Structures of cytosine-phosphate-guanosine (CpG) oligodeoxynucleotides (ODNs) consisting of entirely phosphodiester backbone. (A) Sequence and structure of CpG ODN with a dumbbell-like structure: the CpG ODN with a dumbbell-like structure has 30 nucleotides in both loops that contain three CpG dinucleotide motifs.a (B) Structure of dendrimer-like DNA: Y-shaped DNA consists of three single-stranded DNA with 30 nucleotides containing CpG dinucleotide motifs; G1, G2, and G3 dendrimer-like structures were synthesized by ligation of Y-shaped DNA; the sizes of CpG ODNs with G1, G2, and G3 dendrimer-like structures were about 12, 20, and 36 nm, respectively.b (C) Assembly of CpG bearing DNA tetrahedral nanostructure: the core tetrahedral nanostructure consists of assembly with four 55-mer ODNs. The CpG motif is linked to each ODN via a 7-mer oligothyamine spacer.c
aReproduced with permission from Schmidt et al;⁵² breproduced with permission from Rattanakiat et al³⁰; creproduced with permission from Li et al.⁵⁵

Structures of cytosine-phosphate-guanosine (CpG) oligodeoxynucleotides (ODNs) consisting of entirely phosphodiester backbone. (A) Sequence and structure of CpG ODN with a dumbbell-like structure: the CpG ODN with a dumbbell-like structure has 30 nucleotides in both loops that contain three CpG dinucleotide motifs.a (B) Structure of dendrimer-like DNA: Y-shaped DNA consists of three single-stranded DNA with 30 nucleotides containing CpG dinucleotide motifs; G1, G2, and G3 dendrimer-like structures were synthesized by ligation of Y-shaped DNA; the sizes of CpG ODNs with G1, G2, and G3 dendrimer-like structures were about 12, 20, and 36 nm, respectively.b (C) Assembly of CpG bearing DNA tetrahedral nanostructure: the core tetrahedral nanostructure consists of assembly with four 55-mer ODNs. The CpG motif is linked to each ODN via a 7-mer oligothyamine spacer.c aReproduced with permission from Schmidt et al;⁵² breproduced with permission from Rattanakiat et al³⁰; creproduced with permission from Li et al.⁵⁵

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Unmethylated cytosine-phosphate-guanosine (CpG) oligodeoxynucleotides (ODNs) are recognized by Toll-like receptor 9 (TLR9) found in antigen-presenting cells and B cells and can activate the immune system. Using CpG ODNs as an adjuvant has been found to be effective for treating infectious diseases, cancers, and allergies. Because natural ODNs with...

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... The ZIF-8/CpG ODNs complex exhibited good biocompatibility and high stability in a physiological environment but degraded in the acidic environment of endolysosomes to release CpG ODNs. CpG ODNs could activate the immune system and induce Th1 responses by stimulating Toll-like receptor 9 (TLR9) in the acidic endolysosomal compartment, thus enhancing their immunostimulatory activity (figure 11) [81,82]. ...
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... It is important to note that the CpG-ODN used in our experiments has natural phosphodiester bonds, in contrast to the typical phosphorothioate bonds used in commercial oligonucleotides to prevent possible DNAse degradation. Considering the higher cost and the reported toxicity of the latter, the use of phosphodiester CpG-ODN is advantageous [18,33]. To address the natural bonds susceptibility, other authors demonstrated that the formulation of phosphodiester CpG-ODN with liposomes provides protection to the DNA molecule [18,34]. ...
... Moreover, this discrepancy may arise from the inherent advantages of the G4 structure and non-viral vector carrier DOTAP [18]. The capacity to induce IFN-α production has been recognized to correlate with the potential to form extensive ODN structures [44].Moreover, the high-charge-ratio complexes with large sizes are taken into macrophages via micropinocytosis [45]. Besides B cells and pDCs, the high-chargeratio complexes might take up natural killer cells, monocytes/macrophages, and T cells in hPBMCs as well, leading to secreted IL-6 production. ...
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... Considering the chemical backbone and sequence characteristics, CpG ODNs are classified into four categories: A/D-, B/K-, C-, and P-type ODNs [4][5][6]. Among them, A/D-type CpG-ODNs have a phosphodiester palindromic domain in the central region, which contains one or more CpG motifs in the palindrome [7,8]. ...
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Among several types of CpG-ODNs, A/D-type CpG-ODNs have potent adjuvant activity to induce Th-1 immune responses, but exhibit a propensity to aggregate. For the clinical application of A/D-type CpG-ODNs, it is necessary to control such aggregation and obtain a comprehensive understanding of the relationship between their structure and the immune responses. This study revealed that a representative A/D-type CpG ODN, D35, adopted a single-stranded structure in water, while it assembled into aggregates in response to Na⁺ ions. From polyacrylamide gel electrophoresis and circular dichroism analyses, D35 adopted a homodimeric form (duplex) via palindromic sequences in low-Na⁺-concentration conditions (10–50 mM NaCl). After replacement of the solution with PBS, quadruplexes began to form in a manner coordinated by Na⁺, resulting in large aggregates. The duplexes and small aggregates prepared in 50 mM NaCl showed not only high cellular uptake but also high affinity to Toll-like receptor 9 (TLR9) proteins, leading to the production of a large amount of interferon-α for peripheral blood mononuclear cells. The much larger aggregates prepared in 100 mM NaCl were incorporated into cells at a high level, but showed a low ability to induce cytokine production. This suggests that the large aggregates have difficulty inducing TLR9 dimerization, resulting in loss of the stimulation of the cells. We thus succeeded in inducing adequate innate immunity in vitro by controlling and adjusting the formation of D35 aggregates. Therefore, the findings in this study for D35 ODNs could be a vital research foundation for in vivo applications.
... However, chemical modifications have raised concerns regarding their undesirable side effects. For example, repeated administration of backbone-modified ODNs has been shown to lead to reduced immune responses, lymphoid follicle destruction, and organ enlargement (Nobutaka, 2012). Recently, developing nanotechnology has provided a new strategy to solve the problem of ODN transmission. ...
... Hai'ao ® oral cavity repair film (Zhenghai, China) was cut at an average thickness of 0.7-1.0 mm into a circle with a diameter of 5 mm and was sterilized with ultraviolet radiation (254 nm, 70 μW/cm2) for 30 min for standby (Nobutaka, 2012). PEN was set at a concentration of 2 mg/mL, mixed with MT01 (1 mg/mL) at a mass ratio of 6.0, and allowed to stand for 30 min at a 37°C water bath. ...
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... In this study, when compared with the control and allergy groups, the group treated with CpG ODN showed higher IFN-γ levels in the plasma, but the group also showed lower IFN-γ levels in the spleen. The problem with the application of CpG ODN is that it is easy for CpG ODN to degrade due to DNase (34). The use of chitosan nanoparticles in this study plays a role in the delivery system to increase the effectiveness of CpG ODN action. ...
... This study is in accordance with Kim et al., where the IL-13 concentration of both plasma and spleen in the CpG ODN treated group was higher than the allergic group. This finding may be caused by DNase degraded CpG ODN (34). Plasma and spleen IL-13 concentrations in the chitosan nanoparticles treated group were also higher than the allergy group. ...
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... Overall, it was shown that Class B CpG-ODNs induced IL-10 expression in both mammalian and avian macrophages. Additionally, Class C CpG-ODNs possess intermediate structural features between Class A CpG-ODNs, which have a CpG-containing palindromic motif, and Class B CpG-ODNs (Hanagata, 2012). Therefore, it was suggested that CpG-C 2395 , belonging to Class C CpG-ODN, may strongly induce IL-10 expression in HD11 cells because its structural features are similar to those of Class B CpG-ODN. ...
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... Oligodeoxynucleotides (ODNs) with cytosine-guanine dinucleotide (CpG) motifs have been considered potent immunostimulatory drugs (Klinman, 2004;Hanagata, 2012;Chuang et al., 2014). Nevertheless, ODNs have an unfavorable pharmacokinetic profile and adverse effects (Zhang et al., 2012;Zhang and Gao, 2017). ...
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... The phosphodiester backbone substituted by phosphorothioate can increase the enzymatic stability of CpG ODNs [21]. However, several side effects restrict the use of phosphorothioate-modified CpG ODNs, such as acute toxicity and nonspecific binding with proteins [22]. ...
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Unmethylated cytosine-phosphate-guanosine oligodeoxynucleotides (CpG ODNs) induce inflammatory cytokines and type I interferons (IFNs) to activate the immune system. To apply CpG ODNs as vaccine adjuvants, the cellular uptake and stability of phosphodiester-based, non-modified ODNs require further improvement. Previously developed new CpG ODNs forming guanine-quadruplex (G4) structures showed higher nuclease resistance and cellular uptake than linear CpG ODNs; however, the complex formation of G4-CpG ODNs with antigen proteins is necessary for their application as vaccine adjuvants. In this study, we utilized a cationic polymer, ε-poly-L-lysine (ε-PLL), as a carrier for G4-CpG ODNs and antigen. The ε-PLL/G4-CpG ODN complex exhibited enhanced stability against nucleases. Cellular uptake of the ε-PLL/G4-CpG ODN complex positively correlated with the N/P ratio. In comparison to naked G4-CpG ODNs, the ε-PLL/G4-CpG ODN complex induced extremely high levels of interleukin (IL)-6, IL-12, and IFN-β. Relative immune cytokine production was successfully tuned by N/P ratio modification. Mice with the ε-PLL/G4-CpG ODN/ovalbumin (OVA) complex showed increased OVA-specific immunoglobulin (Ig)G, IgG1, and IgG2c levels, whereas total IgE levels did not increase and weight gain rates were not affected. Therefore, ε-PLL can serve as a safe and effective phosphodiester-based, non-modified CpG ODN delivery system, and the ε-PLL/G4-CpG ODN/antigen complex is a highly promising candidate for vaccine adjuvants and can be further used in clinical research.
... Based on how cfDNA affects the immune system, it is evident that many studies have been performed to find out what role the DNA-sensing pathway plays in inflammation, by generating and using synthetic ODN sequences. There are numerous subtypes of TLR9 activating/inhibitory synthetic ODNs [189,190]. Type-A CpG-ODNs frequently form large multimeric aggregates spontaneously and are consequently retained in the early endosomes of plasmacytoid dendritic cells (pDCs) for relatively long periods, resulting in the prolonged activation of the signal-transducing complex and the robust IFNα production. Type-B CpG-ODNs, in contrast, stay monomeric and are rapidly transported from early to late endosomes, making them potent B and NK cell stimulators. ...
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