https://claudjak.github.io/Jakubzick_lab/ New publications from the Jakubzick Laboratory at the Geisel School of Medicine at Dartmouth. Mon, 14 Sep 2026 10:30:49 +0000 https://claudjak.github.io/Jakubzick_lab/papers/salm2026nerve.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/salm2026nerve.htmlSalm, L., Lopez, M. A., Jenkins, E., Shim, R., Tejada, O., Abou Mehrem, B., Huang, S., Etemadi Nezhad, P., Derakhshani, A., Lee, W. Y., Nusse, Y., Mewburn, J. B., Noskovicova, N., Bayer, J., Rashid, M. U., Li, X., Baltaci, Z., Young, D., Carneiro, M. B., Fritzsche, M., Jakubzick, C. V., Peters, N. C., Deniset, J. F., Zindel, J., Dufour, A., Yipp, B. G., Ditlev, J. A., Dustin, M. L., Canton, J., & Kubes, P. (2026). J Exp Med. Live imaging of peritoneal injury in mice showed sensory-neuron-activated mast cells transfer 1-micron biomolecular condensate granules containing MARCO and over 200 proteins to large peritoneal macrophages via cytonemes, triggering macrophage aggregation and a repair-like phenotype. https://claudjak.github.io/Jakubzick_lab/papers/li2026molecular.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/li2026molecular.htmlLi, X. & Jakubzick, C. V. (2026). Front Immunol. Transcriptomic and Xenium spatial profiling of murine lung interstitial macrophage subsets showed CD206hi and CD206lo subsets have distinct cytokine, receptor, and innate-immune gene programs mapping to bronchovascular, interstitial, and peripheral lung niches near T and B cells. https://claudjak.github.io/Jakubzick_lab/papers/li2026alveolar.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/li2026alveolar.htmlLi, X., Kolling, F. W., Aridgides, D., Gwilt, L., Mellinger, D., Jakubzick, C. V., & Ashare, A. (2026). Life Sci Alliance. Single-cell RNA sequencing of bronchoalveolar lavage fluid from cystic fibrosis and healthy subjects identified 12 alveolar macrophage subtypes and found CDKN1A- and LDLR-expressing macrophages upregulated in CF, linking cholesterol metabolism and macrophage-monocyte interactions to persistent lung inflammation. https://claudjak.github.io/Jakubzick_lab/papers/ghosh2026chemokinedefined.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/ghosh2026chemokinedefined.htmlGhosh, S., Li, X., Rawat, K., Dighal, A., Kalinowski, S., Hosseini, R., Kolling, F. W., Ringelberg, C. S., & Jakubzick, C. V. (2026). Nat Immunol. Single-cell and spatial transcriptomics of lung tumors revealed that chemokine-expressing resident interstitial macrophage subsets either promoted tertiary lymphoid structures and tumor control or recruited pro-tumor macrophages, and CCR5 blockade with maraviroc improved dendritic cell-mediated antitumor immunity during vaccination. https://claudjak.github.io/Jakubzick_lab/papers/sarma2026multiomic.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/sarma2026multiomic.htmlSarma, A., Sun, X., Sucre, J., Hong, J., Medzikovic, L., Jakubzick, C. V., Li, X., Zemans, R. L., & Singer, B. D. (2026). Am J Respir Cell Mol Biol. This perspective reviewed multi-omic and single-cell approaches for studying lung cell biology, summarizing ATS 2024 workshop discussions on cell atlases, novel human lung cell types, and applications to lung development, injury, and repair. https://claudjak.github.io/Jakubzick_lab/papers/lux2026vicarious.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/lux2026vicarious.htmlLux, B. K., Kos, M. C., Ward, D., Kolling, F. W., Li, X., Jakubzick, C. V., & Wager, T. (2026). bioRxiv. Healthy adults watched films depicting animal cruelty or positive human-animal interactions during fMRI while autonomic activity and monocyte gene expression were measured, and vicarious trauma produced prolonged sympathetic arousal and pro-inflammatory monocyte gene changes linked to altered brain network coupling. https://claudjak.github.io/Jakubzick_lab/papers/ontiveros2025antipdl.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/ontiveros2025antipdl.htmlOntiveros, C. O., Garcia, M. G., Murray, C. E., Deng, Y., Bai, H., Tanner, C., Leung, B., Li, X., Padron, A., Reyes, R. M., Kancharla, A., Soh, K. T., Krishnan, S., Chand, D., Balasubramanian, A., Hegner, C., Jakubzick, C. V., Gupta, H. B., Turk, M. J., Sundrud, M., Conejo-Garcia, J. R., & Curiel, T. J. (2025). Nat Commun. Anti-PD-L2 antibody treatment failed in young but was effective against melanoma in aged mice, increasing tumor interferon-gamma production in an IL-17-dependent manner, revealing age-dependent mechanisms of immune checkpoint blockade efficacy. https://claudjak.github.io/Jakubzick_lab/papers/kalinowski2025facial.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/kalinowski2025facial.htmlKalinowski, S. & Jakubzick, C. V. (2025). J Vis Exp. This protocol described facial vein venipuncture with a lancet as a rapid, minimally invasive method for repeated murine blood collection, demonstrated for flow cytometric phenotyping of transgenic and reporter mice. https://claudjak.github.io/Jakubzick_lab/papers/li2025heterogeneity.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/li2025heterogeneity.htmlLi, X. & Jakubzick, C. V. (2025). Am J Respir Cell Mol Biol. This piece discussed the heterogeneity, similarities, and species differences of alveolar macrophages between humans and mice, based on the title alone since no abstract was available. https://claudjak.github.io/Jakubzick_lab/papers/li2024coordinated.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/li2024coordinated.htmlLi, X., Mara, A. B., Musial, S. C., Kolling, F. W., Gibbings, S. L., Gerebtsov, N., & Jakubzick, C. V. (2024). Nat Immunol. Transcriptional profiling identified ten conserved chemokine-expressing interstitial macrophage subsets across tissues and species, and depleting CD206hi interstitial macrophages in mice reduced inflammatory cell recruitment, tertiary lymphoid structure formation, and germinal center B cells. https://claudjak.github.io/Jakubzick_lab/papers/mara2024natural.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/mara2024natural.htmlMara, A. B., Rawat, K., King, W. T., & Jakubzick, C. V. (2024). JCI Insight. In mouse models of allergic airway disease, natural antibodies from B1 cells were required for DAMP-induced but not PAMP-induced type 2 immunity, licensing antigen-presenting cells to prime Th2 responses and drive eosinophilia. https://claudjak.github.io/Jakubzick_lab/papers/han2024serous.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/han2024serous.htmlHan, J., Gallerand, A., Erlich, E. C., Helmink, B. A., Mair, I., Li, X., Eckhouse, S. R., Dimou, F. M., Shakhsheer, B. A., Phelps, H. M., Chan, M. M., Mintz, R. L., Lee, D. D., Schilling, J. D., Finlay, C. M., Allen, J. E., Jakubzick, C. V., Else, K. J., Onufer, E. J., Zhang, N., & Randolph, G. J. (2024). Nat Immunol. Comparing human and mouse serous cavity mononuclear phagocytes showed GATA6+ macrophages were rare in human peritoneum, with most human peritoneal macrophages resembling an earlier mouse CD206+LYVE1+ stage, and IRF4-dependent mouse macrophages aligning with human DC2-like cells. https://claudjak.github.io/Jakubzick_lab/papers/rawat2023immunogenicity.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/rawat2023immunogenicity.htmlRawat, K., Mara, A. B., King, W. T., Nnam, C. F., & Jakubzick, C. V. (2023). J Immunol. Using congenic and neoantigen mouse models, this study found that both dominant and subdominant antigens elicit cytotoxic T cell immunity when linked to cells with a low immunogenicity threshold, challenging classical immunodominance assumptions. https://claudjak.github.io/Jakubzick_lab/papers/iliakis2023recruitment.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/iliakis2023recruitment.htmlIliakis, C. S., Kulikauskaite, J., Aegerter, H., Li, F., Piattini, F., Jakubzick, C. V., Guilliams, M., Kopf, M., & Wack, A. (2023). Nat Immunol. Based on the title alone (no abstract available), this piece addressed whether recruitment of new monocytes versus training of resident cells underlies lasting influenza-induced changes in alveolar macrophage function. https://claudjak.github.io/Jakubzick_lab/papers/rawat2023channeling.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/rawat2023channeling.htmlRawat, K. & Jakubzick, C. V. (2023). Science. This brief commentary highlighted a study showing that perforin-2 facilitates translocation of endocytosed antigen into the cytosol of cross-presenting dendritic cells, enabling MHC class I cross-presentation to CD8+ T cells. https://claudjak.github.io/Jakubzick_lab/papers/li2023macrophages.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/li2023macrophages.htmlLi, X. & Jakubzick, C. V. (2023). Immunity. This commentary discussed a study showing that Th2 cytokines drive monocyte differentiation into tissue-resident pleural macrophages in mice resistant to the filarial parasite Litomosoides sigmodontis. https://claudjak.github.io/Jakubzick_lab/papers/rawat2023producing.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/rawat2023producing.htmlRawat, K., Tewari, A., Li, X., Mara, A. B., King, W. T., Gibbings, S. L., Nnam, C. F., Kolling, F. W., Lambrecht, B. N., & Jakubzick, C. V. (2023). J Exp Med. Single-cell profiling and chimeric mouse models showed that antigen-bearing migratory dendritic cells use CCR7 while monocytes instead follow CCL5-secreting migratory DCs via CCR5 to reach lymph nodes, revealing a distinct CCL5-CCR5 trafficking axis. https://claudjak.github.io/Jakubzick_lab/papers/gainullina2023network.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/gainullina2023network.htmlGainullina, A., Mogilenko, D. A., Huang, L. H., Todorov, H., Narang, V., Kim, K. W., Yng, L. S., Kent, A., Jia, B., Seddu, K., Krchma, K., Wu, J., Crozat, K., Tomasello, E., Dress, R., See, P., Scott, C., Gibbings, S., Bajpai, G., Desai, J. V., Maier, B., This, S., Wang, P., Aguilar, S. V., Poupel, L., Dussaud, S., Zhou, T. A., Angeli, V., Blander, J. M., Choi, K., Dalod, M., Dzhagalov, I., Gautier, E. L., Jakubzick, C., Lavine, K., Lionakis, M. S., Paidassi, H., Sieweke, M. H., Ginhoux, F., Guilliams, M., Benoist, C., Merad, M., Randolph, G. J., Sergushichev, A., Artyomov, M. N., & ImmGen Consortium (2023). Cell Rep. Network-based metabolic analysis of large ImmGen and Tabula Muris datasets across 38 mouse tissues identified nine metabolic gene subnetworks distinguishing mononuclear phagocyte populations, revealing active cholesterol synthesis in migratory dendritic cells and glutathione synthesis in macrophages. https://claudjak.github.io/Jakubzick_lab/papers/aegerter2022biology.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/aegerter2022biology.htmlAegerter, H., Lambrecht, B. N., & Jakubzick, C. V. (2022). Immunity. This review described how single-cell RNA sequencing and spatial transcriptomics have clarified the identity, development, and niche-specific functions of alveolar, interstitial, and recruited lung macrophages in homeostasis, disease, cancer, and aging. https://claudjak.github.io/Jakubzick_lab/papers/rawat2022natural.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/rawat2022natural.htmlRawat, K., Soucy, S. M., Kolling, F. W., Diaz, K. M., King, W. T., Tewari, A., & Jakubzick, C. V. (2022). J Immunol. Using new mouse models of early tumorigenesis, this study showed that natural antibodies are required for immune elimination of neoantigen-expressing precancerous cells and for limiting tumor burden in chemically and virally induced cancer models. https://claudjak.github.io/Jakubzick_lab/papers/li2022scrnaseq.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/li2022scrnaseq.htmlLi, X., Kolling, F. W., Aridgides, D., Mellinger, D., Ashare, A., & Jakubzick, C. V. (2022). Life Sci Alliance. Single-cell RNA sequencing of over 113,000 human bronchoalveolar lavage cells identified four IFI27/APOC2-defined alveolar macrophage superclusters with at least eight functional subclusters, with chemokine and interferon subclusters expanding in COVID-19 samples. https://claudjak.github.io/Jakubzick_lab/papers/rahimi2022advancing.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/rahimi2022advancing.htmlRahimi, R. A., Cho, J. L., Jakubzick, C. V., Khader, S. A., Lambrecht, B. N., Lloyd, C. M., Molofsky, A. B., Talbot, S., Bonham, C. A., Drake, W. P., Sperling, A. I., & Singer, B. D. (2022). Am J Respir Cell Mol Biol. This American Thoracic Society workshop report reviewed the cellular networks of airway and lung immunity, covering host defense against respiratory pathogens, tolerance to inhaled antigens, and priorities for advancing lung immunology research and mucosal vaccine design. https://claudjak.github.io/Jakubzick_lab/papers/tewari2021monocytes.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/tewari2021monocytes.htmlTewari, A., Prabagar, M. G., Gibbings, S. L., Rawat, K., & Jakubzick, C. V. (2021). Front Immunol. In mice, lymph node monocytes suppressed Poly I:C-induced dendritic cell-mediated cytotoxic T cell responses via IL-10 and suppressor CD4 T cells, and blocking IL-10 improved a Poly I:C-based melanoma immunotherapy. https://claudjak.github.io/Jakubzick_lab/papers/rawat2021redefining.htmlhttps://claudjak.github.io/Jakubzick_lab/papers/rawat2021redefining.htmlRawat, K., Tewari, A., Morrisson, M. J., Wager, T. D., & Jakubzick, C. V. (2021). Elife. Using multiple B cell-deficient mouse strains, this study showed natural antibodies are critical for early anti-tumor immunosurveillance, and that muMT mice appear unaffected only due to a compensatory plasmacytoid dendritic cell-interferon-NK cell mechanism.