry, 63, 27-34.

Jones, A. R., Robbs, C. M., Edwards, C. G., Walk, A. M., Thompson, S. V., Reeser, G. E., ... Khan, N. A. (2018). Retinal morphometric markers of crystallized and fluid intelligence among adults with overweight and obesity. Frontiers in Psychology, 9(DEC), [2650].

Mei, R., Nobu, M. K., Narihiro, T., Yu, J., Sathyagal, A., Willman, E., & Liu, W-T. (2018). Novel Geobacter species and diverse methanogens contribute to enhanced methane production in media-added methanogenic reactors. Water Research, 147, 403-412.

Surya, A., Liu, X., & Miller, M. J. (2018). Glutathione Utilization in Lactobacillus fermentum CECT 5716. Journal of Agricultural and Food Chemistry, 66(48), 12651-12656.

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Turner, T. L., Kim, H., Kong, I. I., Liu, J. J., Zhang, G. C., & Jin, Y-S. (2018). Engineering and evolution of saccharomyces cerevisiae to produce biofuels and chemicals. In Advances in Biochemical Engineering/Biotechnology (pp. 175-215). (Advances in Biochemical Engineering/Biotechnology; Vol. 162). Springer Science and Business Media Deutschland GmbH.

Monaco, M. H., Wang, M., Pan, X., Li, Q., Richards, J. D., Chichlowski, M., ... Donovan, S. M. (2018). Evaluation of sialyllactose supplementation of a prebiotic-containing formula on growth, intestinal development, and bacterial colonization in the neonatal piglet. Current Developments in Nutrition, 2(11), [nzy067].

Donovan, S. M., & Hutkins, R. (2018). Introduction to the fifth global summit on the health effects of yogurt. Nutrition reviews, 76, 1-3.

Walukiewicz, H. E., Ordal, G. W., & Rao, C. V. (2018). In vitro assay for measuring receptor-kinase activity in the bacillus subtilis chemotaxis pathway. In Methods in Molecular Biology (pp. 95-105). (Methods in Molecular Biology; Vol. 1729). Humana Press Inc..

Brooks, A. S., Yellen, J. E., Potts, R., Behrensmeyer, A. K., Deino, A. L., Leslie, D. E., ... Clark, J. B. (2018). Long-distance stone transport and pigment use in the earliest Middle Stone Age. Science, 360(6384), 90-94.

Oh, S., Hammes, F., & Liu, W-T. (2018). Metagenomic characterization of biofilter microbial communities in a full-scale drinking water treatment plant. Water Research, 128, 278-285.

Jagtap, S. S., & Rao, C. V. (Accepted/In press). Microbial conversion of xylose into useful bioproducts. Applied Microbiology and Biotechnology.

Kong, I. I., Turner, T. L., Kim, H., Kim, S. R., & Jin, Y. S. (2018). Phenotypic evaluation and characterization of 21 industrial Saccharomyces cerevisiae yeast strains. FEMS yeast research, 18(1).

Park, C. J., Kim, H., Jin, J., Barakat, R., Lin, P. C., Choi, J. M., & Ko, C. M. J. (2018). Porcine intestinal lymphoid tissues synthesize estradiol. Journal of Veterinary Science, 19(4), 477-482.

Barakat, R., Lin, P. C., Park, C. J., Best, C., Bakry, H. H., Abosalem, M. E., ... Ko, C. (2018). Prenatal exposure to DEHP induces neuronal degeneration and neurobehavioral abnormalities in adult male mice. Toxicological Sciences, 164(2), 439-452.

Jagtap, S. S., & Rao, C. V. (2018). Production of d-arabitol from d-xylose by the oleaginous yeast Rhodosporidium toruloides IFO0880. Applied Microbiology and Biotechnology, 102(1), 143-151.

Cogan, D. P., Baraquet, C., Harwood, C. S., & Nair, S. K. (2018). Structural basis of transcriptional regulation by cour, a repressor of coumarate catabolism, in rhodopseudomonas palustris. Journal of Biological Chemistry, 293(30), 11727-11735.

Gu, W., Dong, S. H., Sarkar, S., Nair, S. K., & Schmidt, E. W. (2018). The Biochemistry and Structural Biology of Cyanobactin Pathways: Enabling Combinatorial Biosynthesis. In B. S. Moore (Ed.), Methods in Enzymology (pp. 113-163). (Methods in Enzymology; Vol. 604). Academic Press Inc..

Devendran, S., Mythen, S. M., & Ridlon, J. M. (2018). The desA and desB genes from Clostridium scindens ATCC 35704 encode steroid-17,20-desmolase. Journal of Lipid Research, 59(6), 1005-1014.

Lee, D. G., Jeon, J. M., Yang, Y. H., Jin, Y-S., & Yoon, J. J. (Accepted/In press). The pH-stat Butyric Acid Feeding Strategy Coupled with Gas-Stripping for n-Butanol Production by Clostridium beijerinckii. Waste and Biomass Valorization.

Azam, M. S., & Vanderpool, C. K. (2018). Translational regulation by bacterial small RNAs via an unusual Hfq-dependent mechanism. Nucleic acids research, 46(5), 2585-2599.

Lane, S., Dong, J., & Jin, Y-S. (Accepted/In press). Value-added biotransformation of cellulosic sugars by engineered Saccharomyces cerevisiae. Bioresource Technology.

Dent, S. C., Hutchinson, D. L., Hedman, K. M., Fort, M. A., & Ambrose, S. H. (2018). Purification of dental calculus organic and carbonate biofractions improves correlations with bone stable isotope ratios. 65. Abstract from 2018 Annual Meeting of the American Association of Physical Anthropologists, Austin, United States.