# Spatiotemporal profiling reveals distinct dynamics and checkpoint regulations of CAR-T and CAR-NKT cells against solid tumors

**Authors:** Yan-Ruide Li, Miao Li, Yuning Chen, Houfu Leng, Yichen Zhu, Xinyuan Shen, Duncan Croll, Enbo Zhu, Jie Huang, Yu-Chen Wang, Abigail S. Krall, Heather R. Christofk, Aldons J. Lusis, Lili Yang

PMC · DOI: 10.1038/s41392-026-02602-x · Signal Transduction and Targeted Therapy · 2026-03-12

## TL;DR

This study compares CAR-T and CAR-NKT cell therapies in solid tumors, revealing differences in their behavior and response to immune checkpoint inhibitors.

## Contribution

The study provides a preclinical comparison of CAR-T and CAR-NKT cells using spatiotemporal profiling and identifies distinct checkpoint regulation patterns.

## Key findings

- CAR-NKT cells show better tumor infiltration and persistence than CAR-T cells.
- CAR-T cells respond synergistically to TIGIT blockade, while CAR-NKT cells are more sensitive to CD96 blockade.
- The study reveals divergent therapeutic dynamics and immune checkpoint profiles between CAR-T and CAR-NKT cells.

## Abstract

Chimeric antigen receptor (CAR)-engineered T (CAR-T) cell therapies have demonstrated remarkable efficacy in hematologic malignancies; however, their clinical performance in solid tumors remains limited due to suboptimal tumor infiltration, antigen heterogeneity, and immunosuppressive tumor microenvironments (TME). Invariant natural killer T (NKT) cells have recently emerged as a promising alternative platform for CAR engineering, owing to their intrinsic tissue-homing capacity, multi-modal cytotoxicity, and ability to reshape the TME. In this study, we performed a comprehensive preclinical comparison of conventional CAR-T cells and allogeneic stem cell–derived IL-15–enhanced CAR-NKT cells in solid tumor models, integrating spatiotemporal transcriptomic profiling across multiple tissues and longitudinal time points. Our analyses revealed distinct in vivo pharmacokinetic, pharmacodynamic, and immunoregulatory profiles between the two cell therapy modalities. Compared with CAR-T cells, CAR-NKT cells demonstrated superior homing, infiltration, and localization within solid tumors, along with prolonged in vivo persistence and a unique immune checkpoint receptor expression landscape. Notably, CAR-T cells exhibited synergistic antitumor responses when combined with TIGIT blockade, whereas CAR-NKT cells showed greater sensitivity to CD96 blockade in vivo. These findings highlight the divergent therapeutic dynamics of CAR-T and CAR-NKT cells and provide mechanistic insights that inform the rational design of next-generation cell therapies and combinatorial strategies for solid tumors.

## Linked entities

- **Proteins:** TIGIT (T cell immunoreceptor with Ig and ITIM domains), CD96 (CD96 molecule), IL15 (interleukin 15)

## Full-text entities

- **Genes:** Gpc3 (glypican 3) [NCBI Gene 14734] {aka OCI-5}, Cd274 (CD274 antigen) [NCBI Gene 60533] {aka A530045L16Rik, B7h1, Pdcd1l1, Pdcd1lg1, Pdl1}, TIGIT (T cell immunoreceptor with Ig and ITIM domains) [NCBI Gene 201633] {aka VSIG9, VSTM3, WUCAM}, Klrk1 (killer cell lectin-like receptor subfamily K, member 1) [NCBI Gene 27007] {aka D6H12S2489E, NKG2-D, Nkg2d}, Ccr1 (C-C motif chemokine receptor 1) [NCBI Gene 12768] {aka Cmkbr1, Mip-1a-R}, Cd226 (CD226 antigen) [NCBI Gene 225825] {aka DNAM-1, DNAM1, Pta1, TLiSA1}, CD8A (CD8 subunit alpha) [NCBI Gene 925] {aka CD8, CD8alpha, IMD116, Leu2, p32}, Gzmk (granzyme K) [NCBI Gene 14945], Gzmb (granzyme B) [NCBI Gene 14939] {aka CCP-1/C11, CCP1, Ctla-1, Ctla1, GZB}, Cartpt (CART prepropeptide) [NCBI Gene 27220] {aka Cart}, Cd96 (CD96 antigen) [NCBI Gene 84544] {aka 1700109I12Rik, Tactile}, Pvr (poliovirus receptor) [NCBI Gene 52118] {aka 3830421F03Rik, CD155, D7Ertd458e, HVED, PVS, Taa1}, CD4 (CD4 molecule) [NCBI Gene 920] {aka CD4mut, IMD79, Leu-3, OKT4D, T4}, B2m (beta-2 microglobulin) [NCBI Gene 12010] {aka Ly-m11, beta2-m, beta2m}, Tigit (T cell immunoreceptor with Ig and ITIM domains) [NCBI Gene 100043314] {aka Vstm3}, CXADRP1 (CXADR pseudogene 1) [NCBI Gene 653108] {aka CAR, CXADRP}, Fap (fibroblast activation protein) [NCBI Gene 14089] {aka SIMP}, Apc (APC, WNT signaling pathway regulator) [NCBI Gene 11789] {aka CC1, Min, mAPC}, Il2 (interleukin 2) [NCBI Gene 16183] {aka Il-2}, CD96 (CD96 molecule) [NCBI Gene 10225] {aka TACTILE}, Ciita (class II transactivator) [NCBI Gene 12265] {aka C2ta, EG669998, Gm9475, Mhc2ta}, Klrb1c (killer cell lectin-like receptor subfamily B member 1C) [NCBI Gene 17059] {aka CD161, Klrb1b, Ly-59, Ly55c, Ly59, NK-RP1}, Tnf (tumor necrosis factor) [NCBI Gene 21926] {aka DIF, TNF-a, TNF-alpha, TNFSF2, TNFalpha, Tnfa}, HLA-A (major histocompatibility complex, class I, A) [NCBI Gene 3105] {aka HLAA}, Mrc1 (mannose receptor, C type 1) [NCBI Gene 17533] {aka CD206, MR}, Klrd1 (killer cell lectin-like receptor, subfamily D, member 1) [NCBI Gene 16643] {aka CD94}, Ncam1 (neural cell adhesion molecule 1) [NCBI Gene 17967] {aka CD56, E-NCAM, NCAM-1, Ncam}, Ccr5 (C-C motif chemokine receptor 5) [NCBI Gene 12774] {aka AM4-7, CD195, Cmkbr5}, Saa3 (serum amyloid A 3) [NCBI Gene 20210] {aka Saa-3, l7R3}, Itgam (integrin alpha M) [NCBI Gene 16409] {aka CD11b/CD18, CR3, CR3A, Cd11b, F730045J24Rik, Ly-40}, Lgals9 (lectin, galactose binding, soluble 9) [NCBI Gene 16859] {aka LGALS35, Lgals5, gal-9, galectin-9}, Cars1 (cysteinyl-tRNA synthetase 1) [NCBI Gene 27267] {aka CA3, Cars}, Cxcr3 (C-X-C motif chemokine receptor 3) [NCBI Gene 12766] {aka Cd183, Cmkar3}, IL15 (interleukin 15) [NCBI Gene 3600] {aka IL-15}, Ccr7 (C-C motif chemokine receptor 7) [NCBI Gene 12775] {aka CC-CKR-7, CCR-7, CD197, Cdw197, Cmkbr7, EBI1}, Ighg2b (immunoglobulin heavy constant gamma 2B) [NCBI Gene 16016] {aka IgG2b, Igh-3, gamma2b}, Klrb1 (killer cell lectin-like receptor subfamily B member 1) [NCBI Gene 100043861] {aka 4930431A04Rik, Gm4696, Klrb1g, Klrb6, Ly-55, Ly55}, Il17a (interleukin 17A) [NCBI Gene 16171] {aka Ctla-8, Ctla8, IL-17, IL-17A, Il17}, Cd34 (CD34 antigen) [NCBI Gene 12490], Hopx (HOP homeobox) [NCBI Gene 74318] {aka 1110018K11Rik, 1200015P04Rik, 2300002F06Rik, Cameo, Hdop, Hod}, Havcr2 (hepatitis A virus cellular receptor 2) [NCBI Gene 171285] {aka TIM-3, Tim3, Timd3}, Nectin2 (nectin cell adhesion molecule 2) [NCBI Gene 19294] {aka Cd112, MPH, Pvr, Pvrl2, Pvs, nectin-2}, Uchl1 (ubiquitin carboxy-terminal hydrolase L1) [NCBI Gene 22223] {aka PGP 9.5, PGP9.5, UCH-L1, UCHL-1, gad}, MSLN (mesothelin) [NCBI Gene 10232] {aka MPF, SMRP}, Cxcr6 (C-X-C motif chemokine receptor 6) [NCBI Gene 80901] {aka BONZO, STRL33}, Il4 (interleukin 4) [NCBI Gene 16189] {aka BSF-1, Il-4}, Ctla4 (cytotoxic T-lymphocyte-associated protein 4) [NCBI Gene 12477] {aka Cd152, Ctla-4, Ly-56}, Cd4 (CD4 antigen) [NCBI Gene 12504] {aka L3T4, Ly-4}, Ly6g (lymphocyte antigen 6 family member G) [NCBI Gene 546644] {aka Gr-1, Gr1, Ly-6G}, Lamp1 (lysosomal-associated membrane protein 1) [NCBI Gene 16783] {aka CD107a, LGP-120, LGP-A, Lamp-1, P2B, Perk}, Cxadr (coxsackie virus and adenovirus receptor) [NCBI Gene 13052] {aka 2610206D03Rik, CAR, MCAR, MCVADR}, S1pr1 (sphingosine-1-phosphate receptor 1) [NCBI Gene 13609] {aka Edg1, Lpb1, S1p, S1p1}, Prf1 (perforin 1 (pore forming protein)) [NCBI Gene 18646] {aka Pfn, Pfp, Prf-1}, Btg1 (BTG anti-proliferation factor 1) [NCBI Gene 12226], Fgl1 (fibrinogen-like protein 1) [NCBI Gene 234199] {aka Mfire1}, Sub1 (SUB1 homolog, transcriptional regulator) [NCBI Gene 20024] {aka P15, P9, Pc4, Rpo2tc1}, Itgax (integrin alpha X) [NCBI Gene 16411] {aka Cd11c, Cr4, N418}, Gem (GTP binding protein overexpressed in skeletal muscle) [NCBI Gene 14579], Nkg7 (natural killer cell group 7 sequence) [NCBI Gene 72310] {aka 2500004F03Rik}, Il6 (interleukin 6) [NCBI Gene 16193] {aka Il-6}
- **Diseases:** bleeding (MESH:D006470), multiple myeloma (MESH:D009101), tumorigenesis (MESH:D063646), lung cancer (MESH:D008175), peritoneal mesothelioma (MESH:D010538), death (MESH:D003643), prostate cancer (MESH:D011471), HCC (MESH:D006528), gastric cancer (MESH:D013274), cytotoxicity (MESH:D064420), pancreatic cancer (MESH:D010190), AIDS (MESH:D000163), pulmonary toxicities (MESH:D008171), peritoneal disease (MESH:D010532), neuroblastoma (MESH:D009447), Tumor (MESH:D009369), weight loss (MESH:D015431), SCID (MESH:D053632), glioblastoma (MESH:D005909), B-cell leukemia (MESH:D015448), lymphoma (MESH:D008223), breast cancer (MESH:D001943), GvHD (MESH:D006086), inflammation (MESH:D007249), blood cancer (MESH:D019337), solid (MESH:D018250), OC (MESH:D010051)
- **Chemicals:** glycolipid (MESH:D006017), AMP/ADP (-), glycerol-3-phosphate (MESH:C029620), D-luciferin (MESH:C532924), fructose-6-phosphate (MESH:C027618), FITC (MESH:D016650), DAPI (MESH:C007293), PMA (MESH:D013755), ammonium carbonate (MESH:C040502), lipid (MESH:D008055), EDTA (MESH:D004492), isoflurane (MESH:D007530), Ionomycin (MESH:D015759), phosphocholine (MESH:D010767), acetonitrile (MESH:C032159), PBS (MESH:D007854), amino acid (MESH:D000596), glycerophosphocholine (MESH:D005997), methanol (MESH:D000432), taurine (MESH:D013654), BCMA (MESH:C048009), oleic acid (MESH:D019301), nitrogen (MESH:D009584), pembrolizumab (MESH:C582435), ammonium acetate (MESH:C018824), PE (MESH:C005448)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** A17188A, A18087E, A15153G
- **Cell lines:** CAR15 — Carassius auratus (Goldfish), Spontaneously immortalized cell line (CVCL_4140), OVCAR8 — Homo sapiens (Human), High grade ovarian serous adenocarcinoma, Cancer cell line (CVCL_1629), SKOV3 — Homo sapiens (Human), Ovarian serous cystadenocarcinoma, Cancer cell line (CVCL_0532), CAR-NKT — Rattus norvegicus (Rat), Rat large granular lymphocyte leukemia, Cancer cell line (CVCL_F856), Lenti — Homo sapiens (Human), Induced pluripotent stem cell (CVCL_A4EW), OVCAR3 — Homo sapiens (Human), High grade ovarian serous adenocarcinoma, Cancer cell line (CVCL_0465), FG — Paralichthys olivaceus (Bastard halibut), Spontaneously immortalized cell line (CVCL_8197)

## Full text

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## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12987976/full.md

## References

10 references — full list in the complete paper: https://tomesphere.com/paper/PMC12987976/full.md

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Source: https://tomesphere.com/paper/PMC12987976