Publications

Recent Publications

1. Portal bile acid composition and microbiota along the murine intestinal tract exhibit sex differences in physiology.
   Reichardt F, Lucas LN, Okyere L, Choi J, Amador-Noguez D, Gaulke CA, Anakk S.Gut Microbes. 2025 Dec;17(1):2540483. doi: 10.1080/19490976.2025.2540483. Epub 2025 Aug 4.PMID: 40760771 Free article.2Cite 
2. Influence of Housing, Sex, and Sampling Location on Taxonomy and Function of Adult Zebrafish Microbiomes.
   Wanyama JW, Okyere L, Duan L, Gaulke CA.bioRxiv [Preprint]. 2025 May 8:2025.05.08.652836. doi: 10.1101/2025.05.08.652836.PMID: 40654784 Free PMC article. Preprint.3Cite 
3. Maternal vaccination partially protects piglets against influenza A virus associated alteration of the microbiome and hippocampal gene expression.
   Gaulke CA, Yuan F, Yang L, Duan L, Connolly MG, Hsiao SH, Antonson AM, Fang Y.Vet Microbiol. 2025 Jul;306:110544. doi: 10.1016/j.vetmic.2025.110544. Epub 2025 May 7.PMID: 40359780 Free article.4Cite 
4. Cooked Broccoli Alters Cecal Microbiota and Impacts Microbial Metabolism of Glucoraphanin in Lean and Obese Mice.
   Zhao A, Li J, Peterson M, Black M, Gaulke CA, Jeffery EH, Miller MJ.Mol Nutr Food Res. 2025 Mar;69(6):e202400813. doi: 10.1002/mnfr.202400813. Epub 2025 Feb 17.PMID: 39962804 Free PMC article.5Cite 
5. Comparative analysis of the Streptococcus pneumoniae competence development in vitro versus in vivo during pneumonia-derived sepsis.
   Chong SY, Lew SQ, Alam T, Gaulke CA, Lau GW.Front Microbiol. 2025 Jan 28;16:1540511. doi: 10.3389/fmicb.2025.1540511. eCollection 2025.PMID: 39935640 Free PMC article.6Cite 
6. Gut microbiota metabolically mediate intestinal helminth infection in zebrafish.
   Hammer AJ, Gaulke CA, Garcia-Jaramillo M, Leong C, Morre J, Sieler MJ Jr, Stevens JF, Jiang Y, Maier CS, Kent ML, Sharpton TJ.mSystems. 2024 Sep 17;9(9):e0054524. doi: 10.1128/msystems.00545-24. Epub 2024 Aug 27.PMID: 39191377 Free PMC article.7Cite 
7. Decoding the exposome: data science methodologies and implications in exposome-wide association studies (ExWASs).
   Chung MK, House JS, Akhtari FS, Makris KC, Langston MA, Islam KT, Holmes P, Chadeau-Hyam M, Smirnov AI, Du X, Thessen AE, Cui Y, Zhang K, Manrai AK, Motsinger-Reif A, Patel CJ; Members of the Exposomics Consortium.Exposome. 2024 Jan 17;4(1):osae001. doi: 10.1093/exposome/osae001. eCollection 2024.PMID: 38344436 Free PMC article.8Cite 
8. A neonatal piglet model reveals interactions between nasal microbiota and influenza A virus pathogenesis.
   Yuan F, Yang L, Hsiao SH, Herndon NL, Gaulke CA, Fang Y.Virology. 2024 Apr;592:109996. doi: 10.1016/j.virol.2024.109996. Epub 2024 Jan 20.PMID: 38301448 Free article.9Cite 
9. Aggregative Soil Sampling Using Boot Covers Compared to Soil Grabs From Commercial Romaine Fields Shows Similar Indicator Organism and Microbial Community Recoveries.
   Wu J, Gathman RJ, Quintanilla Portillo J, Gaulke C, Kim M, Stasiewicz MJ.J Food Prot. 2023 Nov;86(11):100177. doi: 10.1016/j.jfp.2023.100177. Epub 2023 Oct 5.PMID: 37805043 Free article.10Cite 
10. Dietary Inclusion of Yellow Mealworms (T. molitor) and Lesser Mealworms (A. diaperinus) Modifies Intestinal Microbiota Populations of Diet-Induced Obesity Mice.
    Kang Y, Oba PM, Gaulke CA, Sánchez-Sánchez L, Swanson KS.J Nutr. 2023 Nov;153(11):3220-3236. doi: 10.1016/j.tjnut.2023.09.007. Epub 2023 Sep 14.PMID: 37714334 Free article.11Cite 
11. Dietary and lifestyle associations with microbiome diversity.
    Watson KM, Siemens KN, Anand S, Gardner IH, Sharpton TJ, Dewey EN, Martindale R, Gaulke CA, Tsikitis VL.Gut Pathog. 2022 Dec 23;14(1):49. doi: 10.1186/s13099-022-00525-w.PMID: 36564812 Free PMC article.12Cite 
12. Age and micronutrient effects on the microbiome in a mouse model of zinc depletion and supplementation.
    Davis EW 2nd, Wong CP, Arnold HK, Kasschau K, Gaulke CA, Sharpton TJ, Ho E.PLoS One. 2022 Dec 19;17(12):e0275352. doi: 10.1371/journal.pone.0275352. eCollection 2022.PMID: 36534653 Free PMC article.13Cite 
13. Draft Genome Sequence of Plesiomonas shigelloides Strain zfcc0051 (Phylum Proteobacteria).
    VanderHoek ZK, Browning AM, Washburn Q, Kent ML, Sharpton TJ, Gaulke CA.Microbiol Resour Announc. 2022 Jul 21;11(7):e0007422. doi: 10.1128/mra.00074-22. Epub 2022 May 31.PMID: 35639031 Free PMC article.14Cite 
14. Effect of Killed PRRSV Vaccine on Gut Microbiota Diversity in Pigs.
    Yuan F, Sharma J, Nanjappa SG, Gaulke CA, Fang Y.Viruses. 2022 May 18;14(5):1081. doi: 10.3390/v14051081.PMID: 35632822 Free PMC article.15Cite 
15. Colonic Microbial Abundances Predict Adenoma Formers.
    Watson KM, Gardner IH, Anand S, Siemens KN, Sharpton TJ, Kasschau KD, Dewey EN, Martindale R, Gaulke CA, Tsikitis VL.Ann Surg. 2023 Apr 1;277(4):e817-e824. doi: 10.1097/SLA.0000000000005261. Epub 2021 Oct 22.PMID: 35129506 Free PMC article.16Cite 
16. Evaluation of the Effects of Library Preparation Procedure and Sample Characteristics on the Accuracy of Metagenomic Profiles.
    Gaulke CA, Schmeltzer ER, Dasenko M, Tyler BM, Vega Thurber R, Sharpton TJ.mSystems. 2021 Oct 26;6(5):e0044021. doi: 10.1128/mSystems.00440-21. Epub 2021 Oct 12.PMID: 34636674 Free PMC article.17Cite 
17. Erratum to “Harnessing the gut microbiome in the fight against anthelminthic drug resistance” [Curr. Opin. Microbiol. 53 (February) (2020) 26-34].
    Sharpton TJ, Combrink L, Arnold HK, Gaulke CA, Kent M.Curr Opin Microbiol. 2021 Aug;62:114. doi: 10.1016/j.mib.2021.01.003. Epub 2021 Feb 9.PMID: 33579645 No abstract available.18Cite 
18. Transkingdom interactions between Lactobacilli and hepatic mitochondria attenuate western diet-induced diabetes.
    Rodrigues RR, Gurung M, Li Z, García-Jaramillo M, Greer R, Gaulke C, Bauchinger F, You H, Pederson JW, Vasquez-Perez S, White KD, Frink B, Philmus B, Jump DB, Trinchieri G, Berry D, Sharpton TJ, Dzutsev A, Morgun A, Shulzhenko N.Nat Commun. 2021 Jan 4;12(1):101. doi: 10.1038/s41467-020-20313-x.PMID: 33397942 Free PMC article.19Cite 
19. Understanding the microbiome: a primer on the role of the microbiome in colorectal neoplasia.
    Watson KM, Gaulke CA, Tsikitis VL.Ann Gastroenterol. 2020 May-Jun;33(3):223-236. doi: 10.20524/aog.2020.0467. Epub 2020 Mar 14.PMID: 32382225 Free PMC article. Review.20Cite 
20. Harnessing the gut microbiome in the fight against anthelminthic drug resistance.
    Sharpton TJ, Combrink L, Arnold HK, Gaulke CA, Kent M.Curr Opin Microbiol. 2020 Feb;53:26-34. doi: 10.1016/j.mib.2020.01.017. Epub 2020 Feb 28.PMID: 32114334 Free PMC article. Review.21Cite 
21. PPARα-targeted mitochondrial bioenergetics mediate repair of intestinal barriers at the host-microbe intersection during SIV infection.
    Crakes KR, Santos Rocha C, Grishina I, Hirao LA, Napoli E, Gaulke CA, Fenton A, Datta S, Arredondo J, Marco ML, Sankaran-Walters S, Cortopassi G, Giulivi C, Dandekar S.Proc Natl Acad Sci U S A. 2019 Dec 3;116(49):24819-24829. doi: 10.1073/pnas.1908977116. Epub 2019 Nov 18.PMID: 31740620 Free PMC article.22Cite 
22. Further evaluation of the efficacy of emamectin benzoate for treating Pseudocapillaria tomentosa (Dujardin 1843) in zebrafish Danio rerio (Hamilton 1822).
    Kent ML, Watral V, Gaulke CA, Sharpton TJ.J Fish Dis. 2019 Oct;42(10):1351-1357. doi: 10.1111/jfd.13057. Epub 2019 Jul 15.PMID: 31309582 Free PMC article.23Cite 
23. Viability of Pseudocapillaria tomentosa Eggs Exposed to Heat, Ultraviolet Light, Chlorine, Iodine, and Desiccation.
    Kent ML, Watral V, Villegas EN, Gaulke CA.Zebrafish. 2019 Oct;16(5):460-468. doi: 10.1089/zeb.2019.1736. Epub 2019 Jun 19.PMID: 31216245 Free PMC article.24Cite 
24. A longitudinal assessment of host-microbe-parasite interactions resolves the zebrafish gut microbiome’s link to Pseudocapillaria tomentosa infection and pathology.
    Gaulke CA, Martins ML, Watral VG, Humphreys IR, Spagnoli ST, Kent ML, Sharpton TJ.Microbiome. 2019 Jan 24;7(1):10. doi: 10.1186/s40168-019-0622-9.PMID: 30678738 Free PMC article.25Cite 
25. Marginal Zinc Deficiency and Environmentally Relevant Concentrations of Arsenic Elicit Combined Effects on the Gut Microbiome.
    Gaulke CA, Rolshoven J, Wong CP, Hudson LG, Ho E, Sharpton TJ.mSphere. 2018 Dec 5;3(6):e00521-18. doi: 10.1128/mSphere.00521-18.PMID: 30518676 Free PMC article.26Cite 
26. Pseudocapillaria tomentosa in laboratory zebrafish Danio rerio: patterns of infection and dose response.
    Kent ML, Gaulke CA, Watral V, Sharpton TJ.Dis Aquat Organ. 2018 Nov 6;131(2):121-131. doi: 10.3354/dao03286.PMID: 30460918 Free PMC article.27Cite 
27. The influence of ethnicity and geography on human gut microbiome composition.
    Gaulke CA, Sharpton TJ.Nat Med. 2018 Oct;24(10):1495-1496. doi: 10.1038/s41591-018-0210-8.PMID: 30275567 No abstract available.28Cite 
28. Ecophylogenetics Clarifies the Evolutionary Association between Mammals and Their Gut Microbiota.
    Gaulke CA, Arnold HK, Humphreys IR, Kembel SW, O’Dwyer JP, Sharpton TJ.mBio. 2018 Sep 11;9(5):e01348-18. doi: 10.1128/mBio.01348-18.PMID: 30206171 Free PMC article.29Cite 
29. Correction for Gaulke et al., “Intestinal Epithelial Barrier Disruption through Altered Mucosal MicroRNA Expression in Human Immunodeficiency Virus and Simian Immunodeficiency Virus Infections”.
    Gaulke CA, Porter M, Han YH, Sankaran-Walters S, Grishina I, George MD, Dang AT, Ding SW, Jiang G, Korf I, Dandekar S.J Virol. 2018 May 29;92(12):e00548-18. doi: 10.1128/JVI.00548-18. Print 2018 Jun 15.PMID: 29844248 Free PMC article. No abstract available.30Cite 
30. Draft Genome Sequence of Pseudomonas sp. Strain DrBHI1 (Phylum Proteobacteria).
    Wilson AK, Watral VG, Kent ML, Sharpton TJ, Gaulke CA.Genome Announc. 2017 Sep 28;5(39):e01090-17. doi: 10.1128/genomeA.01090-17.PMID: 28963227 Free PMC article.31Cite 
31. Development of Inflammatory Bowel Disease Is Linked to a Longitudinal Restructuring of the Gut Metagenome in Mice.
    Sharpton T, Lyalina S, Luong J, Pham J, Deal EM, Armour C, Gaulke C, Sanjabi S, Pollard KS.mSystems. 2017 Sep 5;2(5):e00036-17. doi: 10.1128/mSystems.00036-17. eCollection 2017 Sep-Oct.PMID: 28904997 Free PMC article.32Cite 
32. Complex interactive effects of water mold, herbicide, and the fungus Batrachochytrium dendrobatidis on Pacific treefrog Hyliola regilla hosts.
    Romansic JM, Johnson JE, Wagner RS, Hill RH, Gaulke CA, Vredenburg VT, Blaustein AR.Dis Aquat Organ. 2017 Mar 21;123(3):227-238. doi: 10.3354/dao03094.PMID: 28322209 Clinical Trial.33Cite 
33. Triclosan Exposure Is Associated with Rapid Restructuring of the Microbiome in Adult Zebrafish.
    Gaulke CA, Barton CL, Proffitt S, Tanguay RL, Sharpton TJ.PLoS One. 2016 May 18;11(5):e0154632. doi: 10.1371/journal.pone.0154632. eCollection 2016.PMID: 27191725 Free PMC article.34Cite 
34. Loss of Multicellular Behavior in Epidemic African Nontyphoidal Salmonella enterica Serovar Typhimurium ST313 Strain D23580.
    Singletary LA, Karlinsey JE, Libby SJ, Mooney JP, Lokken KL, Tsolis RM, Byndloss MX, Hirao LA, Gaulke CA, Crawford RW, Dandekar S, Kingsley RA, Msefula CL, Heyderman RS, Fang FC.mBio. 2016 Mar 1;7(2):e02265. doi: 10.1128/mBio.02265-15.PMID: 26933058 Free PMC article.35Cite 
35. Modeling the Context-Dependent Associations between the Gut Microbiome, Its Environment, and Host Health.
    Sharpton TJ, Gaulke CA.mBio. 2015 Sep 8;6(5):e01367-15. doi: 10.1128/mBio.01367-15.PMID: 26350971 Free PMC article.36Cite 
36. SIV-infection-driven changes of pattern recognition receptor expression in mesenteric lymph nodes and gut microbiota dysbiosis.
    Glavan TW, Gaulke CA, Hirao LA, Sankaran-Walters S, Dandekar S.J Med Primatol. 2015 Oct;44(5):241-52. doi: 10.1111/jmp.12187. Epub 2015 Aug 14.PMID: 2627515737Cite 
37. Intestinal epithelial barrier disruption through altered mucosal microRNA expression in human immunodeficiency virus and simian immunodeficiency virus infections.
    Gaulke CA, Porter M, Han YH, Sankaran-Walters S, Grishina I, George MD, Dang AT, Ding SW, Jiang G, Korf I, Dandekar S.J Virol. 2014 Jun;88(11):6268-80. doi: 10.1128/JVI.00097-14. Epub 2014 Mar 26.PMID: 24672033 Free PMC article.38Cite 
38. Chronic HIV infection enhances the responsiveness of antigen presenting cells to commensal Lactobacillus.
    Nagy LH, Grishina I, Macal M, Hirao LA, Hu WK, Sankaran-Walters S, Gaulke CA, Pollard R, Brown J, Suni M, Baumler AJ, Ghanekar S, Marco ML, Dandekar S.PLoS One. 2013 Aug 30;8(8):e72789. doi: 10.1371/journal.pone.0072789. eCollection 2013.PMID: 24023646 Free PMC article.