Decoding the role of macrophage LAP3 in lung cancer - integration of single-cell technologies and machine learning...

Amino acid metabolism plays a crucial role in shaping tumor-immune crosstalk in non-small cell lung cancer (NSCLC). However, the key cellular mediators that translate metabolic states into intercellular signals remain poorly defined.

We integrated single-cell RNA-seq with spatial transcriptomics to map immunometabolic architecture. Transcriptional co-variation was decomposed into amino-acid metabolic programs using Non-negative Matrix Factorization (NMF); spatial deconvolution localized programs and cell types in tissue. Myeloid populations were subclustered to resolve macrophage states. Functional assays tested LAP3 overexpression (OE-LAP3) in A549/PC9 cells (qRT-PCR, Western blot, CCK-8, colony formation, wound-healing, Transwell) and a nude-mouse subcutaneous mouse model.

Integrative single-cell and spatial transcriptomic analyses revealed that tumor epithelial and myeloid cells dominate the NSCLC microenvironment and exhibit lineage-specific activation of amino acid metabolic programs. Notably, LAP3 was selectively enriched in both tumor epithelium and a distinct macrophage subset. Spatial mapping localized this LAP3-high macrophage state to epithelial-myeloid interfaces, where it functions as a signaling hub, actively secreting chemokines, cytokines, adhesion molecules, and extracellular matrix (ECM) components. To test whether LAP3 plays a causal role in tumor behavior, we established stable LAP3-overexpressing A549 and PC9 cell lines, confirming robust upregulation at both mRNA and protein levels. Functionally, LAP3 overexpression significantly suppressed proliferation-evident in CCK-8 time-course and colony formation assays-and impaired motility and invasiveness, as shown by delayed wound healing and reduced cell migration/invasion in Transwell assays. Most importantly, these effects translated in vivo: LAP3-overexpressing xenografts formed markedly smaller tumors in nude mice.

LAP3 appears to functionally link amino acid catabolism to immune communication in NSCLC, defining an epithelial-macrophage immunometabolic niche where metabolic activity may shape the immune contexture. Its overexpression is associated with attenuated malignant phenotypes and heightened immune engagement, suggesting a potential dual role in restraining tumor aggressiveness and fostering an immune-responsive microenvironment. While these findings support LAP3 as a candidate biomarker for patient stratification and provide a rationale for combining metabolic modulation with immunotherapy, further mechanistic and clinical validation remains necessary.