Wei Liu1†
Yingyan Jiang2†
Cheng Wang3†
Min Wang4Wei Zhang5Haiying Ren6Shiyan Xu1Jinjing Qin1Pan Liu1Lianhai Jin5*
Donghai Zhao3*- 1College of Laboratory Medicine, Jilin Medical University, Jilin, China
- 2Department of Obstetrics and Gynecology, Affiliated hospital of Jilin medical university, Jilin, China
- 3College of Basic Medicine, Jilin Medical University, Jilin, China
- 4Department of Obstetrics and Gynecology, The Second Hospital of Jilin University, Changchun, China
- 5Low Pressure and Low Oxygen Environment and Health Intervention Innovation Center, Jilin Medical University, Jilin, China
- 6Psychiatric Research Unit III, Jilin Sixth People’s Hospital, Jilin, China
HPV has been conclusively associated with various human malignancies, making the development of prevention and treatment strategies for HPV-induced diseases a high priority. Currently, primary prevention methods include HPV immunization and routine screening, which significantly reduce the risk of HPV transmission. However, for patients diagnosed with invasive, advanced, or recurrent malignancies, non-virus-specific therapies frequently lead to drug resistance and adverse effects, resulting in minimal improvement in treatment efficacy for numerous patients. Viral genome-targeting therapy is emerging as a promising avenue for the future management of HPV infections. With the rapid advancement of genetic modification technologies, the CRISPR/Cas system has demonstrated significant potential in treating viral infections. Its ability to selectively target and edit viral genomes for elimination positions it as a highly effective approach for combating HPV. This review will explore the functions and applications of the CRISPR/Cas system as an innovative therapy for HPV. We will illustrate the prospective efficacy of CRISPR/Cas as a groundbreaking and promising cure for HPV infections, while also addressing the opportunities and challenges associated with this novel approach.
1 Introduction
Globally, Human Papillomavirus (HPV) ranks as a leading sexually transmitted pathogen, exhibiting widespread prevalence through transmission via skin, genital, and oral contact. Over 200 genotypes have been identified, categorized as either high-risk or low-risk types based on their oncogenic potential (Wiley et al., 2002). High-risk HPV infections significantly contribute to the development of at least 40 different human malignancies, including cervical, anal, penile, and oropharyngeal cancers (Haedicke and Iftner, 2013; Ljubojevic and Skerlev, 2014). Notably, nearly 90% of squamous cell carcinomas of the anus are attributed to HPV, and warty carcinomas of the vulva and penis frequently test positive for the virus (Alemany et al., 2016, 2015; Faber et al., 2017). Cervical cancer, which is almost universally associated with HPV, poses a significant health threat. Data from the Bruni et al. (2023) indicate that an estimated 2.97 billion females aged 15 years and older are at risk of cervical cancer globally. Despite global vaccination initiatives against HPV, approximately 604,000 new cases of cervical cancer are reported each year, along with an annual death toll of around 342,000 from this disease. Consequently, the prevention and management of HPV remain critical challenges in global public health (Bruni et al., 2023). Effective treatment and control of HPV infections are essential for eradicating the virus, thereby preventing associated diseases, improving the quality of life for those affected, and alleviating healthcare burdens. Viral genome-targeting therapy emerges as a potential avenue for the future management of HPV infections. As genetic modification technology rapidly advances, the CRISPR/Cas system has shown considerable promise in treating viral infections. Its ability to selectively target and edit viral genomes for elimination positions it as a highly promising approach for combating HPV. This review will explore the functions and applications of the CRISPR/Cas system as an innovative therapy for HPV. We will demonstrate the prospective efficacy of CRISPR/Cas as a groundbreaking and promising treatment for HPV infections while addressing both the opportunities and challenges associated with this novel approach.
2 Etiology and carcinogenic mechanism of HPV
HPV encompasses a vast family of viruses, which are classified based on genetic variations into hierarchical levels: genus, species, type, variant lineage, and sublineage (Burk et al., 2013; Doorbar et al., 2012). Typically, HPV is categorized into five genera: α, β, γ, μ, and ν, distinguished by their nucleotide sequence homologies and the specific pathogenic processes they initiate. Notably, among the α-genus viruses, there is a solid consensus regarding their role as primary causal factors behind a range of cancers, including those of the cervix, genitalia, external genital regions, and oral cavity. Within this genus, the high-risk α-9 species, with HPV-16 as a prototypical member, is particularly notorious for its oncogenic potential, primarily driving infections that progress to cancerous states.
As an epithelium-specific, non-enveloped virus containing a circular double-stranded DNA genome, human papillomavirus (HPV) exclusively targets humans as its sole reservoir. Within the HPV genomic structure, distinct functional domains are present: (1) the non-coding region, which contains promoters, enhancers, and silencer sequences that play crucial roles in regulating viral DNA replication and transcriptional control; (2) the early gene region, comprising six key genes designated E1 through E7, which governs viral infection, replication, transcription, and translation processes (Chow, 2015; Ghoreshi et al., 2023); (3) the late gene region, consisting of the L1 and L2 genes, which are responsible for synthesizing the structural proteins essential for forming the viral capsid. The central proteins, E1 and E2, actively participate in replicating the viral genome, while L1 and L2 contribute to the assembly of virus particles. Additionally, the auxiliary proteins E4, E5, E6, and E7 orchestrate functions critical for accelerating cell proliferation, evading the immune system, and facilitating the release of new virions (Graham, 2017).
In benign tumors and low-grade precancerous lesions, the HPV genome predominantly exists in an episomal form. In contrast, in malignant tumors and high-grade precancerous lesions, it frequently integrates into the host cell genome, either as single or multiple copies (Woodman et al., 2007). This genomic incorporation primarily occurs following the early genes E6 and E7, which are often located near the E2 hinge domain. Disruption of E2 results in the inactivation of its open reading frame (ORF), leading to the loss of its negative feedback regulation over the transcription of the carcinogenic E6 and E7. This loss results in their aberrant overexpression and subsequent uncontrolled cellular proliferation (Munoz et al., 2003).
E6 and E7 play crucial roles in the processes of cellular immortalization by interacting with key cellular regulators such as p53 and pRb. This interaction disrupts normal cell cycle regulation, apoptosis, and chromosomal stability (Moody and Laimins, 2010). E6 and E7 also impair spindle checkpoint function during mitosis and induce abnormal centrosome numbers, which increases genomic instability and may lead to chromosomal rearrangements and copy number variations (Duensing et al., 2000). Additionally, E6 influences telomerase activity by targeting NFX1–91 for degradation through the E6-AP-mediated ubiquitin-proteasome pathway. This action results in decreased repression of the hTERT promoter and elevated telomerase activity (Xu et al., 2008). E7 further contributes to immune evasion by inactivating interferon regulatory factor 1 (IRF1), allowing the pathogen to evade immunological detection and thereby facilitating the onset and maintenance of a chronic disease state (Park et al., 2000). Furthermore, the integration of HPV into the host genome disrupts the regulatory mechanisms that govern host gene transcription, leading to the loss or inactivation of critical tumor suppressor genes, increased expression of host oncogenes, alterations in host chromosomal structures, and changes in host gene methylation patterns. Collectively, these factors significantly contribute to carcinogenesis (Filho et al., 2017; Hu et al., 2015; Ojesina et al., 2014; Parfenov et al., 2014; Rusan et al., 2015).
3 Current methods of treatment for HPV
Vaccination, as a primary preventive measure, stands out as the most effective long-term strategy to reduce the prevalence of high-risk HPV strains, with the goal of eradicating HPV-associated malignancies over time (Stanley et al., 2012). Currently, three types of prophylactic HPV vaccines have received global approval: the bivalent, quadrivalent, and nonavalent HPV vaccines, all of which utilize HPV virus-like particles (VLPs) as antigens. Despite the availability of these vaccines, their protective efficacy is limited for individuals who have previously been infected with HPV, and the cross-protection provided by type-specific neutralizing antibodies is notably restricted (Clifford et al., 2003; Schiller et al., 2012). Secondary prevention involves routine cervical cancer screening via Pap smears or HPV DNA testing, enabling early detection of precancerous lesions (Perkins et al., 2020).
For HPV positive cancer patients, therapeutic strategies include: surgical excision, LEEP/conization for cervical dysplasia (Wang et al., 2022); radiotherapy/chemotherapy, cisplatin-based regimens for advanced cervical cancer (Small et al., 2017); immunotherapy, PD-1 inhibitors like pembrolizumab for recurrent/metastatic cervical cancer (Allouch et al., 2020). For established HPV infections in patients with precancerous lesions, commonly utilized pharmacological agents include antimitotic compounds, caustic substances, interferon inducers, and polyphenols (Schiffman et al., 2016). Presently, the absence of clinically effective virus-specific therapeutic agents for eradicating HPV is palpable, and ongoing preclinical investigations into nucleic acid-based therapeutics such as RNA interference (RNAi), ribozymes, and antisense RNA have only achieved partial suppression of HPV gene expression, falling short of completely eliminating the virus. Consequently, there is an escalating imperative for the development of more potent and secure HPV precision therapies and the formulation of more efficacious virus-targeted pharmaceuticals (Khairuddin et al., 2014; Kumar et al., 2014; Malecka et al., 2014).
4 CRISPR/Cas system
Genome editing, the precise and targeted modification of genetic material in organisms, represents a monumental advancement in molecular biology. In recent years, the development of a range of DNA nuclease-based gene editing tools has led to significant progress. Beginning with the groundbreaking introduction of zinc-finger nucleases (ZFNs), advancing to the next generation of transcription activator-like effector nucleases (TALENs), and culminating with the clustered regularly interspaced short palindromic repeats/CRISPR-associated protein (CRISPR/Cas) systems, the precision, cost-effectiveness, and breadth of applications for gene editing have expanded dramatically.
Originally conceived as an adaptive immune response mechanism in prokaryotes, specifically bacteria and archaea, the CRISPR/Cas system serves as a critical defense against viral and bacteriophage incursions. The ability of CRISPR/Cas9 to bind and cleave DNA targets in vitro has led to its harnessing as a revolutionary tool for gene editing (Jinek et al., 2012). The CRISPR-Cas system is categorized into two main classes: Class I, which encompasses subtypes I, III, and IV, and Class II, which includes subtypes II, V, and VI (Makarova et al., 2017a, 2017b). Subsequent research by Feng Zhang’s group identified several ribonucleases, including Cpf1 (Cas12a), C2c1 (Cas12b), C2c2 (Cas13a), and C2c3 (Cas13c), and engineered mutant variants of Cas9 from Staphylococcus aureus (SaCas9) and Streptococcus pyogenes (SpCas9) that demonstrate enhanced precision in DNA targeting (Abudayyeh et al., 2017, 2016; Ran et al., 2015; Strecker et al., 2019; Zetsche et al., 2015).
Currently, the CRISPR/Cas system stands out as the predominantly employed instrument for gene editing. Its mechanism involves the recruitment of the Cas9 protein to specific genomic DNA targets, guided by a single-guide RNA (sgRNA), which results in a double-strand break (DSB) at the targeted site. The induction of this DSB activates the cell’s intrinsic DNA repair pathways, primarily involving homologous recombination (HR) and non-homologous end joining (NHEJ). The latter represents a precise repair mechanism that demands a homologous donor DNA sequence as a template for accurate gene correction or integration (Symington and Gautier, 2011). By utilizing CRISPR/Cas technology, scientists can edit DNA sequences with remarkable precision, facilitating microbial genome editing, optimizing plant and animal breeds, constructing animal models, and treating genetic disorders (Hsu et al., 2014; Ran, 2017).
5 CRISPR/Cas-based therapy for HPV
The advent of CRISPR/Cas genome editing has revolutionized the landscape of antiviral therapeutic strategies, positioning itself as a potent weapon in the battle against viral infections, marking substantial progress in addressing HIV, HBV, and HSV (Cisneros et al., 2022; OhAinle et al., 2018; Sakuma et al., 2016; Yin et al., 2021; Zhang et al., 2021; Zhen et al., 2015). This innovative antiviral strategy has heralded new vistas for the treatment of HPV. Contemporary pharmacotherapies primarily mitigate further HPV infections in hosts but fail to eradicate the virus already established in patients. Even after therapeutic interventions, the virus may persist in a quiescent or latent state, ready for reactivation. A critical factor driving HPV-induced carcinogenesis is the integration of viral DNA into the host cell’s genome, a process that proves challenging to reverse with conventional antiviral agents once integration has occurred.
Gene editing technology, however, can directly target and cut viral DNA, thereby precisely eliminating the virus. Presently, CRISPR/Cas applications for HPV predominantly focus on excising the E7 and E6 oncogenes. Furukawa et al. have edited HPV-specific cytotoxic T lymphocytes (HPV-rejT) using CRISPR technology, enabling these T cells to effectively attack cervical cancer cells without triggering immune system rejection in patients. This strategy not only eludes immune surveillance by CD8+ T lymphocytes and NK cells but also, by selecting for HLA-A24, ensures compatibility with a broad patient demographic (Furukawa et al., 2023). Gao et al. have crafted an HPV16 E7-specific CRISPR/Cas tool and evaluated its editing efficacy relative to ZFN and TALEN technologies. In their investigation utilizing a K14-HPV16 transgenic mouse model, characterized by HPV-driven spontaneous cervical cancer development, they discovered that effectively eliminating the E7 gene led to the restored expression of CDK2, E2F1, and RB, thereby triggering apoptotic pathways in tumor cells and effectively reversing the progression of cervical cancer (Gao et al., 2022). An HPV16 E7-specific sgRNA-guided CRISPR/Cas system could precisely disrupt HPV16-E7 DNA at targeted loci, inducing apoptosis in HPV-positive SiHa and Caski cells. The precise disruption of the E7 gene led to a substantial reduction in E7 oncoprotein expression, concomitantly stimulating the augmentation of pRb tumor suppressor protein levels (Hu et al., 2014).
Moreover, several investigations have developed CRISPR/Cas tools that utilize guide RNAs (gRNAs) to simultaneously target both the E6 and E7 genes (Figure 1). This dual-targeting strategy likely arises from the understanding that addressing a singular genomic locus might permit the viral genome to repair itself, potentially leading to mutations proximal to the cleavage site. By concurrently targeting both genes, these tools aim to comprehensively dismantle the HPV genome, thereby facilitating complete viral eradication. Zhen et al. engineered a CRISPR/Cas9-based editing system designed to simultaneously address the E7 and E6 genes and introduced it into SiHa cells. The findings revealed that the concurrent editing of the E6 and E7 genes, along with their respective promoters, via the CRISPR/Cas9 system, precipitated the accumulation of p53 and p21 proteins, significantly inhibiting the propagation of cervical carcinoma cell cultures under laboratory conditions. Following these in vitro results, the researchers conducted in vivo experiments by subcutaneously implanting the edited tumor cells into nude mice to establish an animal model of subcutaneous xenografts. The investigation noted a significant inhibition of neoplasm development in murine models engrafted with tumor cells that had previously undergone CRISPR/Cas9-mediated modification targeting the E6 and E7 genes (Zhen et al., 2014). Kennedy et al. developed a CRISPR/Cas editing tool capable of targeting and disabling the E6 and E7 genes within HeLa cells, inducing cellular cycle stasis and reinstating the expression profiles of p53 and pRb (Kennedy et al., 2014). Table 1 summarizes the critical studies utilizing CRISPR/Cas9 technology to target specific gene sites in HPV infection research.
Figure 1. Mechanism of CRISPR/Cas targeted HPV oncogenes editing in Infected cells. Virus-specific gRNAs were designed to guide Cas in cleaving the HPV genome, disrupting the carcinogenic pathways. Highlighted pathways include the degradation of tumor suppressor p53 and pRb mediated by E6 and E7, respectively. The inactivation of pRb protein leads to the release of E2F transcription factors, resulting in cell cycle dysregulation, and E6 could activate hTERT activity. Created with BioGDP.com (Jiang et al., 2025).
Table 1. Summary of selected studies of CRISPR/Cas9-based antiviral studies on targeting HPV.
6 CRISPR/Cas delivery for HPV therapy
A significant challenge in deploying CRISPR/Cas editing technologies for therapeutic interventions in human diseases is the absence of effective delivery mechanisms that can precisely target specific cells and organs in vivo. Dr. Jennifer Doudna, a Nobel Laureate, has stated that, delivery remains perhaps the most significant bottlenecks in somatic cell gene therapy using gene editing. Currently, CRISPR gene editing tools are primarily delivered into cells through three principal modalities: plasmid DNA (pDNA), mRNA, and ribonucleoprotein complexes (RNP), utilizing either viral or non-viral vectors to facilitate targeted gene modification (Lin et al., 2022). Early research efforts primarily focused on utilizing plasmid vectors as the means to deliver the CRISPR/Cas system into targeted cells. This approach ensures stable expression and notable translational efficiency; however, its prolonged presence within cells poses potential risks, such as genomic integration, elicitation of immune response activation, and unintended off-target effects. Additionally, delivering the Cas gene via plasmids requires transcriptional and translational processes to achieve gene editing. In contrast, administering the CRISPR system in the form of mRNA or RNPs offers more immediate efficacy and greater controllability (Lin et al., 2022; Yan et al., 2021) (Figure 2).
Figure 2. Overview of various CRISPR/Cas carrieres in HPV genome editing therapy, include: AAV carriers, AdV carriers, liposome-based nanocarriers, polymer-based nanocarriers, and peptide-based nanocarriers. Created with BioGDP.com (Jiang et al., 2025).
6.1 Viral carriers
Over eons, viruses have refined their capabilities through natural evolution, enabling them to efficiently infiltrate diverse human tissue types and cellular environments, and viral particles can protect the encapsulated payload from degradation within the body. Upon entry into the host cell, these recombinant viruses facilitate the efficient expression of exogenous genes. Upon entry into the host cell, these recombinant viruses facilitate the efficient expression of exogenous genes. To date, viral vectors remain the preeminent method for delivering CRISPR/Cas systems to mammalian cells in vivo, significantly enhancing the precision and efficiency of gene editing. Frequently utilized viral carriers for the conveyance of CRISPR/Cas include adenovirus (AdV), adeno-associated virus (AAV), retrovirus, and lentivirus (Miron-Barroso et al., 2021).
6.1.1 AAV carriers
Presently, more than fifty percent of gene therapy vehicles applied in clinical investigations are of viral origin, among which AAV stands out as the most prevalently employed. Extensive foundational and clinical research has demonstrated that AAV has high safety and delivery efficiency, making it broadly applied in the field of gene therapy (Lau and Suh, 2017; Wang et al., 2020). AAV is a non-pathogenic parvovirus found in various vertebrates, including humans and non-human primates (NHP), although wild-type AAV may integrate into specific genomic sites, recombinant AAV (rAAV) vectors predominantly persist as episomes in host cells, resulting in a significantly reduced risk of insertional mutagenesis compared to integrating viral vectors (Naso et al., 2017). The diversity of AAV serotypes, such as AAV2 and AAV5, facilitates cell-specific targeting, thereby enabling precision therapy. Crucially, AAV elicits minimal immune response in hosts, an attribute essential for sustained therapeutic interventions. Importantly, cells transduced by AAV maintain expression of therapeutic genes without precipitating cellular demise or uncontrolled proliferation, affirming its role as a stable and secure therapeutic vector.
Noroozi et al. employed AAV to deliver CRISPR/Cas9, achieving specific cleavage of the HPV E6 gene in HeLa cells, which reversed malignant phenotypes and augmented p53 protein levels (Noroozi et al., 2022). Kennedy et al. demonstrated that a lentivirus vector encoding HPV18 E6 and E7 gene-specific CRISPR/Cas9 triggered programmed cell death in cervical cancer cell (Kennedy et al., 2014). In similar research, a Lentivirus CRISPR/Cas9 system directed against the HPV18 E6 or E7 genes efficiently repressed the expression of these carcinogenic factors in HeLa cells, inducing a halt in the cell cycle and diminished cell multiplication (Wang et al., 2018). Yoshiba et al. combined a cervical cancer cell line expressing recombinant Cas9 with an AAV-sgE6 vector and observed in vitro that E6 genomic sequences were mutated, expression diminished, p53 expression increased, apoptosis was enhanced, and cellular proliferation was restrained in a concentration-related fashion. Moreover, in vivo experiments demonstrated that post-injection of AAV-sgE6, the growth of subcutaneous tumors in tumor-bearing mice was significantly curtailed without observable adverse effects (Yoshiba et al., 2019). Noroozi’s findings indicated the efficacy of utilizing AAV vector for CRISPR/Cas9 delivery in targeting the HPV-E6 gene within HeLa cells, thereby enhancing tumor cell apoptosis and elevating p53 expression levels (Noroozi et al., 2022).
6.1.2 AdV carriers
AdV is characterized by its non-enveloped structure, featuring an icosahedral nucleocapsid and a double-stranded DNA genome that spans approximately 26–45 kbs. AdVs, with a diameter of 90–100 nm, can accommodate up to 38 kbs of exogenous DNA, a capacity significantly greater than that of AAV. Distinct from AAV, the AdV genome remains episomal within the host cell, not integrate into the host genome. This transient expression is advantageous for CRISPR/Cas delivery, as it minimizes the potential for off-target genetic alterations.
Despite these attributes, adenoviral vectors exhibit limited tropism toward tissues commonly affected by HPV, which constrains their utility in treating HPV-related conditions (Alonso-Padilla et al., 2016). Eric et al. engineered a CRISPR/Cas9-HCAdV system that enables sustained or inducible expression of Cas9/gRNA targeting the HPV18 E6 gene, successfully inducing double-strand breaks (DSBs) in HeLa cells (Ehrke-Schulz et al., 2017). They effectively delivered the HPV type-specific CRISPR-HCAdV to not just HeLa, SiHa, and CaSki cells but also to HPV-negative cancer cells. Following delivery, CRISPR/Cas9 expression resulted in decreased viability in HPV-positive cervical cancer cell lines, while leaving HPV-negative cells unharmed (Ehrke-Schulz et al., 2020).
However, the relatively high immunogenicity of AdVs poses a significant challenge, particularly in vivo, where it can provoke allergic reactions. From the second injection onward, the efficacy of the delivery may decrease due to immune responses. Consequently, while AdVs are advantageous for certain applications due to their large payload capacity and transient expression characteristics, their clinical application is complicated by potential immunogenic responses, necessitating careful management in therapeutic settings.
6.2 Nanocarriers
Despite the notable transfection efficiency exhibited by viral vectors, their clinical adoption is impeded by immune-mediated rejection and limitations in cargo capacity. The presence of pre-existing immunity against wild-type viral vectors in certain populations, coupled with the restricted packaging capabilities of AAVs, has ignited a wave of research focused on the engineering of non-viral delivery systems, aiming to attain substantial progress in this domain (Li et al., 2018; Van Hees et al., 2022). Nanocarriers engineered from an array of natural or synthetic polymers, lipid constituents, proteinaceous macromolecules, and inorganic entities, are stratified into four principal categories: liposomal carriers, polymeric carriers, inorganic carriers, and biologically-derived carriers. Concomitant with progressive innovations in material science and manufacturing techniques, those nano-carriers, which are cost-effective, straightforward to synthesize, and amenable to purification, have been distinguished by their elevated transfection efficacy and minimal immunogenicity. Consequently, they have ascended as preeminent vectors for the administration of CRISPR/Cas genome-editing apparatuses, specifically targeting the HPV genome.
6.2.1 Liposome-based nanocarriers
Liposomes, composed of cholesterol and non-toxic phospholipids, create robust spherical vesicles capable of merging with cell membranes or being engulfed through endocytosis, thus enabling the efficient intracellular delivery of CRISPR elements. Owing to their multifunctional architecture, facile surface modifiability, biodegradability, and biocompatibility, liposomes are heralded as a formidable system for gene therapy delivery (Guimaraes et al., 2021).
Commercial liposomal carriers, such as Lipofectamine™, TurboFect™, and Stemfect™, have demonstrated efficacy in transporting the CRISPR/Cas9 system. The modification with polyethylene glycol (PEG) enhances the in vivo stability and prolongs the circulation time of liposomes (Milla et al., 2012). Jubair et al. utilized PEGylated liposomes for the systemic administration of CRISPR/Cas9 targeting the HPV16/18 E6/E7 genes in vivo, achieving tumor eradication and complete survival in treated models. This strategy addresses several challenges associated with the systemic delivery of CRISPR/Cas9, including serum stability, cytotoxicity, and cellular uptake of the therapeutic payload (Jubair et al., 2019). Positively charged liposomes can form conjugates with negatively charged CRISPR components through electrostatic attraction, effectively encapsulating and delivering Cas proteins and gRNA into target cells (Sousa et al., 2022). Zhen et al. developed long-circulating, pH-sensitive cationic liposomal complexes that exhibit high cell-targeting and gene knockout efficiencies, selectively delivering encapsulated HPV16 E6/E7 CRISPR/Cas9 complexes to tumor tissues and significantly suppressing tumor growth without notable toxicity in vivo (Zhen et al., 2020a). Subsequent investigations by their group revealed that liposomes loaded with CRISPR/Cas9 effectively knock out HPV16 E6/E7, initiating autophagy and stimulating immune responses associated with cellular death through the release of danger-associated molecular patterns. This process promotes the accumulation of CD8+ T lymphocytes within neoplastic tissues and enhances the production of pro-inflammatory mediators, including IFN-γ, TNF-α, and IL-12, while reducing myeloid-derived suppressor cells (MDSCs) and regulatory T cells (Tregs) (Zhen et al., 2023). Li et al. developed a CRISPR/Cas9 assembly encapsulated within the hydrophobic bilayer of amphiphilic cationic liposomes composed of DOTAP. This strategy precisely targeted and removed approximately 563 base pairs from the HPV18 E6 and E7 oncogenes, successfully eradicating the viral DNA sequences embedded within the host’s genomic framework. Consequently, this intervention restored the p53 and pRB tumor-suppressive signaling pathways, leading to the induction of apoptotic cell death in cervical cancer cells (Li et al., 2021).
6.2.2 Polymer-based nanocarriers
Organic polymers possess the capability to form intricate molecular assemblies with the CRISPR/Cas complex, which can be functionalized to package various components to enhance cellular or tissue specificity, intracellular uptake, and endosomal escape (Dilliard and Siegwart, 2023). Compared to liposomes, polymer carriers present a broader spectrum of chemical variability and functional capabilities, offering enhanced versatility in structural customization, and can directly interact with CRISPR/Cas complexes to improve their delivery characteristics (Duan et al., 2021).
Polyethyleneimine (PEI) is a hydrophilic cationic polymer available in both linear and branched configurations with variable molecular weights. It is highly effective at complexing and condensing negatively charged DNA through electrostatic interactions and possesses inherent pH buffering capabilities that facilitate endosomal escape. Ling et al. engineered pH-responsive nanoparticles (NPs) by combining acetylated cyclo-oligosaccharides (ACD) with low molecular weight PEI to simultaneously transport Cas9 mRNA and gRNAs aimed at the E7 and E6 oncogenes. Their findings revealed that, in vitro, ACD-stabilized NPs demonstrated substantial transfection efficacy alongside minimal cytotoxic effects in HeLa cervical cancer cells. Furthermore, they successfully manipulated specific genetic loci with minimal off-target effects was achieved in HeLa cells. In HeLa xenograft mice, treatment with E6/ACD NPs or E7/ACD NPs effectively edited target cancer genes and demonstrated significant antitumor activity (Ling et al., 2023).
Xiong et al. developed NPs comprised of the positively charged polymer PBAE546 in complex with a CRISPR/Cas9 plasmid targeting HPV16 E7. These NPs significantly inhibited the proliferation of xenografted cervical carcinoma cell lines in nude mouse models and restored the normal characteristics of cervical epithelial tissue in HPV16 transgenic mice, demonstrating low toxicity and high biosafety (Xiong et al., 2021).
Lao et al. designed self-assembling micelles composed of PPO-NMe3 in conjunction with the amphiphilic polymer Pluronic F127 for the delivery of CRISPR/Cas9 plasmids targeting HPV18 E7. These highly charged polycationic micelles effectively protected the plasmid from degradation, resulting in enhanced transgene expression. The Cas9-mediated knockout of E7 significantly reduced the oncogenic activity induced by HPV in both in vitro and in vivo settings (Lao et al., 2018).
6.2.3 Peptide-based nanocarriers
Numerous studies have demonstrated that peptide complexes can effectively guide CRISPR/Cas tools through the cellular membranes and into the nucleus to achieve gene editing (Zhang et al., 2024). As an nascent drug delivery system, peptides exhibit high biological activity, their side chains are versatile scaffolds for various active functional groups such as carboxyl, hydroxyl, amino, and thiol, enabling a spectrum of chemical modifications to amplify the efficacy of drug delivery systems (Dissanayake et al., 2017). Investigations into peptide-mediated transport of macromolecules into cells have predominantly centered on CPPs, exemplified by the TAT sequence from HIV-1 and the HA2 segment from the influenza virus, an archetypal amphipathic peptide. HA2 is recognized for its role in mediating the disturbance of endosomal membrane integrity and the release of their cargoes into the cytoplasm through a pH-sensitive conformational shift (Noguchi et al., 2010).
To improve CRISPR/Cas delivery in cervical cancer treatment, Khairkhah et al. utilized the LL-37 antimicrobial peptide (AMP) as CPPs carrier. Their studies demonstrated that the tailored CRISPR/Cas9 system adeptly and selectively suppressed the expression of HPV16 E7, E6, and E5 genes both in vitro and within living organisms, consequently diminishing tumor proliferation in the C57BL/6 mouse model (Khairkhah et al., 2023).
However, the use of non-viral vectors for CRISPR/Cas delivery still faces two significant challenges. First, compared to viral vectors, the delivery efficiency of non-viral vectors remains lower. This is primarily due to the need for non-viral delivery of CRISPR/Cas needs to overcome multiple barriers, including both extracellular and intracellular obstacles (Mitchell et al., 2021; Nelson and Gersbach, 2016). Extracellular challenges include unintended interactions with serum proteins, phagocytosis by immune cells, and the impermeable junctions of vascular epithelial cells, which obstruct NPs penetration and targeting. Intracellularly, barriers consist of the degradation of NPs within endosomes and lysosomes, the complexities involved in releasing the CRISPR/Cas components into the cytoplasm, and the subsequent requirement for these components to enter the nucleus to function effectively. Second, achieving precise genome editing through the targeted delivery of the CRISPR/Cas system using non-viral vectors remains a formidable challenge (Tasset et al., 2022).
7 Combination therapy strategies
Recent progress in the field of immunotherapy, particularly with ICIs, have been integrated into clinical guidelines for the management of cervical cancer in the context of viral infections. However, the efficacy of ICIs as monotherapy for recurrent or metastatic cervical cancer remains suboptimal, with low response rates (Awadasseid et al., 2023). Consequently, researches has explored combining CRISPR/Cas therapy targeting HPV E6/E7 with ICIs to enhance therapeutic outcomes through synergistic effects. One promising approach demonstrated by Zhen et al. involved the use of liposomes to deliver gRNA targeting HPV16 E6/E7, which not only initiated anti-tumor immune responses but also augmented the effectiveness of anti-PD-1 treatment in a hu‐PBL‐SCID mice model, CRISPR/Cas9 targeting of HPV E6/E7 reactivates p53/pRb tumor suppression, triggering apoptotic death and blocking cancer progression, HPV knockout triggers autophagy and releases DAMPs, activating dendritic cells and CD8+ T cells, reversing immunosuppressive, and enhanced antitumor immunity via increased PD-1 blockade efficacy, promoting immune memory and sustained tumor regression (Zhen et al., 2023). This tactic capitalizes on the elevated expression of PD-1 on immune cells, a critical pathway through which tumors escape immune surveillance. By employing CRISPR/Cas tools to knock down or knock out PD-1, this approach effectively prevents tumor immune escape. In humanized SCID mice xenografted with SiHa cells, the combined treatment using gRNA-HPV16 E6/E7 and gRNA-PD-1 substantially boosted survival rates and curbed tumor progression. Moreover, this combination therapy augmented the infiltration of dendritic cells and CD4+ and CD8+ T lymphocytes, concurrently diminishing the transcription of immunosuppressive genes, thereby transforming the tumor microenvironment from one characterized by immunosuppression to an activated state (Zhen et al., 2020b). These findings underscore the potential of combining targeted HPV CRISPR/Cas therapy with ICIs in clinical settings for treating cervical cancer.
For individuals afflicted with recurrent or disseminated cervical cancer, where curative surgery is not feasible, chemotherapy remains a primary treatment option. However, the efficacy of chemotherapeutic monotherapy is often limited, resulting in low response rates and short remission periods. The evolution of CRISPR/Cas technology heralds novel prospects for augmenting the therapy of HPV-related tumors, particularly when used in combination with chemotherapy. For instance, in a nude mouse model xenografted with HeLa cells, delivering a CRISPR/Cas9 engineered plasmid directed at HPV18 E6/E7 in conjunction with DOC dramatically enhanced the cytotoxicity toward cervical cancer cells by overcoming drug resistance via p53/pRB-dependent sensitization, leading to an increased apoptotic response, which suggests an improved management of resistance, simultaneous knockout of HPV-18 E6/E7 oncogenes disrupts viral oncoprotein expression, reversing chemoresistance, cationic liposomes ensure precise tumor localization, while AIE fluorophores enable real-time tracking, minimizing off-target effects (Li et al., 2021). Further, Zhen et al. illustrated that harnessing HPV16 E6/E7 with CRISPR/Cas9 could potently complement cisplatin in combating HPV16-positive cervical cancer within a xenograft framework, thereby enhancing patient outlook (Zhen et al., 2016).
8 Conclusion and future perspective
As a revolutionary gene editing tool, CRISPR offers novel perspectives and promising avenues for the treatment of HPV. By precisely targeting and cleaving key HPV genes such as E6 and E7, CRISPR not only has the potential to eradicate the virus but also to prevent the cellular carcinogenesis initiated by HPV, thereby reducing the prevalence of HPV-associated abnormalities and cancers.
Currently, research on CRISPR/Cas tools for HPV treatment remains in the laboratory stage, with only one clinical trial assessing the security and effectiveness of CRISPR/Cas9-HPV E6/E7 and TALEN-HPV E6/E7 in managing persistent HPV infections and HPV-related CIN I during Phase I clinical stage (NCT03057912) (Hu et al., 2014). CRISPR/Cas gene editing confronts critical translational hurdles, notably off-target editing events, delivery constraints, and immunogenicity. Off-target mutations, arising from Cas nuclease promiscuity or partial homology, pose significant genotoxicity risks. Mitigation leverages high-fidelity engineered nucleases (e.g., HiFi Cas9, Cas12a variants), rational design of gRNA, and comprehensive off-target profiling via CIRCLE-seq or GUIDE-seq. Delivery bottlenecks stem from biological barriers, macromolecular complex size, and nuclease stability. While viral vectors offer efficiency, they face cargo limitations and insertional mutagenesis concerns; non-viral strategies (lipid nanoparticles, polymer-based carriers, electroporation) grapple with potency and cell-type specificity. Targeted delivery necessitates advanced ligand engineering and tissue-specific formulations. Immunogenicity presents dual challenges: pre-existing humoral/cellular immunity to microbial Cas orthologs and vector-triggered immune responses, compromising efficacy and safety. Countermeasures include exploiting rare orthologs (e.g., Cas12f), structure-guided deimmunization of Cas proteins via epitope deletion/masking, and transient mRNA/protein delivery to minimize antigen persistence. Overcoming these challenges through precision editors (base/prime editing), next-generation delivery platforms, and immunomodulatory strategies is paramount for realizing CRISPR’s therapeutic promise.
Despite encountering obstacles such as suboptimal editing efficiency, notable immunogenicity, and the absence of a reliable and efficacious delivery system, the prospective impact of CRISPR/Cas technology in combating HPV remains revolutionary. Future research endeavors should be directed towards refining the design of the CRISPR/Cas system to enhance both its safety and efficacy. Additionally, there is a critical need to explore synergistic integrations with other therapeutic modalities, including vaccines, immunotherapies, and antiviral drugs, to forge a more holistic and potent treatment strategy.
Author contributions
WL: Conceptualization, Writing – original draft. YJ: Conceptualization, Writing – original draft. CW: Conceptualization, Writing – original draft. MW: Writing – original draft. WZ: Writing – review & editing. HR: Conceptualization, Investigation, Visualization, Writing – review & editing. SX: Writing – review & editing. JQ: Investigation, Validation, Visualization, Writing – review & editing. PL: Investigation, Validation, Visualization, Writing – review & editing. LJ: Conceptualization, Formal Analysis, Validation, Writing – review & editing. DZ: Conceptualization, Formal Analysis, Validation, Writing – review & editing.
Funding
The author(s) declare that financial support was received for the research and/or publication of this article. This investigation received financial backing from the Science and Technology Planning Project of Jilin Province (No.20210101209JC).
Acknowledgments
We are deeply grateful to the researchers who have shared their findings through published papers. We extend our heartfelt appreciation to the academic editors and reviewers whose insightful comments greatly enriched the quality of this publication. Thanks to BioGDP for generating the figures.
Conflict of interest
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Generative AI statement
The author(s) declare that no Generative AI was used in the creation of this manuscript.
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Keywords: HPV, CRISPR/Cas, gene editing, viral genome targeting therapy, HPV-associated diseases
Citation: Liu W, Jiang Y, Wang C, Wang M, Zhang W, Ren H, Xu S, Qin J, Liu P, Jin L and Zhao D (2025) Towards the elimination of infectious HPV: exploiting CRISPR/Cas innovations. Front. Cell. Infect. Microbiol. 15:1627668. doi: 10.3389/fcimb.2025.1627668
Received: 13 May 2025; Accepted: 15 July 2025;
Published: 04 August 2025.
Edited by:
Magdalena Weidner-Glunde, Intercollegiate Faculty of Biotechnology of University of Gdańsk and Medical University of Gdańsk, PolandReviewed by:
Michael M Nevels, University of St Andrews, United KingdomYanbo Liu, Beihua University, China
Copyright © 2025 Liu, Jiang, Wang, Wang, Zhang, Ren, Xu, Qin, Liu, Jin and Zhao. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
*Correspondence: Lianhai Jin, bGlhbmhhaWVkdUAxNjMuY29t; Donghai Zhao, emRoNzUxMDI3QDEyNi5jb20=
†These authors have contributed equally to this work