# Type 2 immune history imprints local training in nerve and airway associated interstitial macrophages (NAMs) for disease tolerance during lethal respiratory viral infection

**Authors:** Payal Damani-Yokota, Yavor Yordanov, Eduardo D. Bernier, Chaitra Sreenivasaiah, Alireza Khodadadi-Jamayran, Matthias Kugler, Stephen T. Yeung, Stacey Bartlett, Valeria Mezzano, Eric Bartnicki, Mingjun Liu, Fei Chen, William C. Gause, Aristotelis Tsirigos, Iannis Aifantis, Mila Ortigoza, Bettina Nadorp, Musa Mhlanga, Kamal M. Khanna

PMC · DOI: 10.21203/rs.3.rs-8780633/v1 · Research Square · 2026-02-12

## TL;DR

Past type 2 immune responses train lung macrophages to reduce inflammation and promote tissue repair during severe respiratory viral infections.

## Contribution

Demonstrates that trained immunity in lung macrophages, imprinted by prior type 2 inflammation, protects against lethal respiratory viral infections.

## Key findings

- Mice conditioned with Nippostrongylus brasiliensis survived lethal H1N1 influenza, while unconditioned mice died.
- Protection was due to reduced immunopathology, increased efferocytosis, and tissue repair, not improved viral clearance.
- Human lung data showed NAM-like programs aligned with fibrotic remodeling in IPF but diverged in COPD.

## Abstract

Severe respiratory viral disease varies widely among individuals and often reflects immunopathology rather than inadequate pathogen control, suggesting that prior immune history can prime the lung’s inflammatory–regulatory balance to promote disease tolerance. Here we show that nerve- and airway-associated macrophages (NAMs), a subset of interstitial macrophages expand following type 2 inflammation induced by Nippostrongylus brasiliensis. We hypothesized that NAMs acquire epigenetically imprinted trained immunity and tested this in a heterologous challenge model in which mice infected with Nippostrongylus brasiliensis were challenged 4–6 weeks later with lethal H1N1 influenza. Remarkably, all Nb-conditioned mice survived, whereas all unconditioned controls succumbed by days 5–6 post-infection. Protection occurred without improved viral burden or enhanced T cell responses, and instead tracked with reduced immunopathology, amplified type 2 cues, increased efferocytosis and accelerated tissue repair. Using NAM-DTR mice, we show that conditioned NAMs are necessary and sufficient for protection: depletion or replacement with unconditioned NAMs abrogated survival, whereas adoptive transfer of conditioned NAMs conferred tolerance without enhancing viral clearance. Genomic analyses implicated an IL-4–STAT6–PPARγ and Arginase-1 chromatin program that imprints a pro-resolving and reparative NAM state driving programs of tissue repair, type 2 immunity and efferocytosis during lethal respiratory viral infections. Finally, meta-analysis of human lung single-cell atlases from healthy, IPF and COPD cohorts indicated that reparative NAM-like programs aligned with fibrotic remodeling in IPF but diverged in COPD, supporting context-dependent consequences of sustained repair states. These findings establish local trained immunity in lung-resident macrophages as a mechanism of disease tolerance and a therapeutic entry point for severe inflammatory respiratory infections.

## Linked entities

- **Genes:** IL4 (interleukin 4) [NCBI Gene 3565], STAT6 (signal transducer and activator of transcription 6) [NCBI Gene 6778], PPARG (peroxisome proliferator activated receptor gamma) [NCBI Gene 5468], Arg1 (arginase 1) [NCBI Gene 100750727]
- **Diseases:** influenza (MONDO:0005812), IPF (MONDO:0800504), COPD (MONDO:0005002)
- **Species:** Nippostrongylus brasiliensis (taxon 27835), Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** Cd200r2 (Cd200 receptor 2) [NCBI Gene 271375] {aka Cd200r1l}, Orc1 (origin recognition complex, subunit 1) [NCBI Gene 18392] {aka MmORC1, Orc1l}, Ifnb1 (interferon beta 1, fibroblast) [NCBI Gene 15977] {aka IFN-beta, IFNB, If1da1, Ifb}, Ighv1-9 (immunoglobulin heavy variable 1-9) [NCBI Gene 668478] {aka Gm16697, Igg2a}, Retnla (resistin like alpha) [NCBI Gene 57262] {aka 1810019L16Rik, Fizz-1, Fizz1, HIMF, RELM-alpha, RELMa}, Mrc1 (mannose receptor, C type 1) [NCBI Gene 17533] {aka CD206, MR}, Ccl24 (C-C motif chemokine ligand 24) [NCBI Gene 56221] {aka CKb-6, MPIF-2, Scya24}, Nhsl1 (NHS like 1) [NCBI Gene 215819] {aka 5730409E15Rik, A630035H13Rik, A730096F01, D10Bwg0940e, mKIAA1357}, Ifng (interferon gamma) [NCBI Gene 15978] {aka IFN-g, If2f, Ifg}, Mapkapk2 (MAP kinase-activated protein kinase 2) [NCBI Gene 17164] {aka MAPKAP-K2, MK-2, MK2, Rps6kc1}, Fn1 (fibronectin 1) [NCBI Gene 14268] {aka E330027I09, Fn, Fn-1}, Stab1 (stabilin 1) [NCBI Gene 192187] {aka FEEL-1, FELE-1, MFEEL-1, MS-1, STAB-1, mKIAA0246}, H3c7 (H3 clustered histone 7) [NCBI Gene 260423] {aka H3.2-221, H3c13, H3c14, H3c15, H3c2, H3c3}, Lyn (Lyn proto-oncogene, Src family tyrosine kinase) [NCBI Gene 17096] {aka Hck-2, p53Lyn, p56Lyn}, Stat4 (signal transducer and activator of transcription 4) [NCBI Gene 20849], Atp6v0a1 (ATPase, H+ transporting, lysosomal V0 subunit A1) [NCBI Gene 11975] {aka ATP6a1, Atp6n1, Atp6n1a, Atpv0a1, Vpp-1, Vpp1}, Ifna (interferon alpha complex region) [NCBI Gene 111654] {aka Ifa, Ifa8}, Numb (NUMB endocytic adaptor protein) [NCBI Gene 18222] {aka Nb}, Itgam (integrin alpha M) [NCBI Gene 16409] {aka CD11b/CD18, CR3, CR3A, Cd11b, F730045J24Rik, Ly-40}, Fabp4 (fatty acid binding protein 4, adipocyte) [NCBI Gene 11770] {aka 422/aP2, AFABP, ALBP, ALBP/Ap2, Ap2, Lbpl}, Sell (selectin, lymphocyte) [NCBI Gene 20343] {aka CD62L, L-selectin, LAM-1, LECAM-1, LECAM1, Lnhr}, Cd4 (CD4 antigen) [NCBI Gene 12504] {aka L3T4, Ly-4}, Mgll (monoglyceride lipase) [NCBI Gene 23945] {aka Magl, Mgl}, Sftpc (surfactant associated protein C) [NCBI Gene 20389] {aka Bricd6, SP-C, SP5, SPC, Sftp-2, Sftp2}, Cx3cr1 (C-X3-C motif chemokine receptor 1) [NCBI Gene 13051] {aka mCX3CR1}, Cd200r1 (CD200 receptor 1) [NCBI Gene 57781] {aka CD200R, Mox2r, OX2R}, Cd44 (CD44 antigen) [NCBI Gene 12505] {aka HERMES, Ly-24, Pgp-1}, Pparg (peroxisome proliferator activated receptor gamma) [NCBI Gene 19016] {aka Nr1c3, PPAR-gamma, PPAR-gamma2, PPARgamma, PPARgamma2}, Alox5ap (arachidonate 5-lipoxygenase activating protein) [NCBI Gene 11690] {aka Flap}, Il5 (interleukin 5) [NCBI Gene 16191] {aka Il-5}, Il1b (interleukin 1 beta) [NCBI Gene 16176] {aka IL-1beta, Il-1b}, Lyve1 (lymphatic vessel endothelial hyaluronan receptor 1) [NCBI Gene 114332] {aka 1200012G08Rik, Crsbp-1, Lyve-1, Xlkd1}, PTPRC (protein tyrosine phosphatase receptor type C) [NCBI Gene 5788] {aka B220, CD45, CD45R, GP180, IMD105, L-CA}, Rxra (retinoid X receptor alpha) [NCBI Gene 20181] {aka 9530071D11Rik, Nr2b1, RXRalpha1}, Siglec1 (sialic acid binding Ig-like lectin 1, sialoadhesin) [NCBI Gene 20612] {aka Cd169, Siglec-1, Sn}, Ly6g (lymphocyte antigen 6 family member G) [NCBI Gene 546644] {aka Gr-1, Gr1, Ly-6G}, Atp6v1a (ATPase, H+ transporting, lysosomal V1 subunit A) [NCBI Gene 11964] {aka Atp6a1, Atp6a2, Atp6v1a1, VA68, VPP2}, Lpcat3 (lysophosphatidylcholine acyltransferase 3) [NCBI Gene 14792] {aka C3f, Grcc3f, Lpcat, Lpeat, Lplat5, Lpsat}, Cd59a (CD59a antigen) [NCBI Gene 12509] {aka Cd59, MAC-IP, MACIF}, Stat6 (signal transducer and activator of transcription 6) [NCBI Gene 20852], Itgal (integrin alpha L) [NCBI Gene 16408] {aka (p180), Cd11a, LFA-1, LFA-1A, Ly-15, Ly-21}, Mertk (MER proto-oncogene tyrosine kinase) [NCBI Gene 17289] {aka Eyk, Mer, Nyk, nmf12}, Krt5 (keratin 5) [NCBI Gene 110308] {aka 3300001P10Rik, CK5, K5, Krt2-5, Tfip8}, Il13 (interleukin 13) [NCBI Gene 16163] {aka Il-13}, Grb2 (growth factor receptor bound protein 2) [NCBI Gene 14784] {aka Ash}, Elmo1 (engulfment and cell motility 1) [NCBI Gene 140580] {aka 6330578D22Rik, C230095H21Rik, CED-12}, H2 (histocompatibility-2, MHC) [NCBI Gene 111364] {aka H-2, MHC-II}, Cyp11b1 (cytochrome P450, family 11, subfamily b, polypeptide 1) [NCBI Gene 110115] {aka CPN1, Cyp11b, Cyp11b-1, FHI}, Itgax (integrin alpha X) [NCBI Gene 16411] {aka Cd11c, Cr4, N418}, Fcgr1 (Fc receptor, IgG, high affinity I) [NCBI Gene 14129] {aka CD64, FcgammaRI, IGGHAFC}, F13a1 (coagulation factor XIII, A1 subunit) [NCBI Gene 74145] {aka 1200014I03Rik, F13a}, Ccl3 (C-C motif chemokine ligand 3) [NCBI Gene 20302] {aka G0S19-1, LD78alpha, MIP-1alpha, MIP1-(a), MIP1-alpha, Mip1a}, Exoc1 (exocyst complex component 1) [NCBI Gene 69940] {aka 2810407P21Rik, A730011E05Rik, SEC3, Sec3l1, Sec3p}, Ighg1 (immunoglobulin heavy constant gamma 1 (G1m marker)) [NCBI Gene 16017] {aka IgG1, Igh-4, VH7183}, Ly75 (lymphocyte antigen 75) [NCBI Gene 17076] {aka CD205, DEC-205, DEC205}, Egr2 (early growth response 2) [NCBI Gene 13654] {aka Egr-2, Krox-20, Krox20, NGF1-B, Zfp-25, Zfp-6}, Slc27a1 (solute carrier family 27 (fatty acid transporter), member 1) [NCBI Gene 26457] {aka FATP1, Fatp, Vlc27a1}, Mboat4 (membrane bound O-acyltransferase domain containing 4) [NCBI Gene 234155] {aka GOAT, Gm171}, Malt1 (MALT1 paracaspase) [NCBI Gene 240354] {aka A630046N12, D430033E09Rik, Pcasp1}, ITGAM (integrin subunit alpha M) [NCBI Gene 3684] {aka CD11B, CR3A, HNA-4, MAC-1, MAC1A, MO1A}
- **Diseases:** lung inflammation (MESH:D011014), Nb (MESH:D010229), COPD (MESH:D029424), hemorrhage (MESH:D006470), respiratory (MESH:D012131), NETs (MESH:C536657), respiratory disease (MESH:D012140), Influenza infection (MESH:D007251), fibrosis (MESH:D005355), inflammation (MESH:D007249), respiratory infection (MESH:D012141), fibrotic disease (MESH:D004194), lung injury (MESH:D055370), eosinophilia (MESH:D004802), asthma (MESH:D001249), emphysema (MESH:D004646), Lung (MESH:D008171), breathing difficulty (MESH:D004417), hypersensitivity (MESH:D004342), parasitic (MESH:D010272), inflammatory cytokines (MESH:D000080424), chronic (MESH:D002908), tissue injury (MESH:D017695), necrosis (MESH:D009336), neutrophilia (MESH:C563010), influenza viral infection (MESH:D014777), Weight loss (MESH:D015431), vascular damage (MESH:D057772), AMs (MESH:D055501), COVID-19 (MESH:D000086382), IPF (MESH:D054990), IAV infection (MESH:D007239)
- **Chemicals:** isoflurane (MESH:D007530), AA (MESH:D016718), omega-3 polyunsaturated fatty acids (MESH:D010743), water (MESH:D014867), ethanol (MESH:D000431), HCl (MESH:D006851), gentamicin (MESH:D005839), CaCl2 (MESH:D002122), Nb (MESH:D009556), phosphate (MESH:D010710), sodium periodate (MESH:C009288), NaCl (MESH:D012965), proline (MESH:D011392), trypan blue (MESH:D014343), paraffin (MESH:D010232), MgCl2 (MESH:D015636), streptomycin (MESH:D013307), lipid peroxide (MESH:D008054), Triton-X (MESH:D017830), Xylazine (MESH:D014991), prostaglandins (MESH:D011453), EDTA (MESH:D004492), IGEPAL CA-630 (MESH:C010615), sucrose (MESH:D013395), lipid (MESH:D008055), PFA (MESH:C003043), Glutamine (MESH:D005973), CO2 (MESH:D002245), glutathione (MESH:D005978), TRITC (MESH:C009434), ATP (MESH:D000255), polyamine (MESH:D011073), ROS (MESH:D017382), Cy5 (MESH:C085321), Neomycin (MESH:D009355), clodronate (MESH:D004002), 12-HETE (MESH:D019377), DAPI (MESH:C007293), NP (MESH:D009405), PLP (MESH:D011732), PBS (MESH:D007854), Eosin (MESH:D004801), L-lysine (MESH:D008239), Hematoxylin (MESH:D006416), hydroxyproline (MESH:D006909), HEPES (MESH:D006531), charcoal (MESH:D002606), penicillin (MESH:D010406), arachidonic acids (MESH:D001095), PUFA (MESH:D005231), H&amp;E (MESH:D006371), NO (MESH:D009614), crystal violet (MESH:D005840), lipoxins (MESH:D044045), ornithine (MESH:D009952), eicosanoid (MESH:D015777), NaHCO3 (MESH:D017693), Dulbecco's modified Eagle's medium (-), arginine (MESH:D001120), fatty acid (MESH:D005227)
- **Species:** Nippostrongylus brasiliensis (species) [taxon 27835], Severe acute respiratory syndrome coronavirus 2 (no rank) [taxon 2697049], H1N1 subtype (serotype) [taxon 114727], Streptococcus pneumoniae (species) [taxon 1313], Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606], Adenoviridae (family) [taxon 10508], Heligmosomoides polygyrus (species) [taxon 6339]
- **Cell lines:** H2-Db — Homo sapiens (Human), Transformed cell line (CVCL_8468), 6S2 — Equus caballus (Horse), Transformed cell line (CVCL_9W08), 19 — Homo sapiens (Human), Prostate carcinoma, Cancer cell line (CVCL_5989), MDCK — Canis lupus familiaris (Dog), Spontaneously immortalized cell line (CVCL_0422), C57BL/6 — Mus musculus (Mouse), Transformed cell line (CVCL_C0MU)

## Full text

_Full body text omitted from this summary view._ Fetch the complete paper as Markdown: https://tomesphere.com/paper/PMC12919208/full.md

## Figures

8 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12919208/full.md

## References

160 references — full list in the complete paper: https://tomesphere.com/paper/PMC12919208/full.md

---
Source: https://tomesphere.com/paper/PMC12919208