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Microbiome Metabolic Engineering

To view the full list of publications across IGB's research portfolio, please visit our Illinois Experts page

2024

Zhang, G., He, M., Xiao, L., Jiao, Y., Han, J., Li, C., Miller, M. J., & Zhang, L. (2024). Milk fat globule membrane protects Bifidobacterium longum ssp. infantis ATCC 15697 against bile stress by modifying global transcriptional responses. Journal of Dairy Science, 107(1), 91-104. https://doi.org/10.3168/jds.2023-23591

Yuan, F., Yang, L., Hsiao, S. H., Herndon, N. L., Gaulke, C. A., & Fang, Y. (2024). A neonatal piglet model reveals interactions between nasal microbiota and influenza A virus pathogenesis. Virology, 592, Article 109996. https://doi.org/10.1016/j.virol.2024.109996

Xie, Z., Kim, C., Miller, M. J., & Jin, Y. S. (2024). Effects of 2′-fucosyllactose on the viability of starter cultures and Bifidobacterium strains of human origin in yogurt during refrigerated storage. Journal of food science, 89(5), 2546-2556. https://doi.org/10.1111/1750-3841.16996

Wang, H., Li, H., Qiu, Y., Shu, P., Liu, Y., Liu, W., Sun, J., Du, S., Wang, J., & Ambrose, S. H. (2024). Seasonal landscape variability advances Lantian hominin's recognition capacity to strategically adapt to changing environments. Quaternary Science Reviews, 336, Article 108786. https://doi.org/10.1016/j.quascirev.2024.108786

Wang, Y., Chembazhi, U. V., Yee, D., Chen, S., Ji, J., Wang, Y., Nguyen, KL., Lin, P., Ratti, A., Hess, RA., Qiao, H., Ko, C., Yang, J., Kalsotra, A., & Mei, W. (2024). PTBP1 mediates Sertoli cell actin cytoskeleton organization by regulating alternative splicing of actin regulators. Nucleic acids research, 52(20), 12244-12261. Article gkae862. https://doi.org/10.1093/nar/gkae862

Turgeon, A., Fu, J., Divyanshi, Ma, M., Jin, Z., Hwang, H., Li, M., Qiao, H., Mei, W., & Yang, J. (2024). Dzip1 is dynamically expressed in the vertebrate germline and regulates the development of Xenopus primordial germ cells. Developmental Biology, 514, 28-36. https://doi.org/10.1016/j.ydbio.2024.06.003

Tsuruga, T., Fujimoto, H., Yasuma, T., D'Alessandro-Gabazza, C. N., Toda, M., Ito, T., Tomaru, A., Saiki, H., Okano, T., Alhawsawi, M. A. B., Takeshita, A., Nishihama, K., Takei, R., Kondoh, Y., Cann, I., Gabazza, E. C., & Kobayashi, T. (2024). Role of microbiota-derived corisin in coagulation activation during SARS-CoV-2 infection. Journal of Thrombosis and Haemostasis, 22(7), 1919-1935. https://doi.org/10.1016/j.jtha.2024.02.014

Shinn, L. M., Mansharamani, A., Baer, D. J., Novotny, J. A., Charron, C. S., Khan, N. A., Zhu, R., & Holscher, H. D. (2024). Fecal Metagenomics to Identify Biomarkers of Food Intake in Healthy Adults: Findings from Randomized, Controlled, Nutrition Trials. Journal of Nutrition, 154(1), 271-283. https://doi.org/10.1016/j.tjnut.2023.11.001

Shin, J., Liao, S., Kuanyshev, N., Xin, Y., Kim, C., Lu, T., & Jin, Y. S. (2024). Compositional and temporal division of labor modulates mixed sugar fermentation by an engineered yeast consortium. Nature communications, 15(1), Article 781. https://doi.org/10.1038/s41467-024-45011-w

Shin, J., Kim, S. R., Xie, Z., Jin, Y.-S., & Wang, Y.-C. (2024). A CRISPR/Cas12a-Based System for Sensitive Detection of Antimicrobial-Resistant Genes in Carbapenem-Resistant Enterobacterales. Biosensors, 14(4), Article 194. https://doi.org/10.3390/bios14040194

Shah, F. A., Mackie, R. I., & Mahmood, Q. (2024). Biogas Dynamics and Microbial Composition Employing Different Inocula and Substrates in Continuous Stirred-Tank Reactors. Microbiology Research, 15(1), 174-186. https://doi.org/10.3390/microbiolres15010012

Sealschott, S., Pickler, R., Fortney, C., Bailey, M., & Loman, B. (2024). Gut Microbiota and Symptom Expression and Severity in Neonatal Abstinence Syndrome. Biological Research for Nursing, 26(3), 460-468. https://doi.org/10.1177/10998004241242102

Rosok, L. M., Cannavale, C. N., Keye, S. A., Holscher, H. D., Renzi-Hammond, L., & Khan, N. A. (in press). Skin and macular carotenoids and relations to academic achievement among school-aged children. Nutritional Neuroscience. https://doi.org/10.1080/1028415X.2024.2370175

Rindels, J. E., & Loman, B. R. (2024). Gut microbiome - the key to our pets' health and happiness? Animal Frontiers, 14(3), 46-53. https://doi.org/10.1093/af/vfae015

Ridlon, J. M., & Gaskins, H. R. (2024). Another renaissance for bile acid gastrointestinal microbiology. Nature Reviews Gastroenterology and Hepatology, 21(5), 348-364. https://doi.org/10.1038/s41575-024-00896-2

Qiu, Y., Shu, P., Ao, H., Zhang, Y., Wei, Q., Li, X., Chen, H., Wang, H., & Ambrose, S. H. (2024). The earliest microblade site 6800 years ago reveals broader social dimension than previous thought at the central high altitude Tibetan plateau. Quaternary Science Reviews, 328, Article 108551. https://doi.org/10.1016/j.quascirev.2024.108551

Park, J., Park, S., Evelina, G., Kim, S., Jin, Y.-S., Chi, W.-J., Kim, I. J., & Kim, S. R. (2024). Metabolic Engineering of Komagataella phaffii for Xylose Utilization from Cellulosic Biomass. Molecules, 29(23), Article 5695. https://doi.org/10.3390/molecules29235695

Otto-Dobos, L. D., Grant, C. V., Lahoud, A. A., Wilcox, O. R., Strehle, L. D., Loman, B. R., Adarkwah Yiadom, S., Seng, M. M., Halloy, N. R., Russart, K. L. G., Carpenter, K. M., Dawson, E., Sardesai, S. D., Williams, N. O., Gatti-Mays, M. E., Stover, D. G., Sudheendra, P. K., Wesolowski, R., Kiecolt-Glaser, J. K., ... Pyter, L. M. (2024). Chemotherapy-induced gut microbiome disruption, inflammation, and cognitive decline in female patients with breast cancer. Brain, Behavior, and Immunity, 120, 208-220. https://doi.org/10.1016/j.bbi.2024.05.039

Otero, A. M., Connolly, M. G., Gonzalez-Ricon, R. J., Wang, S. S., Allen, J. M., & Antonson, A. M. (in press). Influenza A virus during pregnancy disrupts maternal intestinal immunity and fetal cortical development in a dose- and time-dependent manner. Molecular Psychiatry. https://doi.org/10.1038/s41380-024-02648-9

Mysonhimer, A. R., Brown, M. D., Alvarado, D. A., Cornman, E., Esmail, M., Abdiel, T., Gutierrez, K., Vasquez, J., Cannavale, C. N., Miller, M. J., Khan, N. A., & Holscher, H. D. (2024). Honey Added to Yogurt with Bifidobacterium animalis subsp. lactis DN-173 010/CNCM I-2494 Supports Probiotic Enrichment but Does Not Reduce Intestinal Transit Time in Healthy Adults: A Randomized, Controlled, Crossover Trial. Journal of Nutrition, 154(8), 2396-2410. https://doi.org/10.1016/j.tjnut.2024.05.028

Monaco, M. H., Coyne, S., Wang, M., Flaws, J. A., Irudayaraj, J. M., Cann, I., & Donovan, S. M. (2024). Effects of early life exposure to di(2-ethylhexyl) phthalate on jejunal morphology, sucrase activity, and colonic microbiota composition in young pigs. Journal of Environmental Exposure Assessment, 3(3), Article 18. https://doi.org/10.20517/jeea.2024.10

Michimori, Y., Izaki, R., Su, Y., Fukuyama, Y., Shimamura, S., Nishimura, K., Miwa, Y., Hamakita, S., Shimosaka, T., Makino, Y., Takeno, R., Sato, T., Beppu, H., Cann, I., Kanai, T., Nunoura, T., & Atomi, H. (2024). Removal of phosphoglycolate in hyperthermophilic archaea. Proceedings of the National Academy of Sciences of the United States of America, 121(16), e2311390121. Article e2311390121. https://doi.org/10.1073/pnas.2311390121

McMath, A., Khan, N. A., Sutkus, L. T., Golden, R. K., Joung, S., Dilger, R. N., & Donovan, S. M. (2024). Pediatric Nutrition: Implications for the Developing Microbiota–Gut–Brain Axis. In N. Hyland, & C. Stanton (Eds.), The Gut-Brain Axis: Dietary, Probiotic, and Prebiotic Interventions on the Microbiota (2 ed., pp. 307-340). Academic Press. https://doi.org/10.1016/B978-0-323-99971-7.00009-6

McMath, A. L., Barton, J. M., Cai, T., Khan, N. A., Fiese, B. H., & Donovan, S. M. (2024). Western, Healthful, and Low-Preparation Diet Patterns in Preschoolers of the STRONG Kids2 Program. Journal of Nutrition Education and Behavior, 56(4), 219-229. https://doi.org/10.1016/j.jneb.2023.12.012

Martin, N., Thibeault, A., Varadzinová, L., Ambrose, S. H., Antoine, D., Brukner Havelková, P., Honegger, M., Irish, J. D., Osypiński, P., Usai, D., Vanderesse, N., Varadzin, L., Whiting, R. J., Velemínský, P., & Crevecoeur, I. (2024). From hunter-gatherers to food producers: New dental insights into the Nile Valley population history (Late Paleolithic–Neolithic). American Journal of Biological Anthropology, 184(4), Article e24948. https://doi.org/10.1002/ajpa.24948

Mackie, R. I., Kim, H., Kim, N. K., & Cann, I. (2024). Hydrogen production and hydrogen utilization in the rumen: key to mitigating enteric methane production. Animal Bioscience, 37(2), 323-336. https://doi.org/10.5713/ab.23.0294

Loman, B. R., Alzoubi, Z., Lynch, A. J., Jaggers, R. M., Jordan, K., Grant, C. V., Rogers, L. K., Pyter, L. M., & Bailey, M. T. (2024). Paclitaxel chemotherapy disrupts microbiota-enterohepatic bile acid metabolism in mice. Gut Microbes, 16(1), Article 2410475. https://doi.org/10.1080/19490976.2024.2410475

Lei, Y., Xie, Z., Zhao, A., Colarelli, J. P., Miller, M. J., & Lee, Y. (2024). Layer-by-layer coating of Lacticaseibacillus rhamnosus GG (LGG) using chitosan and zein/tween-80/fucoidan nanoparticles to enhance LGG's survival under adverse conditions. Food Hydrocolloids, 154, Article 110039. https://doi.org/10.1016/j.foodhyd.2024.110039

Lee, Y. G., Kang, N. K., Kim, C., Tran, V. G., Cao, M., Yoshikuni, Y., Zhao, H., & Jin, Y. S. (2024). Self-Buffering system for Cost-Effective production of lactic acid from glucose and xylose using Acid-Tolerant Issatchenkia orientalis. Bioresource Technology, 399, Article 130641. https://doi.org/10.1016/j.biortech.2024.130641

Koh, H. G., Yook, S., Oh, H., Rao, C. V., & Jin, Y. S. (2024). Toward rapid and efficient utilization of nonconventional substrates by nonconventional yeast strains. Current Opinion in Biotechnology, 85, Article 103059. https://doi.org/10.1016/j.copbio.2023.103059

Kayser, E., Castaneda, P. L., Soto - Diaz, K., Steelman, A. J., Murphy, A., Spindola, M., He, F., & de Godoy, M. R. C. (2024). Functional properties of Ganoderma lucidum supplementation in canine nutrition. Journal of animal science, 102, Article skae051. https://doi.org/10.1093/jas/skae051

Kayser, E., Finet, S. E., & de Godoy, M. R. C. (2024). The role of carbohydrates in canine and feline nutrition. Animal Frontiers, 14(3), 28-37. https://doi.org/10.1093/af/vfae017

Kasperek, M. C., Velasquez Galeas, A., Caetano-Silva, M. E., Xie, Z., Ulanov, A., La Frano, M., Devkota, S., Miller, M. J., & Allen, J. M. (2024). Microbial aromatic amino acid metabolism is modifiable in fermented food matrices to promote bioactivity. Food chemistry, 454, Article 139798. https://doi.org/10.1016/j.foodchem.2024.139798

Kachi, K., Sato, T., Nagasawa, M., Cann, I., & Atomi, H. (2024). The Lreu1276 protein from Limosilactobacillus reuteri represents a third family of dihydroneopterin triphosphate pyrophosphohydrolases in bacteria. Applied and Environmental Microbiology, 90(7), e0081424. Article e00814-24. https://doi.org/10.1128/aem.00814-24

Jin, Y.-S., Liu, J., Yu, S., Yun, E. J., Kwak, S., Kim, K. H., & Lee, J. W. (2024). Engineered Microorganisms For Production Of 2'focusyllactose And L-fucose. (U.S. Patent No. 12077792).

Hsu, C., White, B., Lambrakis, L., Oba, P. M., He, F., Utterback, P., Parsons, C. M., & de Godoy, M. R. C. (2024). Green banana flour as a novel functional ingredient in retorted feline diets. Journal of animal science, 102, Article skae039. https://doi.org/10.1093/jas/skae039

Hsu, C., Marx, F., Guldenpfennig, R., Valizadegan, N., & de Godoy, M. R. C. (2024). The effects of hydrolyzed protein on macronutrient digestibility, fecal metabolites and microbiota, oxidative stress and inflammatory biomarkers, and skin and coat quality in adult dogs. Journal of animal science, 102, Article skae057. https://doi.org/10.1093/jas/skae057

Hsu, C., Utterback, P. L., Parsons, C. M., Davenport, G. M., Rokey, G., & de Godoy, M. R. C. (2024). Effects of single and twin thermal screw extrusion on protein quality of grain-free pet foods formulated with predominantly animal- or plant-based protein ingredients. Animal Feed Science and Technology, 313, Article 115999. https://doi.org/10.1016/j.anifeedsci.2024.115999

Hossain, M., Aslan, B., & Hatoum-Aslan, A. (2024). Tandem mobilization of anti-phage defenses alongside SCCmec elements in staphylococci. Nature communications, 15(1), Article 8820. https://doi.org/10.1038/s41467-024-53146-z

Hošek, J., Hošková, K., McCool, J. P., Varadzinová, L., Pokorná, A., Juřičková, L., Ambrose, S. H., & Varadzin, L. (2024). Fossil spring records from central Sudan reveal paleoenvironmental and settlement dynamics in the Eastern Sahel during the last 30 ka. Quaternary Science Reviews, 344, Article 108928. https://doi.org/10.1016/j.quascirev.2024.108928

Holthaus, T. A., Keye, S. A., Verma, S., Cannavale, C. N., Burd, N. A., Holscher, H. D., & Khan, N. A. (2024). Dietary patterns and carotenoid intake: Comparisons of MIND, Mediterranean, DASH, and Healthy Eating Index. Nutrition Research, 126, 58-66. https://doi.org/10.1016/j.nutres.2024.03.008

Holscher, H. D. (2024). Diving into dietary pattern and dietary diversity analyses. American Journal of Clinical Nutrition, 119(5), 1095-1096. Advance online publication. https://doi.org/10.1016/j.ajcnut.2024.03.014

Hill, C. M., & Hatoum-Aslan, A. (2024). Genetic Engineering of Therapeutic Phages Using Type III CRISPR-Cas Systems. In Methods in Molecular Biology (pp. 279-299). (Methods in Molecular Biology; Vol. 2734). Humana Press Inc.. https://doi.org/10.1007/978-1-0716-3523-0_18

Hilgendorf, K., Wang, Y., Miller, M. J., & Jin, Y. S. (2024). Precision fermentation for improving the quality, flavor, safety, and sustainability of foods. Current Opinion in Biotechnology, 86, Article 103084. https://doi.org/10.1016/j.copbio.2024.103084

Hammer, A. J., Gaulke, C. A., Garcia-Jaramillo, M., Leong, C., Morre, J., Sieler, M. J., Stevens, J. F., Jiang, Y., Maier, C. S., Kent, M. L., & Sharpton, T. J. (2024). Gut microbiota metabolically mediate intestinal helminth infection in zebrafish. mSystems, 9(9). https://doi.org/10.1128/msystems.00545-24

Gorenz, B., Oelschlager, M. L., Jespersen, J. C., Cao, C., Smith, A. H., Mackie, R. I., & Dilger, R. N. (2024). Organ growth and fermentation profiles of broilers differing in body growth rate. Poultry science, 103(5), Article 103628. https://doi.org/10.1016/j.psj.2024.103628

Geary, E. L., Vogel, C. L., Oba, P. M., Mioto, J. C., de Godoy, M. R. C., & Swanson, K. S. (2024). Effects of chicken slurry inclusion on apparent total tract macronutrient digestibility, palatability, and fecal characteristics, microbiota, and metabolites of healthy adult dogs. Journal of animal science, 102, Article skae313. https://doi.org/10.1093/jas/skae313

Fleming, S. A., Reyes, S. M., Donovan, S. M., Hernell, O., Jiang, R., Lönnerdal, B., Neu, J., Steinman, L., Sørensen, E. S., West, C. E., Kleinman, R., & Wallingford, J. C. (2024). An expert panel on the adequacy of safety data and physiological roles of dietary bovine osteopontin in infancy. Frontiers in Nutrition, 11, Article 1404303. https://doi.org/10.3389/fnut.2024.1404303

Fernandez-Materan, F. V., Olivos-Caicedo, K. Y., Daniel, S. L., Walden, K. K. O., Fields, C. J., Hernandez, A. G., Alves, J. M. P., & Ridlon, J. M. (2024). Genome sequences of nine Clostridium scindens strains isolated from human feces. Microbiology Resource Announcements, 13(11), Article e00848-24. https://doi.org/10.1128/mra.00848-24

Dong, M., Holle, M. J., Miller, M. J., Banerjee, P., & Feng, H. (2024). Fates of attached E. coli o157:h7 on intact leaf surfaces revealed leafy green susceptibility. Food Microbiology, 119, Article 104432. https://doi.org/10.1016/j.fm.2023.104432

Daniels, V. C., Monaco, M. H., Hirvonen, J., Ouwehand, A. C., Jensen, H. M., Mukerjea, R., Christensen, N., Lehtinen, M. J., Dilger, R. N., & Donovan, S. M. (2024). Interactions between the human milk oligosaccharide 2′-fucosyllactose and Bifidobacterium longum subspecies infantis in influencing systemic immune development and function in piglets. Frontiers in Nutrition, 11, Article 1444594. https://doi.org/10.3389/fnut.2024.1444594

Dai, D., & Jin, Y. S. (2024). Rare sugar bioproduction: advantages as sweeteners, enzymatic innovation, and fermentative frontiers. Current Opinion in Food Science, 56, Article 101137. https://doi.org/10.1016/j.cofs.2024.101137

Cross, T. W. L., Simpson, A. M. R., Lin, C. Y., Hottmann, N. M., Bhatt, A. P., Pellock, S. J., Nelson, E. R., Loman, B. R., Wallig, M. A., Vivas, E. I., Suchodolski, J., Redinbo, M. R., Rey, F. E., & Swanson, K. S. (2024). Gut microbiome responds to alteration in female sex hormone status and exacerbates metabolic dysfunction. Gut Microbes, 16(1), Article 2295429. https://doi.org/10.1080/19490976.2023.2295429

Couturier, M., De Rose, S. A., Cann, I., & Kerou, M. (2024). Editorial: 13th international congress on extremophiles: from extremophilic biomolecules and microorganisms to biotechnological and sustainable applications. Frontiers in Microbiology, 15, Article 1414760. https://doi.org/10.3389/fmicb.2024.1414760

Coates, P. M., Bailey, R. L., Blumberg, J. B., El-Sohemy, A., Floyd, E., Goldenberg, J. Z., Gould Shunney, A., Holscher, H. D., Nkrumah-Elie, Y., Rai, D., Ritz, B. W., & Weber, W. J. (2024). The Evolution of Science and Regulation of Dietary Supplements: Past, Present, and Future. Journal of Nutrition, 154(8), 2335-2345. https://doi.org/10.1016/j.tjnut.2024.06.017

Chou-Zheng, L., Howell, O., Boyle, TA., Hossain, M., Walker, FC., Sheriff, EK., Aslan, B., & Hatoum-Aslan, A. (2024). AcrIIIA1 is a protein–RNA anti-CRISPR complex that targets core Cas and accessory nucleases. Nucleic acids research, Article gkae1006. Advance online publication. https://doi.org/10.1093/nar/gkae1006

Caetano-Silva, M. E., Rund, L., Vailati-Riboni, M., Matt, S., Soto-Diaz, K., Beever, J., Allen, J. M., Woods, J. A., Steelman, A. J., & Johnson, R. W. (2024). The emergence of inflammatory microglia during gut inflammation is not affected by FFAR2 expression in intestinal epithelial cells or peripheral myeloid cells. Brain, Behavior, and Immunity, 118, 423-436. https://doi.org/10.1016/j.bbi.2024.03.016

Caetano-Silva, M. E., Shrestha, A., Duff, A. F., Kontic, D., Brewster, P. C., Kasperek, M. C., Lin, C. H., Wainwright, D. A., Hernandez-Saavedra, D., Woods, J. A., Bailey, M. T., Buford, T. W., & Allen, J. M. (2024). Aging amplifies a gut microbiota immunogenic signature linked to heightened inflammation. Aging Cell, 23(8), Article e14190. Advance online publication. https://doi.org/10.1111/acel.14190

Bianco, C. M., Caballero-Rothar, N. N., Ma, X., Farley, K. R., & Vanderpool, C. K. (2024). Transcriptional and post-transcriptional mechanisms modulate cyclopropane fatty acid synthase through small RNAs in Escherichia coli. Journal of bacteriology, 206(8). https://doi.org/10.1128/jb.00049-24

Basu, A., Adams, A. N. D., Degnan, P. H., & Vanderpool, C. K. (2024). Determinants of raffinose family oligosaccharide use in Bacteroides species. Journal of bacteriology, 206(10), e0023524. Article e00235-24. https://doi.org/10.1128/jb.00235-24

Barton, J. M., McMath, A. L., Montgomery, S. P., Donovan, S. M., & Fiese, B. H. (2024). Longitudinal changes in home food availability and concurrent associations with food and nutrient intake among children at 24-48 months. Public Health Nutrition, 27(1), Article e62. https://doi.org/10.1017/S1368980024000375

Alvarado, D. A., Ibarra-Sánchez, L. A., Mysonhimer, A. R., Khan, T. A., Cao, R., Miller, M. J., & Holscher, H. D. (2024). Honey Varietals Differentially Impact Bifidobacterium animalis ssp. lactis Survivability in Yogurt through Simulated In Vitro Digestion. Journal of Nutrition, 154(3), 866-874. https://doi.org/10.1016/j.tjnut.2024.01.010

Aagaard, K. M., Barkin, S. L., Burant, C. F., Carnell, S., Demerath, E., Donovan, S. M., Eneli, I., Francis, L. A., Gilbert-Diamond, D., Hivert, M. F., LeBourgeois, M. K., Loos, R. J. F., Lumeng, J. C., Miller, A. L., Okely, A. D., Osganian, S. K., Ramirez, A. G., Trasande, L., Van Horn, L. V., ... Yanovski, S. Z. (2024). Understanding risk and causal mechanisms for developing obesity in infants and young children: A National Institutes of Health workshop. Obesity Reviews, 25(4), Article e13690. https://doi.org/10.1111/obr.13690

2023

McLeod, A., Wolf, P., Chapkin, R. S., Davidson, L. A., Ivanov, I., Berbaum, M., Williams, L. R., Gaskins, H. R., Ridlon, J., Sanchez-Flack, J., Blumstein, L., Schiffer, L., Hamm, A., Cares, K., Antonic, M., Bernabe, B. P., Fitzgibbon, M., & Tussing-Humphreys, L. (2023). Design of the Building Research in CRC prevention (BRIDGE-CRC) trial: a 6-month, parallel group Mediterranean diet and weight loss randomized controlled lifestyle intervention targeting the bile acid-gut microbiome axis to reduce colorectal cancer risk among African American/Black adults with obesity. Trials, 24(1), Article 113. https://doi.org/10.1186/s13063-023-07115-4

Guo, B., Holscher, H. D., Auvil, L. S., Welge, M. E., Bushell, C. B., Novotny, J. A., Baer, D. J., Burd, N. A., Khan, N. A., & Zhu, R. (2023). Estimating Heterogeneous Treatment Effect on Multivariate Responses Using Random Forests. Statistics in Biosciences, 15(3), 545-561. https://doi.org/10.1007/s12561-021-09310-w

Yun, E. J., Yu, S., Kim, D. H., Park, N. J., Liu, J. J., Jin, Y. S., & Kim, K. H. (2023). Identification of the enantiomeric nature of 2-keto-3-deoxy-galactonate in the catabolic pathway of 3,6-anhydro-l-galactose. Applied Microbiology and Biotechnology, 107(24), 7427-7438. https://doi.org/10.1007/s00253-023-12807-7

Brukner Havelková, P., Crevecoeur, I., Varadzin, L., Ambrose, S. H., Tartar, E., Thibeault, A., Buckley, M., Villotte, S., & Varadzinová, L. (2023). Patterns of Violence in the Pre-Neolithic Nile Valley. African Archaeological Review, 40(4), 597-619. https://doi.org/10.1007/s10437-023-09533-w

Wu, J., Gathman, R. J., Quintanilla Portillo, J., Gaulke, C., Kim, M., & Stasiewicz, M. J. (2023). Aggregative Soil Sampling Using Boot Covers Compared to Soil Grabs From Commercial Romaine Fields Shows Similar Indicator Organism and Microbial Community Recoveries. Journal of Food Protection, 86(11), Article 100177. https://doi.org/10.1016/j.jfp.2023.100177

Kang, Y., Oba, P. M., Gaulke, C. A., Sánchez-Sánchez, L., & Swanson, K. S. (2023). Dietary Inclusion of Yellow Mealworms (T. molitor) and Lesser Mealworms (A. diaperinus) Modifies Intestinal Microbiota Populations of Diet-Induced Obesity Mice. Journal of Nutrition, 153(11), 3220-3236. https://doi.org/10.1016/j.tjnut.2023.09.007

Park, S., Park, B. R., Jeong, D., Park, J., Ko, J. K., Kim, S. J., Kim, J. S., Jin, Y. S., & Kim, S. R. (2023). Functional expression of RuBisCO reduces CO2 emission during fermentation by engineered Saccharomyces cerevisiae. Process Biochemistry, 134, 286-293. https://doi.org/10.1016/j.procbio.2023.10.013

Resendiz-Moctezuma, C., Fonville, A. P. L., Harsh, B. N., Stasiewicz, M. J., & Miller, M. J. (2023). Use of Doehlert Matrix as a Tool for High-Throughput Screening of Organic Acids and Essential Oils on Miniaturized Pork Loins, Followed by Lab-Scale Validation That Confirmed Tested Compounds Do Not Show Synergistic Effects against Salmonella Typhimurium. Foods, 12(21), Article 4034. https://doi.org/10.3390/foods12214034

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Kim, J., Cheong, Y. E., Yu, S., Yun, E. J., Jin, Y. S., & Kim, K. H. (2023). Biosynthesis of L-fucose and L-fuculose using engineered Saccharomyces cerevisiae. Process Biochemistry, 132, 152-156. https://doi.org/10.1016/j.procbio.2023.07.010

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Holthaus, T. A., Sethi, S., Cannavale, C. N., Aguiñaga, S., Burd, N. A., Holscher, H. D., & Khan, N. A. (2023). MIND dietary pattern adherence is inversely associated with visceral adiposity and features of metabolic syndrome. Nutrition Research, 116, 69-79. https://doi.org/10.1016/j.nutres.2023.06.001

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Mysonhimer, A. R., & Holscher, H. D. (2023). Nondigestible Carbohydrate Consumption: Balancing Therapeutics With Gastrointestinal Effects and Tolerance. Nutrition Today, 58(3), 100-104. https://doi.org/10.1097/NT.0000000000000605

Finet, S., He, F., Utterback, P. L., Parsons, C. M., & de Godoy, M. R. C. (2023). Nutrient profile, amino acid digestibility, true metabolizable energy and indispensable amino acid scoring of whole hemp seeds for use in canine and feline diets. Journal of animal science, Article skad106. https://doi.org/10.1093/jas/skad106

Hughes, R. L., Pindus, D. M., Khan, N. A., Burd, N. A., & Holscher, H. D. (2023). Associations between Accelerometer-Measured Physical Activity and Fecal Microbiota in Adults with Overweight and Obesity. Medicine and Science in Sports and Exercise, 55(4), 680-689. https://doi.org/10.1249/MSS.0000000000003096

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Mysonhimer, A. R., Cannavale, C. N., Bailey, M. A., Khan, N. A., & Holscher, H. D. (2023). Prebiotic Consumption Alters Microbiota but Not Biological Markers of Stress and Inflammation or Mental Health Symptoms in Healthy Adults: A Randomized, Controlled, Crossover Trial. Journal of Nutrition, 153(4), 1283-1296. https://doi.org/10.1016/j.tjnut.2023.02.015

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Hutchinson, N. T., Wang, S. S., Dokhanchi, J., Johnson, R. W., Buford, T. W., Allen, J. M., & Woods, J. A. (2023). Effects of Broad-spectrum Antibiotic Treatment or Germ-free Status on Endurance Performance and Exercise Adaptations in Mice. Medicine and Science in Sports and Exercise, 55(2), 225-234. https://doi.org/10.1249/MSS.0000000000003051

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Cannavale, C. N., Mysonhimer, A. R., Bailey, M. A., Cohen, N. J., Holscher, H. D., & Khan, N. A. (2023). Consumption of a fermented dairy beverage improves hippocampal-dependent relational memory in a randomized, controlled cross-over trial. Nutritional Neuroscience, 26(3), 265-274. https://doi.org/10.1080/1028415X.2022.2046963

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Kim, H. W., Kim, N. K., Thompson, J., de Jesus, M., Rehberger, J., Rehberger, T., Smith, A. H., & Mackie, R. I. (2023). Effects of dosing non-toxigenic Clostridia on the bacterial populations and immunological responses in the intestinal tract of lactating dairy cows. Frontiers in Microbiology, 14, Article 1107964. https://doi.org/10.3389/fmicb.2023.1107964

Shinn, L. M., Mansharamani, A., Baer, D. J., Novotny, J. A., Charron, C. S., Khan, N. A., Zhu, R., & Holscher, H. D. (in press). Fecal Metagenomics to Identify Biomarkers of Food Intake in Healthy Adults: Findings from Randomized, Controlled, Nutrition Trials. Journal of Nutrition. https://doi.org/10.1016/j.tjnut.2023.11.001

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Hsu, C., Utterback, P. L., Parsons, C. M., Marx, F., Guldenpfennig, R., & de Godoy, M. R. C. (2023). Standardized amino acid digestibility and protein quality in extruded canine diets containing hydrolyzed protein using a precision fed rooster assay. Journal of animal science, 101, Article skad289. https://doi.org/10.1093/jas/skad289

Clark, S. D., Hsu, C., McCauley, S. R., De Godoy, M. R. C., He, F., Streeter, R. M., Taylor, E. G., & Quest, B. W. (2023). The impact of protein source and grain inclusion on digestibility, fecal metabolites, and fecal microbiome in adult canines. Journal of animal science, 101, Article skad268. https://doi.org/10.1093/jas/skad268

 

2022

Mysonhimer, A. R., & Holscher, H. D. (2022). Gastrointestinal Effects and Tolerance of Nondigestible Carbohydrate Consumption. Advances in Nutrition, 13(6), 2237-2276. [nmac094]. https://doi.org/10.1093/advances/nmac094

Holscher, H. D., Chumpitazi, B. P., Dahl, W. J., Fahey, G. C., Liska, D. J., Slavin, J. L., & Verbeke, K. (2022). Perspective: Assessing Tolerance to Nondigestible Carbohydrate Consumption. Advances in Nutrition, 13(6), 2084-2097. [nmac091]. https://doi.org/10.1093/advances/nmac091

Hwang, H., Yun, S., Arcanjo, R. B., Divyanshi, Chen, S., Mei, W., Nowak, R. A., Kwon, T., & Yang, J. (2022). Regulation of RNA localization during oocyte maturation by dynamic RNA-ER association and remodeling of the ER. Cell Reports, 41(11), [111802]. https://doi.org/10.1016/j.celrep.2022.111802

Cheong, Y. E., Kim, J., Jin, Y. S., & Kim, K. H. (2022). Elucidation of the fucose metabolism of probiotic Lactobacillus rhamnosus GG by metabolomic and flux balance analyses. Journal of Biotechnology, 360, 110-116. https://doi.org/10.1016/j.jbiotec.2022.11.002

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