1. Introduction
Cells face constant exposure to multiple DNA damage sources, both endogenous (e.g., oxidation, alkylation, hydrolysis, mismatch of DNA bases) and exogenous (genotoxic chemicals, UV light, ionizing radiation, etc.) [
1,
2,
3,
4,
5]. To neutralize these threats and ensure genomic stability, cells have developed several mechanisms, collectively called the DNA damage response (DDR) network [
6]. The DDR system includes damage sensors, transducer kinases, and effectors to maintain genomic integrity. Interestingly, recent data have shown that the deregulated DDR network is capable of activating the host immune system [
7]. These results potentially provide a novel strategy for enhancing the efficacy of immunotherapy.
On the other hand, deregulated DDR pathways trigger mutagenesis and genomic instability, thus getting implicated in the onset and progression of cancer. Cancer cells divide rapidly and continuously due to a breakdown of the mechanisms regulating the cell cycle. The increased proliferation rate and the DNA repair defects in cancer cells make these cells more vulnerable to specific DDR inhibition [
8]. Hence, DDR inhibitors, a class of drugs that can modify the DDR network, have recently gained great attention in the research of cancer treatment. The known DDR inhibitors include drugs that inhibit different DNA repair pathways or factors, such as the polyADP-ribose polymerase (PARP), the ataxia telangiectasia mutated kinase (ATM), the ataxia telangiectasia and Rad3 related kinase (ATR), the Checkpoint kinases 1 and 2 (CHK1/2), the Cyclin-dependent kinases 4 and 6, (DK4/6), the cell-cycle checkpoint kinase WEE1, and the DNA-dependent protein kinase (DNA-PK)[
8].
Particularly, ATM and ATR kinases have a critical role in the activation of the DDR network. As for ATR, following the formation of the stable replication protein A (RPA)-single-stranded DNA (ssDNA) complex at sites of DNA damage, the ATR-interacting protein (ATRIP) will bind directly to RPA, resulting in the localization of the ATR kinase to these sites [
9]. Next, to give more time for the DNA repair mechanism to proceed, the ATR-CHK1 signaling pathway causes cell-cycle arrest at G2-M phase. As for ATM, this kinase is activated via the MRN (meiotic recombination protein 11 - MRE11, Nijmegen breakage syndrome protein 1 - NBS1) complex, a DNA double-strand breaks (DSBs) sensor [
10]. Then, ATM phosphorylates the H2A histone family member X (H2AX) at S139 (γH2AX), and induces the CHK2 kinase, resulting in the activation of the G1-S and intra-S-phase. Based on the above, ATR and ATM kinases may be promising molecular targets in the treatment of cancer. Currently, numerous small molecule ATM/ATR inhibitors have been discovered and are undergoing preclinical and clinical evaluation.
Herein, we present a review of the current literature summarizing the role of ATR inhibition in the modification of the DDR network, the immune system and their interplay. The latest advances of ATR inhibitors in preclinical and clinical states are also elucidated.
2. The ATR Pathway in the DNA Damage Response Network
The DNA damage response network is activated following the detection of DNA damage by specific sensors [
6]. The next step is the activation of a signal transduction cascade which leads to the induction of genome protection mechanisms, such as DNA repair pathways, cell cycle checkpoints, or the initiation of apoptosis. Deregulated DDR may also result in mutagenesis and genomic instability. Since DDR is an important cellular network of molecular pathways that regulates the cell's decision to repair the DNA damage or to undergo apoptosis, it is implicated in both the onset and progression of a disease, as well as in the outcome of therapeutic treatment.
There are several DNA repair mechanisms active throughout the cell cycle, including the Fanconi Anemia (FA) pathway, which is implicated in the repair of interstrand crosslinks (ICLs), the Nucleotide Excision Repair (NER), which removes adducts that disrupt the DNA double-helix, the Base Excision Repair (BER), coping with alkylated, oxidized and deaminated bases, the Mismatch Repair (MMR) pathway that resolves mismatched bases that may occur during DNA replication, the homologous recombination (HR) repair and the non-homologous DNA end joining (NHEJ), two major subpathways for the repair of DSB, the most lethal type of DNA lesion [
11].
It is generally accepted that in cells with dysfunctional DDR, such as cancer cells, DNA integrity is often compromised. During the S phase, the replication fork is usually stalled by DNA lesions and if these remain unresolved, the replication machinery eventually collapses [
12]. This condition is referred to as “replication stress” and is a common characteristic of tumor cells due to chronic proliferation, being also the main cause of genomic instability in cancer. Nonetheless, it may also be noticed in normal cells, on account of oxidative stress or other endogenous damage [
12]. DDR also needs to modulate cell cycle progression, as cell cycle arrest is required for the resolution of DNA lesions. Two major kinases appear to be the key players organizing the response right after DNA damage recognition, ATM and ATR (
Figure 1)[
13].
ATM is mostly activated in response to DSBs during all phases of cell cycle [
6,
14], while ATR is involved in the recognition of single-strand breaks (SSBs), occurring as a response to numerous mechanisms (e.g., during replication fork stalling or as NER and DSBs repair intermediates) [
13,
15,
16,
17]. The broad involvement of ATR in various processes (replication stress response, SSBs and DSBs repair, interstrand crosslink repair, meiosis) is highlighted by that ATR, and not ATM, is indispensable for cell survival [
18,
19]. Particularly, ATR is an essential protein with scarce loss-of-function mutations in cancer [
20], while it has been observed that impaired ATR function in mouse models leads to tumorigenesis resistance [
21].
Of note, previous studies have shown crosstalk between the ATR and the ATM pathways [
22,
23]. As far as DSBs repair is concerned, ATM-dependent activation of ATR has been shown to occur [
24,
25]. DSBs are primarily detected by the MRN complex that is vital for the activation of ATM [
26,
27,
28,
29,
30]. During the DSBs repair that is mediated by ATM signaling, ssDNA fragments are often accumulated as a result of the resection of DSBs by exo- and endo-nucleases [
24]. These ssDNA fragments stimulate the ATR pathway, forming the ATR-ATM interplay during DSBs repair [
23].
ATR pathway initiates with the RPA protein recognizing and coating ssDNA, followed by the binding of ATR-interacting protein (ATRIP) and the assembly of ATR-ATRIP complex at the DNA damage sites. However, this is not sufficient for the activation of ATR [
31]. Several additional regulatory proteins, including the Rad17 complex, the Rad9–Rad1–Hus1 (9-1-1) complex, and the 9-1-1 interacting nuclear orphan (RHINO), need to be implicated [
23,
32,
33] in order to recruit the DNA topoisomerase 2-binding protein 1 (TOPBP1) that finally stimulates the kinase activity of ATR [
19,
23,
33]. Consequently, with the aid of mediators such as claspin [
34], ATR phosphorylates the downstream Checkpoint Kinase 1 (CHK1). This pathway can result in cell cycle arrest either in the intra-S-phase or in the G2/M phase [
12,
13], as CHK1 is responsible for the phosphorylation of multiple substrates including phosphatases CDC25A, CDC25B and CDC25C [
19]. This results in their inhibition, preventing them from keeping active the kinases CDK2 and CDK1, thus blocking cell cycle progression [
35,
36].
3. The ATR Pathway and the Interplay between the DDR Network and the Immune System
The Immune System and the DDR network are important mechanisms that are implicated in the survival of the living organisms. Interestingly, a growing number of data have shown that these two systems play a crucial role in the onset and progression of cancer, as well as in the outcome of anticancer therapy [
37]. Traditionally, conventional chemotherapy has been considered immunosuppressive and several chemotherapeutics are used to treat autoimmune conditions. On the other hand, accumulating data suggest that DNA damaging agents can promote immunogenicity in a variety of ways, some of which have the potential to be exploited in relation to immunotherapy. Several mechanisms are implicated in the DDR-mediated activation of the immune system, including the following:
The induction of immunogenic cell death, i.e., cell death which elicits an immune response [
38]. Not all modes of cell death induce such a response which requires, in addition to neoantigen exposure, the presence of additional danger signals [
39]. Such signals are provided by damage-associated molecular patterns (DAMPs), i.e., molecules released from dying tumor cells that stimulate the recruitment of antigen-presenting cells to the site, where they process and present tumor neoantigens, thereby priming an adaptive immune response. DAMPs released during chemotherapy-induced immunogenic cell death include, among others, DNA release in the cytoplasm where it leads to activation of stimulator-of-interferon genes (STING) and induction of type I interferon (IFN) and pro-inflammatory cytokines [
40].
The increase in antigen presentation through the upregulation of MHC-1 (major histocompatibility complex type 1) expression on tumor cells and promotion of dendritic cell maturation, priming them for an adaptive immune response [
41].
Changes in the cytokine milieu within the tumor microenvironment through the release of proinflammatory cytokines such as NF-κB and IFN-α [
42], which has a bystander effect on neighboring cells that results in an immunogenic tumor microenvironment [
43].
Downregulation of myeloid-derived suppressor cells (MDSC) and regulatory T-cells (Tregs), which play a role in dampening the host immune response [
44,
45].
Modification of the expression of the immune checkpoint factors PD-1/PD-L1. Some studies have reported a downregulation of PD-L1 expression following genotoxic chemotherapy [
46] or a redistribution of PD-L1 from the tumor cell surface to nuclear membrane [
47].
Increase of the tumor neoantigen burden. There are indications that genotoxic drugs may enhance tumor immunogenicity by causing, thanks to their mutagenicity, an increase of tumor neoantigens, which appear to play a critical role in the effectiveness of immune checkpoint blockade immunotherapy [
48,
49,
50].
Interestingly, previous studies have demonstrated that a shift in the balance between DNA damage and repair causes the accumulation of cytosolic DNA that can act as potent immune-stimulator via the induction of the cGAS/STING pathway and the subsequent activation of the type-I interferon (IFN) signaling pathway [
51,
52,
53]. Other studies have also shown that the progression of the cell cycle through mitosis in the presence of DNA DSBs results in the generation of micronuclei and the activation of the immune system [
54,
55]. Foreign DNA detection is a crucial step in the induction of immunity in many organisms. In mammalian cells, activation of the immune responses is contributed mainly by the cyclic GMP-AMP synthase (cGAS) –STING pathway, which plays an important role for coupling the detection of the DNA to the activation of the innate immune defence mechanisms [
56]. In this pathway, the binding of cGAS to dsDNA induces its catalytic activity and results in the production of 2′,3′-cyclic GMP–AMP (cGAMP), a second messenger molecule, acting as a potent agonist of STING [
57,
58]. The synthesis of cGAMP is an important first step that results in the activation of the cGAS-mediated antiviral effects in several species [
59]. Indeed, the cGAS molecule is activated by bacterial and viral DNA as well as by mitochondrial DNA and phagocytosed DNA that are abnormally localized in the cytosol. The induction of cGAS produces cGAMP that activates STING and leads to the induction of TANK-binding kinase 1 (TBK1), IkB kinase (IKK) and NF-kB inducing kinase (NIK) [
60,
61]. Together, induction of these kinases leads to the activation and nuclear translocation of IFN regulatory factor 3 (IRF3) and NF-kB, resulting in the expression of type I IFN, interferon-stimulated genes (ISGs) and inflammatory cytokines-further connecting the DDR network with the immune system [
62,
63]. On the other hand, extensive observations suggest that chronic activation of cGAS/STING can induce an immune suppressive tumor microenvironment (TME) that promotes the progression of the tumor [
64,
65,
66]. In line with these data, activation of cGAS/STING pathway may have either a pro-tumor or an anti-tumor effect, depending on the stage of tumor progression and the tissue-specific context.
Since cytoplasmic dsDNA can activate STING, chemotherapies that result in the accumulation of cytoplasmic dsDNA may be an alternative strategy for STING activation. Indeed, genotoxic therapies including radiotherapy, cytotoxic chemotherapy, inhibitors of PARP and/or ATR augmented cytosolic DNA damage-induced dsDNA and activate the cGAS-STING-IFN response [
67,
68,
69,
70] with S-phase DNA damage being a particularly potent activator [
71]. The activation of cGAS/STING inflammatory responses following DNA damage by PARP [
72] or ATR [
73] inhibition may also induce the formation of micronuclei with subsequent leaking of DNA from the micronuclei able to activate the innate immune response [
52,
74]. Micronuclei are small organelles that contain DNA and are produced as a result of genotoxic stress and chromosome missegregation in subsequent cell division [
75]. Although these organelles are formed with a nuclear envelope (NE), after mitosis they lose compartmentalization as their NE ruptures [
76]. A consequence of micronuclei rupture is that chromosomal DNA become accessible to cGAS and the subsequent induction of immune responses [
52,
54,
55,
77,
78,
79].
Concerning the ATR inhibition, an accumulating body of evidence suggests that the ATR pathway modulates the antitumor immunity (
Figure 2). Indeed, ATR is induced in response to replication stress, single-stranded DNA and increased R-loops, and activates a kinase signaling cascade that involves CHK1 and WEE1 kinases that, in turn, leads to the activation of a checkpoint and the arrest of the cell cycle in order to give more time to the DNA repair mechanism to remove lesions [
80]. In line with these data, the inhibition of ATR disrupts these functions of ATR, resulting in inappropriate mitotic entry and mitotic catastrophe. Moreover, the cytosolic DNA released may induce the cGAS-STING pathway and a type I IFN response. In addition, the inhibition of ATR plays an important role in augmenting tumor mutational burden (TMB) and neoantigen repertoire. Indeed, previous reports have studied the role of DDR inhibition as a means of increasing the TMB and the production of neoantigens[
54] which may, in turn, increase the sensitivity to immune checkpoint blockade by elevated antigen presentation. Interestingly, samples harboring mutations in DNA damage signaling genes, such as ATR, showed increased neoantigen levels, thus enhancing the rationale for combination therapies using PD-1/PD-L1 blocking and ATR inhibitors. This is supported by preliminary data in a syngeneic mouse model of head and neck squamous cell carcinoma (HNSCC), where ATR inhibition by AZD6738 resulted in cGAS/STING pathway activation and induced tumor infiltration of cytotoxic T cells that eventually achieved tumor growth arrest and prolonged survival [
81].
In line with these results, previous studies have shown that inhibitors of ATR potentiate immune stimulation following exposure to radiotherapy. Indeed, combined treatment with radiotherapy and ATR inhibitor induced type I/II IFN signaling and infiltration of CD8+ T-cells in a manner dependent on cGAS/STING [
82,
83,
84]. While ATR inhibitors do not directly induce DNA damage, one may assume that the higher immunogenicity observed in irradiated tumors in the context of ATR inhibition is due to overriding of the G2/M cell cycle checkpoint. As a result, an increased proportion of cells with non-repaired DNA lesions enter mitosis, resulting in DNA fragmentation and micronuclei formation that trigger innate immune responses[
54,
85,
86]. Furthermore, the inhibition of the ATR effector kinase CHK1 has been observed to abrogate the G2/M checkpoint after irradiation, resulting in the formation of micronuclei and type I IFN signaling in cancer cells [
87]. Additionally, administering a combination of radiotherapy and the CHK1 inhibitor AZD7762 to mice led to increased CD8+ T-cell infiltration and a reduction in tumor volume compared to individual treatments with these agents [
87]. Furthermore, ATR inhibition may enhance tumor immunogenicity by reducing the expression of programmed cell death 1 ligand 1 (PD-L1) in irradiated cancer cells [
82,
88,
89]. Also, preclinical studies have indicated that cells that experience high replication stress may be selectively eliminated by ATR inhibition [
90]. Indeed, the researchers observed that as the level of single-stranded DNA increased, a greater proportion of cells treated with ATR inhibitors underwent mitotic catastrophe. This finding suggests that the degree of cellular replication stress and the extent of ATR inhibitor-induced single-stranded DNA could potentially serve as predictive factors for the sensitivity to ATR inhibition.
Lately, it has been shown that except for the induction of immune response through canonical cGAS/STING signaling, the combination of irradiation therapy and ATR inhibition can also activate non-canonical STING pathway. As a result, a more robust immune activation was achieved leading to increased type I interferon-related gene expression and T cell infiltration turning the “cold” tumor microenvironment into “hot” and, thus, restoring sensitivity to PD-L1 immunotherapy [
91].
Taken together, DDR-targeted therapies, including the inhibition of the ATR kinase, have the potential to enhance the antitumor immune response through various mechanisms, including the augmentation of antigenicity, the promotion of genomic instability in tumor cells, the activation of cytosolic immunity, as well as the modulation of different components that influence the interaction between tumor and immune cells [
92].