Publications
2024
Millis E.G., Smith A.B., Hewlett K., Pless L., Sundermann A.J., Harrison L.H., Zackular J.P., Van Tyne D. Bacteriocin production facilitates nosocomial emergence of vancomycin-resistant Enterococcus faecium. medRxiv [Preprint]. 2024. 2024.08.01.24311290. doi: 10.1101/2024.08.01.24311290.
Ren X.,#, Clark R.M.,#, Bansah D.A., Varner E., Tiffany C.R., Jaswal K., Geary J.H., Todd O.A., Winkelman J.D., Friedman E.S., Zemel B.S., Wu G.D., Zackular J.P., DePas W.H., Behnsen J., Palmer L.D.. Amino acid competition shapes Acinetobacter baumannii gut carriage. BioRxiv 619093 [Preprint]. October 19, 2024. Available from: https://doi.org/10.1101/2024.10.19.619093.
Egan M.S., de Macedo R., Zackular J.P. Metals in the Gut: Microbial Strategies to Overcome Nutritional Immunity in the Intestinal Tract. Metallomics. 2024. Nov 22: mfae052.
Soto Ocaña, J.#, Friedman E.S.#, Keenan, O., Bayard, N.U., Ford E., Tanes C., Munneke M.J., Beavers W.N., Skaar E.P., Bittinger K., Zemel B.S., Wu G.D. †, Zackular J.P. †. Metal availability shapes early life microbial ecology and community succession. mBio. 2024. 15(11): e0153424.
Alameh M.†, Semon, A., Bayard N.U., Pan Y., Knox J., Dwivedi G., Glover R.C., Rangel P.C., Tanes C., Bittinger K., She Q., Maslanka J.R., Planet P.J., Moustafa A.M., Davis B., Chevrier A., Beattie M., Ni H., Blizard G., Furth E.E., Mach R H., Lavertu M., Sellmyer M., Tam Y., Abt M.C., Weissman D.†, Zackular J.P.†. A multivalent mRNA-LNP vaccine protects against Clostridioides difficile infection. Science. 2024. 386 (6717): 69-75.
Ticer T.D., Glover J.S., Dooley S.A., Kendrick J, Zackular J.P., Devkota S., Wu G. D., Engevik A, Engevik M.A. Bacterial metabolites influence the autofluorescence of Clostridioides difficile. Frontiers in Microbiology. 2024. 15:1459795. doi: 10.3389/fmicb.2024.1459795.
Drake M.J., Daniel S.G., Baker L.D., Indugu N., Bittinger K., Dickens C., Zackular J.P., Pitta D., Redding L.E.. Effects of dietary zinc on the gut microbiome and resistome of the gestating cow and neonatal calf. Anim Microbiome. 2024 Jul 19;6(1):39. doi: 10.1186/s42523-024-00326-3.
Rimal B, Collins SL, Tanes CE, Rocha ER, Granda MA, Solanki S, Hoque NJ, Gentry EC, Koo I, Reilly ER, Hao F, Paudel D, Singh V, Yan T, Kim MS, Bittinger K, Zackular JP, Krausz KW, Desai D, Amin S, Coleman JP, Shah YM, Bisanz JE, Gonzalez FJ, Vanden Heuvel JP, Wu GD, Zemel BS, Dorrestein PC, Weinert EE, & Patterson AD. (2024). Bile salt hydrolase catalyses formation of amine-conjugated bile acids. Nature, 626(8000), 859–863. https://doi.org/10.1038/s41586-023-06990-w
Smith, A. B., Specker, J. T., Hewlett, K. K., Scoggins, T. R., 4th, Knight, M., Lustig, A. M., Li, Y., Evans, K. M., Guo, Y., She, Q., Christopher, M. W., Garrett, T. J., Moustafa, A. M., Van Tyne, D., Prentice, B. M., & Zackular, J. P. (2024). Liberation of host heme by Clostridioides difficile-mediated damage enhances Enterococcus faecalis fitness during infection. mBio, 15(1): e0165623. https://doi.org/10.1128/mbio.01656-23
2023
Soto Ocaña, J., Bayard, N. U., Hart, J. L., Thomas, A. K., Furth, E. E., Lacy, D. B., Aronoff, D. M., and Zackular, J. P. (2023). Nonsteroidal anti-inflammatory drugs sensitize epithelial cells to Clostridioides difficile toxin-mediated mitochondrial damage. Science advances, 9(29), eadh5552. https://doi.org/10.1126/sciadv.adh5552
Imdad, A., Pandit, N. G., Ehrlich, J. M., Catania, J., Zaman, M., Smith, A., Tanner-Smith, E. E., Zackular, J. P., & Bhutta, Z. A. (2023). Probiotic Supplementation for Promotion of Growth in Undernourished Children: A Systematic Review and Meta-Analysis. Journal of pediatric gastroenterology and nutrition, 77(6), e84–e92. https://doi.org/10.1097/MPG.0000000000003953
Minkoff, N. Z., Aslam, S., Medina, M., Tanner-Smith, E. E., Zackular, J. P., Acra, S., Nicholson, M. R., & Imdad, A. (2023). Fecal microbiota transplantation for the treatment of recurrent Clostridioides difficile (Clostridium difficile). The Cochrane database of systematic reviews, 4(4), CD013871. https://doi.org/10.1002/14651858.CD013871.pub2
Williams, P. A., Naughton, K. E., Simon, L. A., Soto, G. E., Parham, L. R., Ma, X., Danan, C. H., Hu, W., Friedman, E. S., McMillan, E. A., Mehta, H., Stoltz, M. A., Ocaña, J. S., Zackular, J. P., Bittinger, K., Whelan, K. A., Karakasheva, T. A., & Hamilton, K. E. (2023). Intestinal epithelial autophagy is required for the regenerative benefit of calorie restriction. American journal of physiology. Gastrointestinal and liver physiology, 324(5), G354–G368. https://doi.org/10.1152/ajpgi.00248.2022
Bustin, K. A., Abbas, A., Wang, X., Abt, M. C., Zackular, J. P., & Matthews, M. L. (2023). Characterizing metabolic drivers of Clostridioides difficile infection with activity-based hydrazine probes. Frontiers in pharmacology, 14, 1074619. https://doi.org/10.3389/fphar.2023.1074619
2022
Smith A.B., Jenior M.L., Keenan O., Hart J.L., Specker J, Abbas A, Rangel P.C., Di C., Green J., Bustin K. A., Gaddy J.A., Nicholson M.R., Laut C., Kelly B.J., Matthews M.L, Evans D.L., Van Tyne D., Furth E.E., Papin J.A., Bushman F.D., Erlichman J., Baldassano R.N., Silverman M.A., Dunny G.M., Prentice B.M., Skaar E.P., and Zackular J.P. Enterococci enhance Clostridioides difficile pathogenesis. Nature. 2022. Nature. DOI: 10.1038/s41586-022-05438-x
Specker, J. T., Smith, A. B., Keenan, O., Zackular, J. P., & Prentice, B. M. (2022). Investigation of Microbial Cooperation via Imaging Mass Spectrometry Analysis of Bacterial Colonies Grown on Agar and in Tissue During Infection. Journal of visualized experiments : JoVE, (189), 10.3791/64200. https://doi.org/10.3791/64200
Abbas A. and Zackular J.P. Won’t you be my neighbor? The important of biogeography and nutrient niches in the gut. Cell Host & Microbe. 2022 (30(6): 759-761.
Noto J.M., Pazuelo B.M., Shah S.C., Romero-Gallo J., Hart J.L., Di C., Carmichael J.D., Delgado A.G., Halvorson A.E., Greevy R.A., Wroblewski L.E., Sharma A., Newton A.B., Allaman M.M., Wilson K.T., Washington M.K., Calcutt M.W., Schey K.L., Cummings B.P., Flynn C.R., Zackular J.P., Peek R.M. Iron deficiency linked to altered bile acid metabolism promotes Helicobacter pylori-induced inflammation-driven gastric carcinogenesis. Journal of Clinical Investigation. 2022 (Manuscript in press).
Redding L.E., Tu V, Abbas A, Alvarez M, Zackular J.P., Gu C, Bushman F.D., Kelly D.J., Barnhart D, Lee J.J, Bittinger K.L. Genetic and phenotypic characteristics of Clostridium (Clostridioides) difficile from canine, bovine, and pediatric populations. Anaerobe. 2022 Apr;74:102539. doi: 10.1016/j.anaerobe.2022.102539. Epub 2022 Feb 23. PMID: 35217150.
2021
Soto Ocaña J., Bayard N. U., Zackular J.P. Pain killers: the interplay between nonsteroidal anti-inflammatory drugs and Clostridioides difficile infection. Current Opinions in Microbiology. 2021; 65: 167-174. doi: 10.1016/j.mib.2021.11.011.
Semon AK, Keenan O, Zackular J.P. Clostridioides difficile and the Microbiota Early in Life. J Pediatric Infect Dis Soc. 2021 Nov 17;10(Supplement_3):S3-S7. doi: 10.1093/jpids/piab063.
Catania J., Pandit N.G., Hrlich J.M., Zama M., Stone E., Franceschi C., Smith A., Tanner-Smith E., Zackular J.P., Bhutta Z.A., Imdad A.. Probiotic Supplementation for Promotion of Growth in Children: A Systematic Review and Meta-Analysis. Nutrients. 2021. 14 (1):83.
Kociolek L.K., Burnham C.D., Nicholeson M.R., and Zackular J.P. Clostridioides difficile Infection in Children: Research Progress, Pitfalls, and Priorities. The Journal of Pediatric Infectious Disease Society. 2021. 10(Supplement_3):S1-S2.
Kociolek L.K., Zackular J.P., Savidge T. Translational Aspects of the Immunology of Clostridioides difficile Infection: Implications for Pediatric Populations. The Journal of Pediatric Infectious Disease Society. 2021. 10(Supplement_3):S8-S15.
2020
Zackular J.P.*, Knippel R.J.*, Lopez C.A., Beavers W.N., Maxwell N., Chazin W., Skaar E.P. ZupT facilitates Clostridioides difficile resistance to host-mediated nutritional immunity. mSphere. 2020; 11;5(2). pii: e00061-20. doi: 10.1128/mSphere.00061-20.
Bushman F.D., Conrad M., Ren Y., Zhao C., Gu C., Petucci C., Kim M., Abbas A., Downes K.J., Devas N., Mattei L.M., Breton, J., Kelsen J., Marakos S., Galgano A., Kachelries K., Erlichman J., Hart J.L., Moraskie M., Kim D., Zhang H., Hofstaedter C. E., Wu G.D., Lewis J.D., Zackular J.P., Li Hongzhe, Bittinger K., Baldassano R. Multi-Omics Analysis of the Interaction between Clostridioides difficile Infection and Pediatric Inflammatory Bowel Disease. Cell Host and Microbe. 2020; 28: 422-433.e7.
Smith A.B., Soto Ocana J., and Zackular J.P. From Nursery to Nursing House: Emerging Concepts in Clostridioides difficile Pathogenesis. Infection and Immunity. 2020; doi: 10.1128/IAI.00934-19.
Abbas A. and Zackular J.P. Microbe-microbe Interactions During Clostridioides difficile Infection. Curr Opin Microbiol. 2020; 53: 19-25.
2019
Lopez C.A., Beavers W.N., Weiss A., Knippel R.J., Zackular J.P., Chazin W., Skaar E.P. The immune protein calprotectin impacts Clostridioides difficile metabolism through zinc limitation. mBio; 10(6): e02289-19.
Sakowski R., Uritskiy G., Cooper R., Gomes M., McLaren M.R., Meisel J., Mickol R.L., Mintz C.D., Mongodin E., Pop M., Rahman M.A., Sanchez A, Timp W, Delgado Vela J., Wolz C.M., Zackular J.P., Chopyk J, Commichaux S, Davis M, Dluzen D, Ganesan S.M., Haruna M., Nasko D., Regan M.J., Sarria S., Shah N., Stacy B., Taylor D., DiRuggiero J., Preheim S.P. Current state and future opportunities for prediction in microbiome research. mSystems. 2019; 4(5): e00392-19.
Zackular J.P., Kirk Leslie, Trindade B.C., Skaar E.P., and Aronoff D.M. Misoprostol Protects Mice Against Severe Clostridium difficile Infection and Promotes Recovery of the Gut Microbiota after Antibiotic Perturbation. Anaerobe. 2019; 58: 89-94.
Noto J.M.*, Zackular J.P.*, Varga M.G., Romero-Gallo J., Piazuelo M.B., Scholz M.B., Skaar E.P., Peek R.M. Modification of the Gastric Mucosal Microbiota by a Strain-Specific Helicobacter pylori Oncoprotein and Carcinogenic Histologic Phenotype. mBio. 2019; 10 (3): e00955-19
Maseda D.*, Zackular J.P.*, Trindade B., Kirk L., Crofford L.J., Schloss P.D., Roxas J.L., Viswanathan V.K., Vedantam G., Rogers L.M., Washington M.K., Skaar E.P., and Aronoff D.M. Nonsteroidal anti-inflammatory drugs alter the microbiota and exacerbate Clostridium difficile colitis while dysregulating the inflammatory response. mBio. 2019; 10(1): e02282-18.
2018
Knippel R.J., Zackular J.P., Moore J.L., Celis A.I., Weiss A., Washington M.K., DuBois J.L., Caprioli R.M., and Skaar E.P. Heme sensing and detoxification by HatRT contributes to pathogenesis during C. difficile infection. PLoS Pathogens. 2018; 14(12): e1007486.
Martinez K.A., Romano-Keeler J., Zackular J.P., Moore D.J., Brucker R.M., Hooper C., Meng S., Brown N., Mallal S., Bordenstein S.R., Aronoff D.M., Reese J., Shin H., Dominguez-Bellow M.G., Weitkamp J.H. Bacterial DNA is Present in the Fetal Intestine and Overlaps with the Placenta. PLoS ONE. 2018; 13(5): e0197439.
Imdad A, Nicholson M.R., Tanner-Smith E.E., Zackular J.P., Gomez-Duarte O, Borromeo Beaulieu D.M., Acra S. Fecal Transplantation for Treatment of Inflammatory Bowel Disease. The Cochrane Database of Systematic Reviews. 2017; 8: Art. No. CD012774.
Zackular J.P. and Skaar E.P. The Role of Zinc and Nutritional Immunity in Clostridium difficile Infection. Gut Microbes. 2018; 9(5): 469-76.
2017
Juttukonda L.J., Berends E.T.M, Zackular J.P., Stier M.T., Moore J.L., Zhang Y, Schmitz J.E., Beavers W.N., Wijers C.D., Kehl-Fie T, Atkinson J, Peebels R.S., Torres V.J., Caprioli R.M., and Skaar E.P. Dietary manganese promotes staphylococcal infection of the heart. Cell Host and Microbe. 2017; 22: 1-12.
2016
Zackular J.P., Moore J.L., Jordan A.T., Juttukonda L.J., Noto M.J., Nicholson M.R., Crews J.D., Semler M.W., Zhang Y., Ware L.B., Washington M.K., Chazin W.J., Caprioli R.M., and Skaar E.P. Dietary Zinc Alters the Microbiota and Decreases Resistance to Clostridium difficile Infection. Nature Medicine. 2016; 22(11):1330-34.
2015
Zackular J.P., Baxter N.T., Chen G.Y., and Schloss P.D. Manipulation of the Gut Microbiome Reveals Role for in Colorectal Cancer. mSphere. 2015; 1(1); e00001-15.
Zackular J.P., Chazin W.J., and Skaar E.P. Nutritional immunity: S100 proteins at the host-pathogen interface. Journal of Biological Chemistry, 2015; pii: jbc.R115.645085.
2014
Zackular J.P., Rogers M.A., Ruffin M.T., and Schloss P.D. The Human Gut Microbiome as a Screening Tool for Colorectal Cancer. Cancer Prevention Research, 2014; 7(11); 1112–21.
Baxter N.T.*, Zackular J.P.*, Iverson K.D., Chen G.Y., and Schloss P.D. Structure of the Gut Microbiome Following Colonization with Human Feces Determines Colonic Tumor Burden. Microbiome, 2014; 2(20).
2013
Zackular J.P., Baxter N.T., Iverson K.D., Sadler W.D., Petrosino J.F., Chen G.Y., and Schloss P.D.. The Gut Microbiome Modulates Colon Tumorigenesis. mBio, 2013;4(5):e00692-13.
2012
Schloss P.D., Schubert A.S., Zackular J.P., Iverson K.D., Young V.B., and Petrosino JF. Stabilization of the Murine Gut Microbiome Following Weaning. Gut Microbes, 2012;3(4):383-93.
#Denotes co-first authorship
†Denotes co-corresponding author