News| Complementarity-determining Region Clustering May Cause CAR-T Cell Dysfunction
2025-01-09
0102030405060708
In a study published on August 13, 2023 in Nature Communications, a team of researchers identified that the complementarity determining region (CDR) loop in a single chain variable fragment (scFv) can lead to CAR aggregation, which can cause chimeric antigen receptor (CAR) - T cell failure, cell death, and reduced tumor cell reactivity to target antigen expression, resulting in antigen independent activation and potential functional impairment.
Background and methodologyBACKGROUND
CAR-T cell therapy is highly effective for the treatment of blood cancer, and in this cell therapy, the design of CARs is even more important. In this study, the extracellular domain of human interleukin-13 receptor alpha 2 (IL13R alpha 2) was co expressed with BirA biotin ligase using the multiBac expression system. After a series of optimized expression of the receptor protein, purification and protein validation were carried out. A human scFv synthetic library was used for phage display screening, and corresponding scFv antibodies were selected for production through solid-phase screening and binding assay analysis. Suitable antibodies were selected for lentiviral vector construction and packaging through SPR and ELISA assays. The researchers further transduced and cultured T cells, and then examined CAR in these cells using confocal microscopy. The distribution on top. To analyze the behavior of CAR-T cells, researchers evaluated the binding of CAR-T cells to recombinant IL13R α 2, stained T cell surface markers, and studied the expression of CAR on the surface and inside the cells. In addition, they also explored CAR-T cell proliferation and cytokine secretion, and analyzed gene expression in different CAR-T constructs, emphasizing their differences. In vivo experiments involve implanting tumor cells in situ into mice, followed by CAR-T therapy and monitoring tumor growth through in vivo imaging systems (IVIS). Perform statistical analysis using GraphPad Prism and standard significance markers.
ConclusionCONCLUSION
In the current study, researchers evaluated the CAR construct structure, its extracellular scFv, linker, and additional domains to understand their impact on CAR-T cell performance. It has been determined that the CDR loop within scFv is responsible for antigen recognition, and certain frameworks within scFv may inadvertently activate CAR signaling, potentially impairing T cell function. The interactions within the CDR loop may further affect the stability of CAR. Small differences in the CDR loop can greatly alter the effectiveness of CAR-T cells, and a new rapid screening method for CAR behavior has been proposed.
Detailed content introduction
Introduction to CAR-T
The key to CAR T-cell therapy (Chimeric Antigen Receptor T-cell therapy) is to help coordinate the immune response of T cells, modify T cells, insert CAR genes and express them on the surface of T cells as chimeric antigen receptor CAR proteins. CAR can directly recognize antigens on the surface of cancer cells, thereby achieving a specific therapeutic method for identifying and killing cancer cells in the patient's own body. Since 2017, the FDA has approved six CAR-T cell therapies for the treatment of blood cancers such as lymphoma. However, there are still difficulties in treating solid tumors, as the surrounding mediators can prevent CARs from recognizing antigens on the tumor surface. Additionally, solid tumors have heterogeneity, making it difficult to achieve therapeutic effects due to differences in the same cancer type within the body.

Fig 1: FDA-Approved CAR-T Therapies. Figure source: CAR-T cell.
Introduction to scFv antibody
scFv is a small antibody fragment consisting of a heavy chain (VH) and a light chain (VL) connected by a short flexible peptide, with a size of about 25 kDa, and is the most commonly used type of recombinant antibody. scFv is small in size, specific, can be produced on a large scale in a prokaryotic expression system, and has an intact antigen-binding site, which is widely used in the diagnosis and treatment of diseases.

Fig 2: scFv antibody
Introduction to CDR
Complementarity determining regions (CDRs) are peptide fragments of the variable regions of antibodies that can bind to antigens through CDRs, also known as antigen binding sites. An antibody molecule contains two antigen receptors, and one antigen receptor contains six CDRs. CDRs reflect the binding activity of antigens to antibodies.
The technology involved
Insect expression system
The baculovirus insect cell expression system has become one of the most widely used systems for routine production of recombinant proteins. The baculovirus insect cell system has successfully expressed G protein coupled receptors (GPCRs), produced VLPs, and produced infectious gonadal associated virus (AAV) type 2 vectors. A prominent example of the application of this technology is the development of vaccines based on HPV VLPs. Clinical trials have shown that VLPs composed of HPV 16/18 L1 structural proteins produced in insect cells infected with rod-shaped viruses can effectively prevent cervical infections of HPV-16 and HPV-18, as well as related cellular abnormalities and lesions.

Fig 3: Production process. Figure source: Baculovirus as versatile vectors for protein expression in insect and mammalian cells.
Phage display technology
Phage display technology was born in 1985 when GeorgeSmith reported that foreign peptide could be displayed on the surface of filamentous bacteriophage. By inserting foreign DNA into the genome of phages, fusion proteins are displayed on the surface of phages. This method has become an effective method for producing large quantities of peptides, proteins, and antibodies, allowing for the construction of libraries containing up to 10 ^ 10 different variants, and can be used for affinity screening of peptide libraries to study protein ligand interactions, antigen and antibody binding sites, and the production of scFv antibody, Fab antibody, Nanobody.

Fig 4: Phage display technology
Human scFv antibody synthesized library
Synthetic antibody library, also known as de novo library, is a synthetic method that utilizes techniques such as DNA synthesis or phage display to design and synthesize complete antibody variable regions, including framework regions and CDRs, without relying on natural antibody libraries. Synthesize synthetic DNA encoding antibody sequences, including framework regions and CDRs, through chemical or enzymatic methods. The synthesized DNA fragments are assembled into antibody expression vectors using techniques such as PCR, and then introduced into expression systems such as bacteria, yeast, or mammalian cells for antibody production. High throughput screening methods can be used to screen antibodies with desired features in antibody libraries, including phage display, yeast display, or ribosome display technologies. The synthetic antibody library has the following advantages: (1) the randomness of the library increases, and the capacity of the library is large; (2) Some difficult antibodies can be screened without immunizing animals; (3) Compared to naive antibody libraries, the design of synthetic antibody libraries is diverse.
SPR Affinity Measurement
Surface Plasmon Resonance (SPR) can be used to analyze the binding affinity and kinetic parameters between ligands and analytes. SPR measurement is based on changes in refractive index near the sensor surface, where the analyte flows continuously and is measured along the sensor surface. SPR is used to determine the relative affinity of protein-protein interactions, such as the affinity of antibodies to target antigens. SPR can be applied to detect molecular adsorption, SPR immunoassays, material characterization, data analysis, and biosensors.

Fig 5: Surface plasmon resonance (SPR). Figure source: Sabban, Sari (2011) Development of an in vitro model system for studying the interaction of Equus caballus IgE with its high- affinity FcεRI receptor (PhD thesis), The University of Sheffield, CC BY-SA 3.0
Lentiviral Construction and Production
Lentiviral vectors have the ability of high packaging, wide trend, unique versatility and stability, making it an ideal gene delivery system. Lentiviral is a kind of virus that can cause diseases such as AIDS. They are infected by inserting DNA into the host cell genome. Lentiviral vector is a retrovirus with single stranded RNA genome and reverse transcriptase, which can insert and modify genes in the organism.

Fig. 6 structure of HIV, a lentivirus. Figure source: wikipedia
ReferenceREFERENCE
[1] Sarén, T., Saronio, G., Marti Torrell, P. et al. Complementarity-determining region clustering may cause CAR-T cell dysfunction. Nat Commun 14, 4732 (2023). https://doi.org/10.1038/s41467-023-40303-z
[2] Kost, T., Condreay, J. & Jarvis, D. Baculovirus as versatile vectors for protein expression in insect and mammalian cells. Nat Biotechnol 23, 567–575 (2005). https://doi.org/10.1038/nbt1095.
[3] Sparks RP, Jenkins JL, Fratti R. Use of Surface Plasmon Resonance (SPR) to Determine Binding Affinities and Kinetic Parameters Between Components Important in Fusion Machinery. Methods Mol Biol. 2019;1860:199-210. doi: 10.1007/978-1-4939-8760-3_12. PMID: 30317506; PMCID: PMC8489108.
[4] https://en.wikipedia.org/wiki/Lentivirus.
[5] https://www.cancer.gov/about-cancer/treatment/research/car-t-cells.