Publications

See Dr. Kat’s Google Scholar page for more up-to-date publications.

Note name changes from Milligan-Monroe to Milligan-Myhre to Milligan-McClellan 

    Publications related to host-microbiota interactions

    1. Crowther TW, Rappuoli R, Corinaldesi C, Danovaro R, Donohue TJ, Huisman J, Stein LY, Timmis JK, Timmis K, Anderson MZ, Bakken LR, Baylis M, Behrenfeld MJ, Boyd PW, Brettell I, Cavicchioli R, Delavaux CS, Foreman CM, Jansson JK, Koskella B, Milligan-McClellan K, North JA, Peterson D, Pizza M, Ramos JL, Reay D, Remais JV, Rich VI, Ripple WJ, Singh BK, Smith GR, Stewart FJ, Sullivan MB, van den Hoogen J, van Oppen MJH, Webster NS, Zohner CM, van Galen LG. Scientists' call to action: Microbes, planetary health, and the Sustainable Development Goals. Cell. 2024 Sep 19;187(19):5195-5216. doi: 10.1016/j.cell.2024.07.051. PMID: 39303686. 
    2. Nouri, A., Rodgers, M. L., Bolnick, D. L., Carrier, R., Milligan-Myhre, K., Scarpino, S., & Steinel, N. C. (2022). Microfluidic gut-on chip system for reproducing the microbiome-immune cells interaction in Threespine Stickleback. The Journal of Immunology, 208(Supplement_1), 116-05. https://doi.org/10.4049/jimmunol.208.Supp.116.05 
    3. Milligan-McClellan, K.C., Dundore-Areas, J.P., Klassen, J.L., Shade, A., Kinkel, L.L., Wolfe, B.E. (2022) Deciphering the Microbiome: Integrating Theory, New Technologies, and Inclusive Science. mSystems. DOI: https://doi.org/10.1128/msystems.00583-22  
    4. Kirschman, L.J., Khadjinova, A., Ireland, K., Milligan-Myhre, KC. Early life disruption of the microbiota affects organ development and cytokine gene expression in threespine stickleback. Integrative and Comparative Biology. Accepted September 2020. https://academic.oup.com/icb/advance-article/doi/10.1093/icb/icaa136/5911110
    5. Kirschman, L.J., Milligan-Myhre, K.C. (2018) The costs of living together: Immune responses to the microbiota and chronic gut inflammation. Applied and Environmental Microbiology, Sept 2018. DOI: 10.1128/AEM.02147-18
    6. Burns, A., Miller, E., Agarwal, M., Rolig, A.S., Milligan-Myhre, K., Seredick, S., Guillemin, K.J., Bohannan, B.J.M. (2017) Inter-host dispersal alters microbiome assembly and can overwhelm host innate immunity in an experimental zebrafish model. Proceedings of the National Academy of Sciences. Oct 17, 2017. 114 (42) 11181-11186. doi.org/10.1073/pnas.1702511114
    7. Lescak, Emily, Milligan-Myhre, K. (2017) Teleosts as Model Organisms to Understand Host-Microbe Interactions. Journal of Bacteriology. DOI: 10.1128/JB.00868-16. 
    8. Small, C.M., Milligan-Myhre, K., Bassham, S.L., Guillemin, K., Cresko, W.A. (2017) Host genotype and microbiota contribute asymmetrically to transcriptional variation in the threespine stickleback gut. Genome Biology and Evolution. DOI: 10.1093/gbe/evx014.
    9. Milligan-Myhre, K., Small, C.M., Mittge, E., Currey, M., Agarwal, M., Cresko, W.A., Guillemin, K. (2016) Innate immune responses to gut microbiota differ between oceanic and freshwater threespine stickleback populations. Disease Models and Mechanisms. 9(2):187-98. PMID 26681746 DOI: 10.1242/dmm.021881  
    10. Stagaman, K., Guillemin, K., Milligan-Myhre, K. (2014) Tending a complex microbiota requires major immune complexity. Molecular Ecology. (19), 4679-81 PMID: 2263404

    Refereed Book Chapters

    1. Torunn F., Milligan-Myhre, K. Gnotobiotic Fish as Models to Study Host-Microbe Interactions. Gnotobiotics. Ed. Trenton R. Schoeb, Kathryn A. Eaton. Academic Press, Aug 11, 2017. Pages 369-383. DOI: 10.1016/B978-0-12-804561-9.00006-2
    2. Milligan-Myhre, K., Charette, J. R., Phennicie, R. T., Stephens, W. Z., Rawls, J. F., Guillemin, K. and Kim, C. H. (2011). Study of Host-Microbe Interactions in Zebrafish. In Methods in Cell Biology (The Zebrafish: Disease Models and Chemical Screens 3rd Edition), Elsevier. 105, 87-116. PMID: 21951527 (book chapter)

    Preprints

    1. Sihan Bu, Sania Chaudhary, Rebecca Kramer-Earley, Kelly Ireland, Jolie Atwood, Daniel I Bolnick, Andrew P Hendry, Catherine L Peichel, Natalie C Steinel, Jesse N Weber, Grant E Haines, Alison M Derry, Kathryn Milligan-McClellan. (2025) Lake size shapes the relationship between body mass and gut microbiota in threespine stickleback (Gasterosteus aculeatus). BioRxiv. https://doi.org/10.1101/2025.12.01.691584 
    2. Sarah M. Pasqualetti , Jolie Atwood, Abiodun Aderibigbe , Edward Russell , Kayleigh O'Keefe, Victoria Rosario, Kelly Ireland , Kenneth Sparks, Koral Campbell , Ruth Y Isenberg , Ryan Lucas, Priyal Dhage, and Kathryn Milligan-McClellan. 2025. Cold-water gut isolate from threespine stickleback (Gasterosteus aculeatus) reveals polypropylene surface oxidation and co-culture inhibition. BioRxiv. doi: https://doi.org/10.1101/2025.10.22.682630 
    3. Grimmelpont M., Rodgers, M., Levin, M., De Guise, S., Baron, J., Bolnick, D., Milligan-McClellan, K., Provatas, A., Brandt, J. 2025. Temperature modulates PFAS accumulation and energy allocation in sheepshead minnows.   
    4. Vieira Da Silva, C., Arsenault, D., Kramer-Earley, R., Robinson, V.L., Milligan-McClellan, K., Graf, J. 2025. Identification and characterization of the surface layer protein AvsA in outer membrane vesicles, antibiotic resistance, and in vivo host colonization in Aeromonas veronii. BioRxiv. doi: https://doi.org/10.1101/2025.04.15.648961
    5. Rodgers, M.L., Subramanian, S., Fuess, L.E., He, W., Scarpino, S.V., Roth-Monzon, A., Jeffries, D., Seignon, M., Milligan-McClellan, K., Carrier, R. and Steinel, N.C., 2024. Rates of evolution differ between cell types identified by single-cell RNAseq in threespine stickleback. bioRxiv, doi: https://doi.org/10.1101/2024.12.06.627160 
    6. Bolnick DI, Barrett RDH, Choi E, Eckert L, Hendry AP, Kerns EV, Lind ÅJ, Milligan-McClellan K, Peichel CL, Sasser K, Thornton AR, Wolf C, Steinel NC, Weber JN. 2024. Destabilized host-parasite dynamics in newly founded populations. bioRxiv. 2024 Jun 27:2024.06.24.600494. doi: 10.1101/2024.06.24.600494. PMID: 38979317; PMCID: PMC11230150. Submitted to American Naturalist 
    7. Ireland, K. S., & Milligan-Myhre, K. 2021. Effects of crude oil on juvenile threespine stickleback somatic and immune development. bioRxiv, 2021-11. https://doi.org/10.1101/2021.11.17.469020 

    Published protocols 

    Kat Milligan-McClellan. (2024) Derivation of Gnotobiotic stickleback fish. dx.doi.org/10.17504/protocols.io.n2bvjrd6plk5/v1 

      Publications related to mentoring and Indigenous scientists

      1. Milligan-McClellan, K., Simmons, K., Fremland, J., Goeman, M., Grande, S. 2025. Weeding Whitestream Feminism: Indigenous Feminist Gardening. Educational Theory. Accepted for publication 
      2. McAllister, T. G., Walker, L. A., Smiles, N. D., Jennings, L., Moggridge, B., Naepi, S., Kamai, B., & Milligan-McClellan, K. 2025. Decolonize scientific institutions, don’t just diversify them. Nature, 644(8076), 331-334. https://www.nature.com/articles/d41586-025-02516-8  
      3. Milligan-McClellan KCA. Teaching the way I wish I was taught: Design and implementation of a class on historically excluded and underrepresented scientists. J Cell Physiol. 2024 Jun 28. doi: 10.1002/jcp.31352. Epub ahead of print. PMID: 38940061. 
      4. Laura Maria Andrade De Oliveira, Ariangela Kozik, Kathryn Milligan-McClellan, Ada Hagan. (2023) Editorial: Advancing Social Equity through Microbiology. Frontiers in Cellular and Infection Microbiology, section Molecular Bacterial Pathogenesis, July 2023. DOI: 10.3389/fcimb.2023.1260284 
      5. Pedersen M., Des Rosier Grant, A., Harrington J., Belcourt A., Thomas A., Hoagland S., Lewis J.P., Plenty Sweetgrass-She Kills R., Conroy-Ben O., Brodt E., Chief K., Johnson-Jennings M., Green Mink K., Milligan-McClellan K., Calhoun M., Ozburn A., Simonds V., Chase S., Tsosie R., Wu K., Brown B. (2023) Co-Developing and Implementing an Indigenous Mentoring Program for Native American Faculty in STEM. Journal of Diversity in Higher Education. 
      6. Brown, B., Pedersen, M., Harrington, J., Belcourt, A., Windchief, S., Thomas, A., Plenty Sweetgrass-She Kills, R., Conroy-Ben, O., Brodt, E., Chief, K., Hoagland, S., Johnson-Jennings, M., Lewis, J., Green Mink, K., Milligan-Myhre, K. C. A., Calhoun, M., Ozburn, A., Simonds, V., Des Rosier Grant, A., Hill, S., and Wu, K. (2022). Exploring personal, relational, and collective experiences and mentorship connections that enhance or inhibit professional development and career advancement of Native American faculty in STEM fields: A qualitative study. Journal of Diversity in Higher Education. Advance online publication. https://doi.org/10.1037/dhe0000376 
      7.  Marriott, L.K*., Raz Link, A*, Anitori, R., Blackwell, E., Blas, A., Brock, J, Burke, T, Cabrera, A.P., Helsham, D., Liban, L.B., Mackiewicz, M.R., Maruyama, M., Milligan-Myhre, K.C.A., Pangelinan, P.J.C., Hattori-Uchima, M., Reed, R., Simon, B.E., Solomon, B., Trinidad, A.M.O., Wyatt, L.R., Delgado Covarrubia, A., Burrows, J.A., Zell, A., Keller, T, Morris, C, Crespo, C.  (2021, in press).  Supporting biomedical research training for historically underrepresented undergraduates using interprofessional, nonformal curricular structures.  Journal of the Scholarship of Teaching and Learning.  May 2021. [*Joint first author] https://scholarworks.iu.edu/journals/index.php/josotl/article/view/30430
      8. Milligan-Myhre, K.C., (2019) mSphere of Influence: an Inupiat Journey in Science. mSphere. Sept 2019. 4(5) e00595-19. https://doi.org/10.1128/mSphere.00595-19.   

      Edited volumes/special issues 

      1. Special Series editor: Advancing Social Equity Through Microbiology. Ed: Hagan AK, Kozik A, Milligan-McClellan K, Oliveira LMA. 2023, Frontiers in Cellular and Infection Microbiology. 
      2. Special Series editor: Deciphering the Microbiome: Integrating Theory, New Technologies, and Inclusive Science. Ed: Dundore-Arias JP, Kinkel LL, Klassen JL, Milligan-McClellan KC, Shade A, Wolfe BE. 2022, mSystems.  

       

      Publications: Refereed Book Chapters 

      1. Jacobs L.A., Yamane CYEW., Hernandez J., McAllister T., Carlson A.K., Fisk J., Milligan-McClellan K., Wolf J.G., Jennings L.L., Sparks J., Grenz J., and Avery C. (2024) A Critical Declaration of Decolonization and Indigenization for Scientific Research and the Academy. Ed. Lara A. Jacobs.  

            Publications related to Toxoplasma gondii

            1. Milligan-Myhre, K., Wilson, S.K., Knoll, LJ. (2016) Developmental change in translation initiation alters the localization of a common microbial protein necessary for Toxoplasma chronic infection. Mol Microbiol. 102(6):1086-1098. doi: 10.1111/mmi.13538.
            2. Milligan-Myhre, K., Rooney, P.J., Knoll, L.J. (2011) Examination of a virulence mutant uncovers the ribosome biogenesis regulatory protein of Toxoplasma gondii. Journal of Parasitology. 97(6), 1173-7. PMID: 21736491

            Publications related to Staphylococcus aureus

            1. McNamara P.J., Syverson, R.E., Milligan-Myhre K., Frolova O., Schroeder S., Kidder J., Hoang T., & Proctor R.A. (2009) Surfactants, aromatic and isoprenoid compounds, and fatty acid biosynthesis inhibitors suppress Staphylococcus aureus TSST-1 production. Antimicrobial Agents and Chemotherapy. 53(5), 1898-1906. PMID: 19223628
            2. McNamara, P.J., Milligan-Monroe K.C., Khalili S., & Proctor R.A. (2000) Identification, cloning, and initial characterization of rot, a locus encoding a regulator of virulence factor expression in Staphylococcus aureus. Journal of Bacteriology. 182(11), 3197-3203. PMID: 10809700