van Furth R, Cohn ZA. The origin and kinetics of mononuclear phagocytes. J Exp Med. 1968;128(3):415–35. https://doi.org/10.1084/jem.128.3.415.

Article  PubMed  PubMed Central  Google Scholar 

Lazarov T, Juarez-Carreño S, Cox N, Geissmann F. Physiology and diseases of tissue-resident macrophages. Nature. 2023;618(7966):698–707. https://doi.org/10.1038/s41586-023-06002-x.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Habash SA, Takahashi N, Eltalkhawy YM, Abdelnaser RA, Ogata-Aoki H, Okada S, et al. Macrophages with different origins proliferate ex vivo and do not lose their core intrinsic features. iScience. 2025;28(6):112635. https://doi.org/10.1016/j.isci.2025.112635.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Jenkins SJ, Ruckerl D, Cook PC, Jones LH, Finkelman FD, van Rooijen N, et al. Local macrophage proliferation, rather than recruitment from the blood, is a signature of TH2 inflammation. Science. 2011;332(6035):1284–8. https://doi.org/10.1126/science.1204351.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Gautier EL, Ivanov S, Williams JW, Huang SC, Marcelin G, Fairfax K, et al. Gata6 regulates aspartoacylase expression in resident peritoneal macrophages and controls their survival. J Exp Med. 2014;211(8):1525–31.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Rosas M, Davies LC, Giles PJ, Liao CT, Kharfan B, Stone TC, et al. The transcription factor Gata6 links tissue macrophage phenotype and proliferative renewal. Science. 2014;344(6184):645–8. https://doi.org/10.1084/jem.20140570.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Han J, Gallerand A, Erlich EC, Helmink BA, Mair I, Li X, et al. Human serous cavity macrophages and dendritic cells possess counterparts in the mouse with a distinct distribution between species. Nat Immunol. 2024;25(1):155–65. https://doi.org/10.1038/s41590-023-01688-7.

Article  CAS  PubMed  Google Scholar 

Nayak DK, Zhou F, Xu M, Huang J, Tsuji M, Hachem R, et al. Long-Term Persistence of Donor Alveolar Macrophages in Human Lung Transplant Recipients That Influences Donor-Specific Immune Responses. Am J Transplant. 2016;16(8):2300–11. https://doi.org/10.1111/ajt.13819.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Bajpai G, Schneider C, Wong N, Bredemeyer A, Hulsmans M, Nahrendorf M, et al. The human heart contains distinct macrophage subsets with divergent origins and functions. Nat Med. 2018;24(8):1234–45. https://doi.org/10.1038/s41591-018-0059-x.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Boring L, Gosling J, Chensue SW, Kunkel SL, Farese RV Jr, Broxmeyer HE, et al. Impaired monocyte migration and reduced type 1 (Th1) cytokine responses in C-C chemokine receptor 2 knockout mice. J Clin Invest. 1997;100(10):2552–61. https://doi.org/10.1172/JCI119798.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kurihara T, Warr G, Loy J, Bravo R. Defects in macrophage recruitment and host defense in mice lacking the CCR2 chemokine receptor. J Exp Med. 1997;186(10):1757–62. https://doi.org/10.1084/jem.186.10.1757.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kuziel WA, Morgan SJ, Dawson TC, Griffin S, Smithies O, Ley K, et al. Severe reduction in leukocyte adhesion and monocyte extravasation in mice deficient in CC chemokine receptor 2. Proc Natl Acad Sci U S A. 1997;94(22):12053–8. https://doi.org/10.1073/pnas.94.22.12053.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Yasuda T, Koiwa M, Yonemura A, Miyake K, Kariya R, Kubota S, et al. Inflammation-driven senescence-associated secretory phenotype in cancer-associated fibroblasts enhances peritoneal dissemination. Cell Rep. 2021;34(8):108779. https://doi.org/10.1016/j.celrep.2021.108779.

Article  CAS  PubMed  Google Scholar 

Yonemura A, Semba T, Zhang J, Fan Y, Yasuda-Yoshihara N, Wang H, et al. Mesothelial cells with mesenchymal features enhance peritoneal dissemination by forming a protumorigenic microenvironment. Cell Rep. 2024;43(1):113613. https://doi.org/10.1016/j.celrep.2023.113613.

Article  CAS  PubMed  Google Scholar 

Takahashi N, Eltalkhawy YM, Nasu K, Abdelnaser RA, Monde K, Habash SA, et al. IL-10 induces activated phenotypes of monocytes observed in virally-suppressed HIV-1-infected individuals. Biochem Biophys Res Commun. 2024;15(729):150342. https://doi.org/10.1016/j.bbrc.2024.150342.

Article  CAS  Google Scholar 

Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15(12):550. https://doi.org/10.1186/s13059-014-0550-8.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005;102(43):15545–50. https://doi.org/10.1073/pnas.0506580102.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Wu T, Hu E, Xu S, Chen M, Guo P, Dai Z, et al. clusterProfiler 4.0: A universal enrichment tool for interpreting omics data. Innovation (Camb). 2021;2(3):100141. https://doi.org/10.1016/j.xinn.2021.100141.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hiyoshi M, Takahashi N, Eltalkhawy YM, Noyori O, Lotfi S, Panaampon J, et al. M-Sec induced by HTLV-1 mediates an efficient viral transmission. PLoS Pathog. 2021;17(11):e1010126. https://doi.org/10.1371/journal.ppat.1010126.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Irvine KM, Banh X, Gadd VL, Wojcik KK, Ariffin JK, Jose S, et al. CRIg-expressing peritoneal macrophages are associated with disease severity in patients with cirrhosis and ascites. JCI Insight. 2016;1(8):e86914. https://doi.org/10.1172/jci.insight.86914.

Article  PubMed  PubMed Central  Google Scholar 

MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nat Commun. 2018;9(1):4383. https://doi.org/10.1038/s41467-018-06318-7.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Butler A, Hoffman P, Smibert P, Papalexi E, Satija R. Integrating single-cell transcriptomic data across different conditions, technologies, and species. Nat Biotechnol. 2018;36(5):411–20. https://doi.org/10.1038/nbt.4096.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Stuart T, Butler A, Hoffman P, Hafemeister C, Papalexi E, Mauck WM 3rd, et al. Comprehensive Integration of Single-Cell Data. Cell. 2019;177(7):1888-1902.e21. https://doi.org/10.1016/j.cell.2019.05.031.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Dick SA, Wong A, Hamidzada H, Nejat S, Nechanitzky R, Vohra S, et al. Three tissue resident macrophage subsets coexist across organs with conserved origins and life cycles. Sci Immunol. 2022;7(67):eabf7777. https://doi.org/10.1126/sciimmunol.abf7777.

Article  CAS