# Direct Cytoplasmic Transcription and Trimeric RBD Design Synergize to Enhance DNA Vaccine Potency Against SARS-CoV-2

**Authors:** Yunju Nam, Sang Chul Shin, Sang Won Cho, Hyung Jun Ahn

PMC · DOI: 10.3390/pharmaceutics18020164 · 2026-01-26

## TL;DR

This study shows that combining a trimeric RBD antigen with cytoplasmic transcription improves DNA vaccine effectiveness against SARS-CoV-2.

## Contribution

The integration of trimeric RBD design with cytoplasmic transcription is novel for enhancing DNA vaccine performance.

## Key findings

- T7-driven cytoplasmic transcription significantly boosts antigen expression compared to conventional plasmid delivery.
- Rpol/tRBD vaccines induce higher antibody titers, neutralizing activity, and CD8⁺ T cell responses than monomeric or plasmid-based trimeric RBD vaccines.
- The vaccine elicits Th1-skewed immune responses with minimal toxicity and germinal center activation.

## Abstract

Background/Objectives: The emergence of immune-evasive SARS-CoV-2 variants highlights the need for adaptable vaccine strategies. Trimeric receptor-binding domain (tRBD) antigens offer structural and immunological advantages over monomeric RBDs, but DNA vaccine efficacy has been limited by inefficient antigen expression, particularly in non-dividing antigen-presenting cells. Although cytoplasmic transcription–based DNA platforms have been developed to overcome nuclear entry barriers, their utility for antigen structure–function optimization remains underexplored. This study evaluated whether integrating a rationally designed trimeric RBD with a T7-driven cytoplasmic transcription system could enhance immunogenic performance. Methods: A DNA vaccine encoding a tandem trimeric SARS-CoV-2 RBD was delivered using a T7 RNA polymerase-driven cytoplasmic transcription system. In vitro antigen expression was assessed following Lipofectamine 3000-mediated transfection. In vivo, mice were immunized with the SM-102-based Rpol/tRBD/LNP formulation, and immunogenicity was assessed by antigen-specific antibody titers, serum neutralizing activity, and T-cell response profiling, together with basic safety/tolerability evaluations. Results: The T7-driven cytoplasmic transcription system markedly increased antigen mRNA and protein expression compared with conventional plasmid delivery. Rpol/tRBD vaccination induced higher anti-RBD IgG titers, enhanced neutralizing antibody activity, and robust CD8⁺ T cell responses relative to monomeric RBD and plasmid-based trimeric RBD vaccines. Immune responses were Th1-skewed and accompanied by germinal center activation without excessive inflammatory cytokine induction, body-weight loss, or hepatic and renal toxicity. Conclusions: This study demonstrates that integrating rational trimeric antigen engineering with direct cytoplasmic transcription enables balanced and well-tolerated immune activation in a DNA vaccine context. The T7 autogene-based platform provides a flexible framework for antigen structure–function optimization and supports the development of next-generation DNA vaccines targeting rapidly evolving viral pathogens.

## Linked entities

- **Proteins:** l(3)62Bi (lethal (3) 62Bi)
- **Diseases:** SARS-CoV-2 (MONDO:0100096)
- **Species:** Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, CD40 (CD40 molecule) [NCBI Gene 958] {aka Bp50, CDW40, TNFRSF5, p50}, CD8A (CD8 subunit alpha) [NCBI Gene 925] {aka CD8, CD8alpha, IMD116, Leu2, p32}, Gzmb (granzyme B) [NCBI Gene 14939] {aka CCP-1/C11, CCP1, Ctla-1, Ctla1, GZB}, FAS (Fas cell surface death receptor) [NCBI Gene 355] {aka ALPS1A, APO-1, APT1, CD95, FAS1, FASTM}, Fcr (Fc receptor) [NCBI Gene 109615], CSF1 (colony stimulating factor 1) [NCBI Gene 1435] {aka CSF-1, MCSF, PG-M-CSF}, Lamp1 (lysosomal-associated membrane protein 1) [NCBI Gene 16783] {aka CD107a, LGP-120, LGP-A, Lamp-1, P2B, Perk}, Il4 (interleukin 4) [NCBI Gene 16189] {aka BSF-1, Il-4}, Tgfb1 (transforming growth factor, beta 1) [NCBI Gene 21803] {aka TGF-beta1, TGFbeta1, Tgfb, Tgfb-1}, CD86 (CD86 molecule) [NCBI Gene 942] {aka B7-2, B7.2, B70, BU63, CD28LG2, CD86 v6}, IL6 (interleukin 6) [NCBI Gene 3569] {aka BSF-2, BSF2, CDF, HGF, HSF, IFN-beta-2}, TNFRSF8 (TNF receptor superfamily member 8) [NCBI Gene 943] {aka CD30, D1S166E, Ki-1}, Tnf (tumor necrosis factor) [NCBI Gene 21926] {aka DIF, TNF-a, TNF-alpha, TNFSF2, TNFalpha, Tnfa}, GZMB (granzyme B) [NCBI Gene 3002] {aka C11, CCPI, CGL-1, CGL1, CSP-B, CSPB}, NUSAP1 (nucleolar and spindle associated protein 1) [NCBI Gene 51203] {aka ANKT, BM037, LNP, NUSAP, PRO0310p1, Q0310}, CD40LG (CD40 ligand) [NCBI Gene 959] {aka CD154, CD40L, HIGM1, IGM, IMD3, T-BAM}, IFNG (interferon gamma) [NCBI Gene 3458] {aka IFG, IFI, IMD69}, IL7R (interleukin 7 receptor) [NCBI Gene 3575] {aka CD127, CDW127, IL-7R-alpha, IL-7Ralpha, IL7RA, IL7Ralpha}, Il2 (interleukin 2) [NCBI Gene 16183] {aka Il-2}, IL4 (interleukin 4) [NCBI Gene 3565] {aka BCGF-1, BCGF1, BSF-1, BSF1, IL-4}, TGFBR1 (transforming growth factor beta receptor 1) [NCBI Gene 7046] {aka AAT5, ACVRLK4, ALK-5, ALK5, ESS1, LDS1}, Cd40 (CD40 antigen) [NCBI Gene 21939] {aka Bp50, GP39, HIGM1, IGM, IMD3, T-BAM}, Gpt (glutamic pyruvic transaminase, soluble) [NCBI Gene 76282] {aka 1300007J06Rik, 2310022B03Rik, ALT, ALT1, Gpt-1, Gpt1}, CXCR5 (C-X-C motif chemokine receptor 5) [NCBI Gene 643] {aka BLR1, CD185, MDR15}, GAPDH (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 2597] {aka G3PD, GAPD, HEL-S-162eP}, CD4 (CD4 molecule) [NCBI Gene 920] {aka CD4mut, IMD79, Leu-3, OKT4D, T4}, SELL (selectin L) [NCBI Gene 6402] {aka CD62L, LAM1, LECAM1, LEU8, LNHR, LSEL}, HBA2 (hemoglobin subunit alpha 2) [NCBI Gene 3040] {aka ECYT7, HBA-T2, HBH}, IL2 (interleukin 2) [NCBI Gene 3558] {aka IL-2, TCGF, lymphokine}, Il12b (interleukin 12b) [NCBI Gene 16160] {aka Il-12b, Il-12p40, Il12p40, p40}, DNTT (DNA nucleotidylexotransferase) [NCBI Gene 1791] {aka TDT}, Tgfbr1 (transforming growth factor, beta receptor I) [NCBI Gene 21812] {aka ALK5, Alk-5, ESK2, TGFR-1, TbetaR-I, TbetaRI}, CD44 (CD44 molecule (IN blood group)) [NCBI Gene 960] {aka CDW44, CSPG8, ECM-III, ECMR-III, H-CAM, HCELL}, Cd44 (CD44 antigen) [NCBI Gene 12505] {aka HERMES, Ly-24, Pgp-1}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, PTPRC (protein tyrosine phosphatase receptor type C) [NCBI Gene 5788] {aka B220, CD45, CD45R, GP180, IMD105, L-CA}, Cd40lg (CD40 ligand) [NCBI Gene 21947] {aka CD154, CD40-L, Cd40l, HIGM1, IGM, IMD3}, IGHE (immunoglobulin heavy constant epsilon) [NCBI Gene 3497] {aka IgE}, Cd86 (CD86 antigen) [NCBI Gene 12524] {aka B7, B7-2, B7.2, B70, CLS1, Cd28l2}, Cd4 (CD4 antigen) [NCBI Gene 12504] {aka L3T4, Ly-4}, Sell (selectin, lymphocyte) [NCBI Gene 20343] {aka CD62L, L-selectin, LAM-1, LECAM-1, LECAM1, Lnhr}, Il6 (interleukin 6) [NCBI Gene 16193] {aka Il-6}, ACE2 (angiotensin converting enzyme 2) [NCBI Gene 59272] {aka ACEH}, POTEF (POTE ankyrin domain family member F) [NCBI Gene 728378] {aka A26C1B, POTE2alpha, POTEACTIN}, S (surface glycoprotein) [NCBI Gene 43740568] {aka spike glycoprotein}, BCR (BCR activator of RhoGEF and GTPase) [NCBI Gene 613] {aka ALL, BCR1, CML, D22S11, D22S662, PHL}, ANXA5 (annexin A5) [NCBI Gene 308] {aka ANX5, CPB-I, ENX2, HEL-S-7, PP4, RPRGL3}, GPT (glutamic--pyruvic transaminase) [NCBI Gene 2875] {aka AAT1, ALT, ALT1, GPT1, SGPT}, Ifng (interferon gamma) [NCBI Gene 15978] {aka IFN-g, If2f, Ifg}
- **Diseases:** COVID-19 (MESH:D000086382), infection (MESH:D007239), cytotoxic (MESH:D064420), weight loss (MESH:D015431), viral infections (MESH:D014777), inflammatory tissue damage (MESH:D017695), hepatic and renal toxicity (MESH:D056486), Inflammatory (MESH:D007249), injury to (MESH:D014947), respiratory disease (MESH:D012140), VAERD (MESH:C000705427), CMV (MESH:D003586), GC (MESH:C548085)
- **Chemicals:** amino acids (MESH:D000596), Urea (MESH:D014508), Lipofectamine (MESH:C086724), sodium hypochlorite (MESH:D012973), chlorine (MESH:D002713), 2'-O-methyl guanosine triphosphates (-), PI (MESH:D011419), sodium nitroprusside (MESH:D009599), PBS (MESH:D007854), Tween-20 (MESH:D011136), Sodium acetate (MESH:D019346), sulfuric acid (MESH:C033158), DMSO (MESH:D004121), CoCl2 (MESH:C018021), Roscovitine (MESH:D000077546), citrate (MESH:D019343), CO2 (MESH:D002245), Agarose (MESH:D012685), indophenol (MESH:D007215), Lipids (MESH:D008055), Nitrogen (MESH:D009584), EDTA (MESH:D004492), DPBS (MESH:C012939), FITC (MESH:D016650), T (MESH:D014316), Trypan blue (MESH:D014343), GTP (MESH:D006160), SM-102 (MESH:C000712867), 1,2-dimyristoyl-rac-glycero-3-methoxypolyethylene glycol-2000 (MESH:C000626005), 1,2-distearoyl-sn-glycero-3-phosphocholine (MESH:C010942), p (MESH:D010758), isopropanol (MESH:D019840), sodium hydroxide (MESH:D012972), cholesterol (MESH:D002784), ethanol (MESH:D000431), phenol (MESH:D019800), water (MESH:D014867)
- **Species:** Homo sapiens (human, species) [taxon 9606], Mus musculus (house mouse, species) [taxon 10090], Encephalomyocarditis virus (no rank) [taxon 12104], Severe acute respiratory syndrome coronavirus 2 (no rank) [taxon 2697049], Gammacoronavirus (genus) [taxon 694013]
- **Mutations:** K417N/T, E484K, T2A, N501Y
- **Cell lines:** Huh7 — Homo sapiens (Human), Adult hepatocellular carcinoma, Cancer cell line (CVCL_0336), HEK293T — Homo sapiens (Human), Transformed cell line (CVCL_0063), HepG2 — Homo sapiens (Human), Hepatoblastoma, Cancer cell line (CVCL_0027), RM4-5 — Homo sapiens (Human), Ataxia telangiectasia syndrome, Transformed cell line (CVCL_XY52), MEL-14 — Mus musculus (Mouse), Hybridoma (CVCL_9224), /6 — Homo sapiens (Human), Tongue squamous cell carcinoma, Cancer cell line (CVCL_5985)

## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12944345/full.md

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Source: https://tomesphere.com/paper/PMC12944345