A novel system for cloning human TCRs

Abstract

T-cell receptor (TCR)-based gene immunotherapy has emerged as a promising approach for the treatment of multiple malignancies. We have recently reported an efficient system for the cloning and functional evaluation of TCR-coding cDNAs. This system, which we named hTEC10, allows for the determination of TCR antigen specificity in less than 10 days, and may therefore constitute a fast and powerful platform for the development of new TCR-based anticancer therapies.

Keywords: :

• gene therapy
• hTEC10
• single-cell RT-PCR
• T-cell receptor

T cell receptor (TCR)-based gene immunotherapy is a promising strategy for the treatment of various cancers. Despite its great potential, this approach is still limited to specific tumor-associated antigens (TAAs) and to patients bearing common MHC class I alleles. Generally, characterizing the genes that encode TAA-specific TCRs requires the establishment of TAA-specific T-cell clones, which can take up several months. Furthermore, the screening of large amounts of T-cell clones is laborious. Recently, we have developed a system that allows for the cloning of genes encoding TCR α/β pairs from single TAA-specific T cells and the functional analysis of their antigen-specificity in less than 10 d. We named this system hTEC10, for “human TCR efficient cloning system within 10 days” (Fig. 1).¹

Figure 1. The hTEC10 system. Briefly, the cDNAs coding for human T-cell receptor (TCR) α and β chain are amplified from single T cells and cloned into an expression vector, which is then used to transduce the TCR⁻ T-cell line TG40. The antigen specificity of the TCR can be assessed by staining TCR-expressing TG40 cells with MHC tetramers or by monitoring CD69 expression. Of note, the entire procedure can be performed in less than 10 d. Reproduced with permissions from ref. 1.

Using hTEC10, we obtained 73 and 126 α fetoprotein (AFP)-specific TCRα/β-coding cDNA pairs from 2 hepatocellular carcinoma patients who had been successfully treated with an AFP-targeting peptide vaccine. The sequencing of the TCR-coding genes revealed that 199 TCRα/β cDNA pairs were categorized into 3 and 4 cDNA clones, respectively. The functional characterization of 7 AFP-specific TCRs identified one (clone 1–14, obtained from a single T-cell clone out of 199 AFP-specific T-cell clones available) that mediated robust cytotoxic effects against target cells pulsed with AFP-derived peptides. This result suggests that T-cell clones bearing high-affinity TAA-specific TCRs are very rare even among the peripheral blood lymphocytes of patients who had been successfully treated by TAA-targeting vaccines. Using conventional methods, minor T-cell populations such as clone 1–14 would be lost during culture, since large T-cell populations would take over and expand preferentially. Thus, our method is suitable for exploring very small populations of antigen-specific T cells that conventional screening methods may overlook, significantly increasing the possibility to obtain optimal TCR-coding cDNAs for TCR-based gene therapy.

Until recently, numerous studies on the TCR repertoire of antigen-specific T cells have been performed by flow cytometry, based on a panel of monoclonal antibodies specific for TCR β variable fragment (TRBV),² or by PCR-based methods, using a panel of TRBV-specific primers.³ These methods characterize the TRBV regions of TCRs at the population level, but fail to provide insights into the TCR α variable fragments (TRAVs) as well as into the TRBV regions at a single-cell level. Thus, so far we have not been able to measure the true extent of the clonal diversity within CD8⁺ cytotoxic T lymphocyte (CTL) populations isolated from cancer patients. In this context, we and others had reported single-cell RT-PCR protocols that permit the simultaneous characterization of the sequences encoding complementarity-determining region 3 (CDR3) α and β in human⁴ and mouse⁵ TCRs. However, these protocols cannot identify TCR α/β pairs, confirm their antigen specificity nor examine their ability to promote cytotoxic effector functions. In contrast, the hTEC10 system may provide us with a new way to analyze the TCR repertoire, as it supplies information of both the TCR α and β chains at the single-cell level and can assess their functional profile. In addition, hTEC10 may provide a useful means to assess the efficacy of anticancer vaccination.

For cancer immunotherapy to be efficient, hence resulting in tumor eradication in vivo, cytotoxic T cells expressing a TCR of sufficiently high avidity are required. In this context, Johnson and colleagues selected CTLs that displayed TAA-specific TCRs with sufficient affinity to induce tumor regression among more than 600 different TAA-specific T cells.⁶ To obtain T cells with a sufficient avidity to eliminate tumors in vivo, Nauerth and collaborators have recently developed a new assay based on reversible MHC streptamers, allowing for the assessment of the dynamic dissociation (K_off rate) of fluorescently labeled, peptide-loaded MHC class I monomers from TCRs expressed on the surface of living T cells.⁷ The assay enables a simple, quantitative and reproducible measurement of the K_off rate as a reliable indicator of TCR binding avidity. The combination of the hTEC10 system with this new method may provide us with a valuable approach to selectively retrieve high-affinity T-cell clones for TCR-based gene therapy. Another possible strategy to generate high-affinity TCRs is the genetic alteration of TCR-coding genes. Preliminary clinical trials have already demonstrated that genetically enhanced TCRs can indeed confer improved on-target effector functions to T cells. In this scenario, the hTEC10 system might also contribute by supplying several TCR-coding sequences as starting point for genetic engineering.

Concerning the adverse effect of high-avidity TCRs, 2 patients receiving affinity-enhanced melanoma antigen family A3 (MAGEA3)-specific T cells have recently died owing to the cross-reaction of adoptively transferred lymphocytes with a protein expressed in the pulsating cardiac tissue.⁸ Furthermore, T cells expressing TCRs whose affinity is much higher than the physiological one have been shown to mediate increased off-target activity at the expenses of on-target effector functions.⁹ Thus, methods are needed that allow for refining the affinity/avidity of TCRs to optimal levels, ensuring robust on-target effector functions in the absence of severe side effects.

Finally, in combination with MHC multimer-based staining protocols, the hTEC10 system can detect and retrieve TCR α/β cDNA pairs from CD8⁺ T cells that secrete specific cytokines or express the activation marker tumor necrosis factor receptor superfamily, member 9 (TNFRSF9, best known as CD137 or 4–1BB) upon stimulation with antigenic peptides. Our findings indicate that the hTEC10 system can be used to isolate T cells from cancer patients without the identification of the corresponding TAAs. Briefly, T cells are stimulated with cancer cells followed by the isolation of interferon γ (IFNγ)-secreting or CD137-expressing CD8⁺ T cells. Once the TCR-coding sequences of these cells are cloned, their antigen-specificity can be examined by analyzing the response of TCR-transduced T cells against malignant cells. This protocol extends the applicability of the hTEC10 system from the cloning of TCRs with known antigen specificity to the retrieval of TCRs of unknown antigen specificity. In conclusion, the hTEC10 system may provide a fast and powerful approach for the development of novel paradigms of TCR-based gene therapy against cancer.

Disclosure of Potential Conflicts of Interest

Authors have applied a patent of hTEC10 system.

Citation: Kobayashi E, Kishi H, Muraguchi A. A novel system for cloning human TCRs: Cutting short the way to TCR-based anticancer therapy. OncoImmunology 2013; 2:e27258; 10.4161/onci.27258