Publications

  1. Nikolaidis M, Hu C, Juran BD, McCauley BM, Schlicht EM, Bianchi JK, Ali AH, Tragaki V, Atkinson EJ, Johnson S, Mars RA, Eaton JE, Carey EJ, Franke A, Schramm C, Kashyap PC, Go YM, Tran V, Teeny S, Jones DP, Grant CW, Athreya AP, Miller GW, LaRusso NF, Gores GJ, Karlsen TH, Hov JR, Amoutzias GD, Lazaridis KN. Compositional and functional differences of gut microbiome and metabolome inform pathogenesis of cholestatic liver disease. Gut Microbes. 2026 Dec 31; 18 (1):2655793 Epub 2026 Apr 13
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  2. Damianos JA, Matar A, Carlson P, Busciglio I, Jencks KJ, Johnson S, Mars RA, Kashyap PC, Harmsen WS, Camilleri M. Clinical Trial: Multi-Strain Probiotic Improves Bile Acid Profile, Microbiome, and Metabolomic Parameters in Patients With History of Bile Acid Malabsorption-A Randomized, Controlled Trial. Aliment Pharmacol Ther. 2026 Jul 23 Epub 2026 July 23
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  3. Hajjar R, Mars RAT, Kashyap PC. Harnessing the microbiome for cancer therapy. Nat Rev Microbiol. 2026 Jun; 24 (6):392-407 Epub 2026 Jan 05
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  4. Nunez H, Straub TJ, Imam N, Goad D, Mueller NT, Mars RAT, Sew Hoy C, Paullin T, Sukhum KV. Age-specific early-life gut microbiome associations with eczema and food allergies during early immune development. Front Microbiomes. 2026; 5:1804117 Epub 2026 May 29
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  5. Comba IY, Louwies T, Mars RA, Xiao Y, Sekhon PK, Edwards BS, Willits A, Shields-Cutler RR, Bellampalli S, Mercado-Perez A, Tienter DR, Till LM, Linden DR, Farrugia G, Beyder A, Smith-Edwards KM, Kashyap PC. Distinct human small intestinal microbiome communities underlie visceral hypersensitivity in a humanized mouse model. J Clin Invest. 2025 Dec 15; 135 (24) Epub 2025 Oct 23
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  6. Nunez H, Nieto PA, Mars RA, Ghavami M, Sew Hoy C, Sukhum K. Early life gut microbiome and its impact on childhood health and chronic conditions. Gut Microbes. 2025 Dec; 17 (1):2463567 Epub 2025 Feb 07
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  7. Nieto PA, Nakama C, Trachsel J, Goad D, Soderborg TK, Tan DS, Orlandi A, Yuan Q, Song E, Mueller NT, Mars RA, Hoy CS, Sukhum KV. Improving immune-related health outcomes post-cesarean birth with a gut microbiome-based program: A randomized controlled trial. Pediatr Allergy Immunol. 2025 Sep; 36 (9):e70182
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  8. Gawey BJ, Mars RA, Kashyap PC. The role of the gut microbiome in disorders of gut-brain interaction. FEBS J. 2025 Mar; 292 (6):1357-1377 Epub 2024 June 23
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  9. Thirupathi K, Ghozy S, Reda A, Ranatunga WK, Ruben MA, Armin Z, Mereuta OM, Prabhjot S, Dai D, Brinjikji W, Kallmes DF, Kadirvel R. Metagenomic Insights into Microbial Signatures in Thrombi from Acute Ischemic Stroke Patients Undergoing Endovascular Treatment. Brain Sci. 2025 Feb 6; 15 (2) Epub 2025 Feb 06
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  10. Blankenberger A, Lesmana E, Yang L, Comba IY, Edwinson A, Breen-Lyles M, Keehn A, Patel R, Chen J, Mars RA, Kashyap P, Farrugia G, Grover M. Longitudinal Changes in the Gut Microbiome of Patients With Irritable Bowel Syndrome After Campylobacter Infection are Associated With Proteolytic Activity. Gastro Hep Adv. 2025; 4 (8):100683 Epub 2025 Apr 24
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  11. Comba IY, Mars RAT, Yang L, Dumais M, Chen J, Van Gorp TM, Harrington JJ, Sinnwell JP, Johnson S, Holland LA, Khan AK, Lim ES, Aakre C, Athreya AP, Gerber GK, O'Horo JC, Lazaridis KN, Kashyap PC. Gut Microbiome Signatures During Acute Infection Predict Long COVID. bioRxiv 2024 Dec 11
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  12. Xiao Y, Louwies T, Mars RAT, Kashyap PC. The Human Microbiome-A Physiologic Perspective. Compr Physiol. 2024 Jun 27; 14 (3):5491-5519 Epub 2024 June 27
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  13. Priya S, Burns MB, Ward T, Mars RAT, Adamowicz B, Lock EF, Kashyap PC, Knights D, Blekhman R. Identification of shared and disease-specific host gene-microbiome associations across human diseases using multi-omic integration. Nat Microbiol. 2022 Jun; 7 (6):780-795 Epub 2022 May 16
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  14. Schupack DA, Mars RAT, Voelker DH, Abeykoon JP, Kashyap PC. The promise of the gut microbiome as part of individualized treatment strategies. Nat Rev Gastroenterol Hepatol. 2022 Jan; 19 (1):7-25 Epub 2021 Aug 27
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  15. Mihindukulasuriya KA, Mars RAT, Johnson AJ, Ward T, Priya S, Lekatz HR, Kalari KR, Droit L, Zheng T, Blekhman R, D'Amato M, Farrugia G, Knights D, Handley SA, Kashyap PC. Multi-Omics Analyses Show Disease, Diet, and Transcriptome Interactions With the Virome. Gastroenterology. 2021 Oct; 161 (4):1194-1207.e8 Epub 2021 July 07
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  16. Brochet S, Quinn A, Mars RA, Neuschwander N, Sauer U, Engel P. Niche partitioning facilitates coexistence of closely related honey bee gut bacteria. Elife. 2021 Jul 19; 10 Epub 2021 July 19
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  17. Blasche S, Kim Y, Mars RAT, Machado D, Maansson M, Kafkia E, Milanese A, Zeller G, Teusink B, Nielsen J, Benes V, Neves R, Sauer U, Patil KR. Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community. Nat Microbiol. 2021 Feb; 6 (2):196-208 Epub 2021 Jan 04
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  18. Mars RAT, Frith M, Kashyap PC. Functional Gastrointestinal Disorders and the Microbiome-What Is the Best Strategy for Moving Microbiome-based Therapies for Functional Gastrointestinal Disorders into the Clinic? Gastroenterology. 2021 Jan; 160 (2):538-555 Epub 2020 Nov 28
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  19. Bhattarai Y, Jie S, Linden DR, Ghatak S, Mars RAT, Williams BB, Pu M, Sonnenburg JL, Fischbach MA, Farrugia G, Sha L, Kashyap PC. Bacterially Derived Tryptamine Increases Mucus Release by Activating a Host Receptor in a Mouse Model of Inflammatory Bowel Disease. iScience. 2020 Dec 18; 23 (12):101798 Epub 2020 Nov 13
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  20. Mars RAT, Yang Y, Ward T, Houtti M, Priya S, Lekatz HR, Tang X, Sun Z, Kalari KR, Korem T, Bhattarai Y, Zheng T, Bar N, Frost G, Johnson AJ, van Treuren W, Han S, Ordog T, Grover M, Sonnenburg J, D'Amato M, Camilleri M, Elinav E, Segal E, Blekhman R, Farrugia G, Swann JR, Knights D, Kashyap PC. Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome. Cell. 2020 Sep 17; 182 (6):1460-1473.e17 Epub 2020 Sept 10
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  21. Dreisbach A, Wang M, van der Kooi-Pol MM, Reilman E, Koedijk DGAM, Mars RAT, Duipmans J, Jonkman M, Benschop JJ, Bonarius HPJ, Groen H, Hecker M, Otto A, Basell K, Bernhardt J, Back JW, Becher D, Buist G, van Dijl JM. Tryptic Shaving of Staphylococcus aureus Unveils Immunodominant Epitopes on the Bacterial Cell Surface. J Proteome Res. 2020 Aug 7; 19 (8):2997-3010 Epub 2020 June 25
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  22. Dujardin CE, Mars RAT, Manemann SM, Kashyap PC, Clements NS, Hassett LC, Roger VL. Impact of air quality on the gastrointestinal microbiome: A review. Environ Res. 2020 Jul; 186:109485 Epub 2020 Apr 07
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  23. Kesnerova L, Mars RAT, Ellegaard KM, Troilo M, Sauer U, Engel P. Disentangling metabolic functions of bacteria in the honey bee gut. PLoS Biol. 2017 Dec; 15 (12):e2003467 Epub 2017 Dec 12
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  24. Mars RA, Nicolas P, Denham EL, van Dijl JM. Regulatory RNAs in Bacillus subtilis: a Gram-Positive Perspective on Bacterial RNA-Mediated Regulation of Gene Expression. Microbiol Mol Biol Rev. 2016 Dec; 80 (4):1029-1057 Epub 2016 Oct 26
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  25. Garcia De Gonzalo CV, Denham EL, Mars RA, Stulke J, van der Donk WA, van Dijl JM. The phosphoenolpyruvate:sugar phosphotransferase system is involved in sensitivity to the glucosylated bacteriocin sublancin. Antimicrob Agents Chemother. 2015 Nov; 59 (11):6844-54 Epub 2015 Aug 17
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  26. Mars RA, Mendonca K, Denham EL, van Dijl JM. The reduction in small ribosomal subunit abundance in ethanol-stressed cells of Bacillus subtilis is mediated by a SigB-dependent antisense RNA. Biochim Biophys Acta. 2015 Oct; 1853 (10 Pt A):2553-9 Epub 2015 June 24
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  27. Mars RA, Nicolas P, Ciccolini M, Reilman E, Reder A, Schaffer M, Mader U, Volker U, van Dijl JM, Denham EL. Small regulatory RNA-induced growth rate heterogeneity of Bacillus subtilis. PLoS Genet. 2015 Mar; 11 (3):e1005046 Epub 2015 Mar 19
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  28. Reilman E, Mars RA, van Dijl JM, Denham EL. The multidrug ABC transporter BmrC/BmrD of Bacillus subtilis is regulated via a ribosome-mediated transcriptional attenuation mechanism. Nucleic Acids Res. 2014 Oct; 42 (18):11393-407 Epub 2014 Sept 12
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  29. Goosens VJ, Mars RA, Akeroyd M, Vente A, Dreisbach A, Denham EL, Kouwen TR, van Rij T, Olsthoorn M, van Dijl JM. Is proteomics a reliable tool to probe the oxidative folding of bacterial membrane proteins? Antioxid Redox Signal. 2013 Apr 1; 18 (10):1159-64 Epub 2012 June 11
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  30. Nicolas P, Mader U, Dervyn E, Rochat T, Leduc A, Pigeonneau N, Bidnenko E, Marchadier E, Hoebeke M, Aymerich S, Becher D, Bisicchia P, Botella E, Delumeau O, Doherty G, Denham EL, Fogg MJ, Fromion V, Goelzer A, Hansen A, Hartig E, Harwood CR, Homuth G, Jarmer H, Jules M, Klipp E, Le Chat L, Lecointe F, Lewis P, Liebermeister W, March A, Mars RA, Nannapaneni P, Noone D, Pohl S, Rinn B, Rugheimer F, Sappa PK, Samson F, Schaffer M, Schwikowski B, Steil L, Stulke J, Wiegert T, Devine KM, Wilkinson AJ, van Dijl JM, Hecker M, Volker U, Bessieres P, Noirot P. Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis. Science. 2012 Mar 2; 335 (6072):1103-6
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