bims-spamet Biomed News
on Spatial metabolomics of T cells
Issue of 2026–05–03
nine papers selected by
Peio Azcoaga, Katholieke Universiteit te Leuven



  1. J Biochem Mol Toxicol. 2026 May;40(5): e70854
      This review focuses on two core immunosuppressive mechanisms within the tumor immune microenvironment (TIME): the polarization of tumor-associated macrophages (TAMs) towards an M2 phenotype and the functional exhaustion of CD8⁺ T cells. We systematically elucidate the multi-dimensional strategies by which Traditional Chinese Medicine (TCM) remodels the TIME. The article first dissects the interplay between TAMs and CD8⁺ T cells and their pivotal role in tumor immune escape. It then comprehensively reviews how TCM formulations and active components, through their characteristic multi-target actions, coordinately reverse TAM polarization and T cell exhaustion by modulating key signaling pathways (e.g., STAT, PI3K/Akt), reprogramming cellular metabolism (e.g., glycolysis, oxidative phosphorylation), and reshaping cytokine networks. Particular emphasis is placed on metabolic reprogramming as an upstream "bridging" mechanism that concurrently regulates both processes. Finally, the review explores the synergistic potential of combining TCM with immune checkpoint inhibitors and analyzes current challenges, including compositional complexity, insufficient mechanistic depth, and a paucity of high-quality clinical evidence. This work aims to provide a theoretical foundation and forward-looking perspective for developing novel TCM-based strategies in cancer immunotherapy.
    Keywords:  CD8+ T‐lymphocytes; immunotherapy; traditional Chinese medicine; tumor immune microenvironment; tumor‐associated macrophages
    DOI:  https://doi.org/10.1002/jbt.70854
  2. Anticancer Res. 2026 May;46(5): 2387-2401
       BACKGROUND/AIM: Colorectal cancer (CRC) remains the leading cause of cancer-related mortality worldwide and necessitates the development of novel therapeutic strategies. The tumor immune microenvironment (TME) critically influences disease progression and the response to immune checkpoint inhibitors (ICIs). Tumor-infiltrating lymphocytes (TILs) are key components of the TME with established prognostic and predictive significance. Nevertheless, detailed TIL characterization using flow cytometry has not been fully investigated in CRC.
    MATERIALS AND METHODS: We analyzed TILs from 90 fresh CRC specimens using multicolor flow cytometry to investigate the association between specific T cell subsets and clinical outcomes. Patients were classified into Hot and Cold groups based on hierarchical clustering of TIL marker expression.
    RESULTS: The Hot group demonstrated significantly better overall survival (OS) compared to the Cold group (5-year OS: 86.7% vs. 63.9%, p=0.006), although recurrence-free survival (RFS) was not significantly different (5-year RFS: 79.5% vs. 66.1%, p=0.24). CITRUS analysis revealed that PD-1+Tim-3+CD103+CD8+ T cells were enriched in hot tumors (32.1% vs. 6.1%, p<0.001) and correlated with a favorable prognosis. Importantly, multivariate analysis demonstrated that a low frequency of PD-1+Tim-3+CD103+ cells among CD8+ T cells was an independent prognostic factor for OS [hazard ratio (HR)=3.36, 95% confidence interval (CI)=1.20-9.34, p=0.02].
    CONCLUSION: A high frequency of PD-1+Tim-3+CD103+ CD8+ T cells is associated with better survival in CRC, highlighting their potential as a prognostic biomarker and therapeutic target.
    Keywords:  CD103; PD-1; Tim-3; Tumor-infiltrating lymphocytes; colorectal cancer; tumor microenvironment
    DOI:  https://doi.org/10.21873/anticanres.18125
  3. Front Immunol. 2026 ;17 1772701
       Background: The immunosuppressive tumor microenvironment (TME) is a major barrier to the efficacy of cancer immunotherapy. Tumor metabolic reprogramming, particularly aerobic glycolysis (the Warburg effect), drives lactate accumulation in the TIME. Beyond fueling tumor growth, lactate-derived lysine lactylation (Kla) has emerged as a pivotal epigenetic and post-translational modifier, directly coupling metabolic activity to the regulation of immune cell function and tumor cell resilience.
    Main body: This review synthesizes current evidence to delineate how the glycolysis-lactylation axis orchestrates a multi-faceted immunosuppressive program and confers broad therapy resistance. We detail its mechanisms in: (1) Inhibiting antitumor immunity by driving M2 macrophage polarization, enhancing regulatory T cell (Treg) function, and promoting CD8+ T cell exhaustion; (2) Enhancing intrinsic tumor cell resistance through lactylation-mediated DNA damage repair and stemness maintenance; and (3) Directly undermining immunotherapy, notably by stabilizing programmed cell death 1 ligand 1 (PD-L1). We critically evaluate emerging therapeutic strategies that target this axis, including inhibitors of glycolytic enzymes, lactate transporters (MCTs), and lactylation writers/erasers, and their potential to synergize with established immunotherapies.
    Conclusions: Targeting the lactate-lactylation signaling hub represents a promising metabolic-epigenetic strategy to dismantle tumor-driven immunosuppression and overcome therapeutic resistance, particularly resistance to immunotherapy. Although a substantial body of preclinical evidence, ranging from cancer cell line models to patient-derived xenografts, supporting the potential of targeting this axis, its clinical translation remains hindered by a gap in the evidence hierarchy, necessitating further validation through prospective clinical trials.
    Keywords:  glycolytic reprogramming; immune evasion; immunotherapy resistance; lactylation; metabolic-epigenetic; tumor microenvironment (TME)
    DOI:  https://doi.org/10.3389/fimmu.2026.1772701
  4. J Clin Invest. 2026 May 01. pii: e200987. [Epub ahead of print]136(9):
      Conventional type-1 dendritic cells (cDC1) are the main mediators of crosspresentation of tumor antigens to CD8+ T cells and provide a context of costimulatory molecules and cytokines that lead to cytotoxic T lymphocyte (CTL) responses. We analyzed bulk RNA sequences from 7 key clinical trials testing checkpoint inhibitors across multiple cancer types. cDC1- and CD8-associated gene signatures were analyzed. Multiplex tissue immunofluorescence was used to quantify cDC1 in melanoma, urothelial cancer, and non-small-cell lung cancer (NSCLC) samples and assess cDC1 tissue neighborhoods. Melanoma samples were studied with Xenium spatial transcriptomics (ST) and one series of NSCLC was analyzed using GeoMX-DSP. Strong associations across tumor types were found between cDC1 and CD8+ T cell transcripts with clinical outcomes. As mechanistically expected, transcripts for the CCL4 and CCL5 chemokines and the growth factor FLT3-L showed associations with cDC1 abundance. Tissue immunofluorescence showed a strong correlation of cDC1 and CD8+ T cell infiltration with clinical benefit upon treatment with checkpoint inhibitors (CPIs). Moreover, short distance between cDC1 and CD8+ T cells was found to define tissue niches associated with favorable outcomes. ST revealed recent T cell activation within immune cDC1-rich niches. cDC1 abundance, which determines CD8+ T lymphocyte density and activation in tumor tissues across cancer types, is strongly associated with clinical response to CPI-based immunotherapies.
    Keywords:  Cancer immunotherapy; Dendritic cells; Immunology; Oncology
    DOI:  https://doi.org/10.1172/JCI200987
  5. Hum Mutat. 2026 ;2026 8880918
      Breast cancer is the most prevalent malignancy in women, and the limited effectiveness of current treatments highlights the need for novel immune regulatory mechanisms to improve long-term survival. This study investigated the role of Vim in PGI2 synthesis and its impact on tumor immune regulation. Multiomics profiling revealed molecular alterations following Vim deletion, which were validated in murine breast cancer models using RT-qPCR, Western blot, ELISA, and flow cytometry, with rescue experiments involving exogenous PGI2. The findings showed that Vim deletion downregulated arachidonic acid metabolism, reduced PTGIS expression, and significantly lowered PGI2 levels. Functional assays demonstrated that Vim deficiency enhanced T cell-mediated antitumor immunity, evidenced by an increased proportion of CD8+ T cells, upregulation of cytotoxic genes (Ifng, Gzmb, Tnf, and Klrd1), and activation of inflammation-related signaling pathways, as indicated by enhanced phosphorylation of ERK1/2 and p65. Both exogenous PGI2 supplementation and ozagrel treatment reversed these effects. In conclusion, the Vim-PGI2 axis is identified as a key regulator of CD8+ T cell immunity in breast cancer, representing a potential therapeutic target and a critical consideration in anticoagulant management during cancer immunotherapy.
    Keywords:  CD8+ T cell activation; PGI2; Vim; arachidonic acid metabolism; breast cancer
    DOI:  https://doi.org/10.1155/humu/8880918
  6. Front Immunol. 2026 ;17 1816086
       Background: Brain metastases from colorectal cancer (CRC) are associated with poor survival and limited treatment options. As immunomodulatory therapies gain relevance, a deeper understanding of the tumor microenvironment (TME) in this setting is needed. Tumor-associated macrophages (TAMs) are pivotal regulators of tumor immunity, yet their spatial organization, polarization, and relationship to PD-L1-mediated immune checkpoint regulation in CRC brain metastases remain poorly defined. We therefore characterized the compartment-specific architecture and functional orientation of TAMs in brain metastases and matched primary CRCs.
    Methods: Immunohistochemical analyses of CD68 (pan-macrophages), CD86 (M1-associated), CD163 (M2-associated), and PD-L1 were performed on tissue microarrays from tumor specimens of 50 patients with CRC brain metastases, including 31 matched primary tumor-brain metastasis pairs. Compartment-specific TAM densities and PD-L1 expression were quantified to assess intra- and intertumoral heterogeneity and correlated with clinicopathological parameters and clinical outcomes.
    Results: Both primary CRCs and brain metastases exhibited macrophage-rich TMEs characterized by stromal predominance and an M2-skewed polarization. Compared with matched primary tumors, brain metastases showed a significant stromal enrichment of CD163+ TAMs. Dexamethasone treatment was associated with reduced densities of CD86+ TAMs in brain metastases. PD-L1 expression was predominantly confined to immune cells and displayed marked intra- and intertumoral heterogeneity, with frequent discordance between matched primary tumors and brain metastases, including recurrent lesions. In primary CRCs, high densities of CD68+ TAMs at the invasive front were associated with shortened brain metastasis-free survival, whereas neither TAM infiltration nor PD-L1 expression correlated with overall survival.
    Conclusion: CRC brain metastases exhibit a distinct, stroma-dominated and M2-polarized TME, consistent with site-specific enrichment of protumoral TAM phenotypes within the cerebral niche. This may reflect advanced disease biology, immunological adaptation to the brain microenvironment, or therapy- and selection-driven immune remodeling during metastatic progression. The association between dexamethasone treatment and reduced M1-associated TAM infiltration suggests therapy-related modulation of antitumoral immune activity, with potential implications for perioperative management. The heterogeneity and frequent discordance of PD-L1 expression highlight its dynamic regulation and support individualized assessment of metastatic lesions prior to immunotherapy. Collectively, these findings support site-specific immune profiling and identify TAMs as promising therapeutic targets within the TME of CRC brain metastases.
    Keywords:  PD-L1; TAMs; brain metastases; colorectal cancer; tumor microenvironment; tumor-associated macrophages
    DOI:  https://doi.org/10.3389/fimmu.2026.1816086
  7. Histochem Cell Biol. 2026 Apr 25. pii: 28. [Epub ahead of print]164(1):
      Immunophenotyping of tumor-infiltrating immune cells is increasingly important for understanding the tumor microenvironment (TME), particularly in the diagnosis and treatment of skin cancer. CD1a+ dendritic cells (DC) initiate T cell activation by presenting tumor antigens, while T cells directly target tumor cells. Analyzing their spatial distribution in different types of skin cancer can provide insights into immune response patterns. To characterize the immune cell composition within the TME, we performed immunofluorescence staining for CD1a and CD3 on formalin-fixed, paraffin-embedded (FFPE) samples from actinic keratoses (n = 18), squamous cell carcinoma (n = 23), basal cell carcinoma (n = 19), and melanoma (n = 22), with nevi (n = 16) and healthy skin (n = 9) as controls. Immune cells were quantified across four tumor compartments: intratumoral, tumor margin, intraepidermal, and intradermal. Both CD1a+ DC and CD3+ T cells were detected across all tumor entities, displaying distinct spatial distribution patterns. DC were enriched intratumorally and within the epidermis, whereas T cells predominantly accumulated at the tumor margin (main effect of region, p < 0.001). Melanoma exhibited significantly fewer DC at the tumor margin while maintaining strong T cell infiltration. Overall, the immune architecture of skin tumors is highly compartmentalized, characterized by region-specific DC and T cell distributions. These findings underscore the relevance of spatial immune profiling for understanding immune escape mechanisms and informing immunotherapeutic strategies.
    Keywords:  Dendritic cells; Immunophenotyping; Immunotherapy; Skin cancer; Tumor microenvironment; T cells
    DOI:  https://doi.org/10.1007/s00418-026-02468-8
  8. Immunity. 2026 Apr 29. pii: S1074-7613(26)00144-5. [Epub ahead of print]
      CD8+ T cells need to function in complex environments with varied nutrient availability, including the tumor microenvironment and inflamed tissues. The mechanisms that allow CD8+ T cells to maintain immune function in these perturbed settings are poorly understood. Here, we show that CD8+ T cells adapt to nutrient stresses over time, reconfiguring gene-regulatory and metabolic networks to license functional recovery. Under acute stress, T cells reoriented translational programming, which limited nutrient demand and prioritized stress-sensitive metabolic and transcriptional responses. Within these responses, the transcription factors activating transcription factor 4 (ATF4) and CCAAT/enhancer-binding protein gamma (CEBPG) jointly established an adaptive metabolic program, promoting amino acid synthesis and uptake while maintaining mitochondrial metabolism. Despite diminished energetic capacity under environmental stress, this program sustained central carbon metabolism. This subsequently mitigated cellular dysfunction and potentiated anti-tumor immunity. Altogether, we demonstrate that biosynthetic plasticity via translational and metabolic reprioritization confers T cell resilience in unfavorable environments, offering potential strategies to enhance immunotherapies.
    Keywords:  ATF4; CD8(+) T cells; CEBPG; GCN2; HRI; T cell exhaustion; T cells; amino acids; anti-tumor immunity; immunometabolism; integrated stress response; mTOR; nutrient stress; polysome profiling; stress adaptation; translation; tumor-infiltrating lymphocyte
    DOI:  https://doi.org/10.1016/j.immuni.2026.04.004
  9. J Nanobiotechnology. 2026 Apr 28.
      Aggregated mesenchymal stromal cells (MSCs) show enhanced anaerobic glycolysis and elevated lactate production when compared to conventional adherent MSCs. It is unknown whether their extracellular vesicles (EVs) inherit lactate from parent cells and regulate anaerobic glycolysis in recipient cells. Here we show that aggregated MSC-derived EVs (agg-EVs) have superior therapeutic effects on type 1 diabetes mellitus (T1DM) with significantly reduced hyperglycemia, improved pancreatic islets, and elevated CD8+ T cell exhaustion. Mechanistically, we found that agg-EVs inherited lactate from aggregated MSCs to enhance L-cysteine decomposition in CD8+ T cells. Non-targeted metabolomics analysis revealed that agg-EV-treated CD8+ T cells showed elevated L-cysteine metabolism as well as reduced L-cysteine, glutathione (GSH) and GSH/GSSG (glutathione disulfide) ratio, resulting in an increased hydrogen sulfide (H2S) level. H2S can activate β-catenin to upregulate programmed cell death protein 1 (PD-1) expression and, therefore, suppress CD8+ T cell proliferation and function. Blockage of L-cysteine decomposition by knockdown pyruvate kinase M2 (PKM2) in aggregated MSCs or knockout of cystathionine γ-lyase to reduce H2S level in CD8+ cells diminished agg-EV-mediated therapeutic effects. These findings identify a previously unknown mechanism by which agg-EVs induce CD8+ T cell exhaustion via H2S/β-catenin/PD-1 axis in T1DM immunotherapy.
    Keywords:  Aggregated mesenchymal stromal cells; CD8+ T cell exhaustion; Extracellular vesicles; Hydrogen sulfide; L-cysteine metabolism; Lactate
    DOI:  https://doi.org/10.1186/s12951-026-04466-3