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Biomedical association analysis between G2/M checkpoint genes and susceptibility to HIV-1 infection and AIDS progression from a northern chinese MSM population

AIDS Research and Therapy volume 20, Article number: 51 (2023) Cite this article

Abstract

Background

MSM are at high risk of HIV infection. Previous studies have shown that the cell cycle regulation plays an important role in HIV-1 infection, especially at the G2/M checkpoint. ATR, Chk1, Cdc25C and CDK1 are key genes of G2/M checkpoint. However, the association between SNPs of these genes and susceptibility to HIV-1 infection and AIDS progression remains unknown.

Methods

In this study, 42 tSNPs from the above four G2/M checkpoint genes were genotyped in 529 MSM and 529 control subjects from northern China to analyze this association.

Results

The results showed that rs34660854 A and rs75368165 A in ATR gene and rs3756766 A in Cdc25C gene could increase the risk of HIV-1 infection (P = 0.049, OR = 1.234, 95% CI 1.001–1.521; P = 0.020, OR = 1.296, 95% CI 1.042–1.611; P = 0.011, OR = 1.392, 95% CI 1.080–1.794, respectively), while Chk1 rs10893405 (P = 0.029, OR = 1.629, 95% CI 1.051–2.523) were significantly associated with AIDS progression. Besides, rs34660854 (P = 0.019, OR = 1.364, 95% CI 1.052–1.769; P = 0.022, OR = 1.337, 95% CI 1.042–1.716, under Codominant model and Dominant model, respectively) and rs75368165 (P = 0.006, OR = 1.445, 95% CI = 1.114–1.899; P = 0.007, OR = 1.418, 95% CI 1.099–1.831, under Codominant model and Dominant model, respectively) in ATR gene, rs12576279 (P = 0.013, OR = 0.343, 95% CI 0.147-0.800; P = 0.048, OR = 0.437, 95% CI 0.192–0.991, under Codominant model and Dominant model, respectively) and rs540436 (P = 0.012, OR = 1.407, 95% CI 1.077–1.836; P = 0.021, OR = 1.359, 95% CI 1.048–1.762, under Codominant model and Dominant model, respectively) in Chk1 gene, rs3756766 (P = 0.013, OR = 1.455, 95% CI 1.083–1.954; P = 0.009, OR = 1.460, 95% CI 1.098–1.940, under Codominant model and Dominant model, respectively) in Cdc25C gene and rs139245206 (P = 0.022, OR = 5.011, 95% CI 1.267–19.816; P = 0.020, OR = 5.067, 95% CI 1.286–19.970, under Codominant model and Recessive model, respectively) in CDK1 gene were significantly associated with HIV-1 infection under different models.

Conclusions

We found that genetic variants of G2/M checkpoint genes had a molecular influence on the occurrence of HIV-1 infection and AIDS progression in a northern Chinese MSM population.

Background

Acquired immune deficiency syndrome (AIDS) is caused by Human immunodeficiency virus (HIV), which is a typical retrovirus [1]. It is still unable to be cured and seriously endangers global public health security. In recent years, the number of HIV-1 infected people has progressively increased, and the proportion of men who have sex with men (MSM) has been increasing year by year [2].

The cell cycle is a complex process involving many important physiological processes such as the cell proliferation and diseases pathogenesis [3, 4]. Cell cycle checkpoints regulate the transition from one phase to another in turn to ensure the accuracy of cell cycle [5]. The G2/M checkpoint is responsible for G2 phase to M phase after DNA replication [6]. During the G2/M checkpoint process, Ataxia Telangiectasia and Rad3-related (ATR) play an important role as a sensor of DNA damage in cells [7]. Once DNA damage in cells is sensed by ATR, Checkpoint kinase 1 (Chk1) will be activated. Then Chk1 will inhibit the activity of cell division control protein 25 (Cdc25) [8]. The function of Cdc25 in G2/M checkpoint is to promote cells entry into the M phase by activating the complex of cyclin-dependent kinases 1 (CDK1)/Cyclin B1. Inhibition of Cdc25C will cause cell cycle arrest at the G2 phase [9].

Many kinds of viruses can give rise to cell cycle arrest by activating the mechanisms of checkpoints [10]. Vpr and Vif, important proteins of HIV-1, could induce the cell cycle arrest by interacting with ATR, Cdc25C, CDK1-Cyclin B1 and so on [11,12,13,14]. The double strand break (DSB) caused by HIV-1 integration, which is necessary for HIV-1 replication, contributes to the cell cycle arrest and G2/M checkpoint also influence HIV-1 integration [15]. In addition, many reports have also shown that genetic variants of G2/M checkpoint genes are associated with multiple diseases, that is, polymorphisms in the ATR, Chk1 and CDK1 genes are significantly associated with breast cancer, while polymorphisms in the Cdc25C gene are associated with hepatocellular carcinoma, and so on [16,17,18]. However, there is still no clear reported relationship between genetic polymorphisms of G2/M checkpoint genes and AIDS. In this study, we aimed to genotype SNPs of ATR, Chk1, Cdc25C and CDK1 genes at G2/M checkpoint and analyze their associations with the susceptibility to HIV-1 infection and AIDS progression in a northern Chinese MSM population.

Methods

Participants

A total of 529 HIV-1-infected MSM individuals were recruited from the Center for Disease Control and Prevention (CDC) of Heilongjiang Province. Meanwhile, 529 age-matched unrelated healthy men were randomly selected from the Second Affiliated Hospital of Harbin Medical University. It is worth noting that the proportion of MSM population in HIV-1 infected patients has gradually increased in recent years, so males were selected as the subjects of our investigation. The protocols used in this study were evaluated and approved by the Ethics Committee of Harbin Medical University (No.: HMUIRB20180019) and written informed consent was obtained from all participants.

SNP selection

42 tagging single nucleotide polymorphisms (tSNPs) of G2/M checkpoint genes were selected to investigate their associations with HIV-1 infection and AIDS progression (Table 1). All tSNPs were screened using Haploview software (version 4.2), which was designed to provide a comprehensive suite of tools for haplotype analysis for a wide variety of data-set sizes [19], based on linkage disequilibrium (LD) with Han Chinese in Beijing (CHB) as a reference population (r2 > 0.8).

Table 1 Characteristics of HIV-infected individuals and healthy controls
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DNA extraction and genotyping

Genomic DNA of each participant was extracted from the peripheral blood of each individual using the QIAamp DNA Blood kit (Qiagen, Hilden, Germany), following the manufacturer’s instructions. The 42 tSNPs were genotyped utilizing the SNPscan Kit (Genesky Biotechnologies Inc., Shanghai, China) which was based on double ligation and multiplex fluorescence PCR. To begin this process, 100–200 ng of DNA sample was denatured at 98 ℃ for 5 min in a 10 µL reaction composed of 1×DNA lysis buffer and then mixed well with a 10 µL ligation premix containing 1 µL 10×ligase buffer, 0.5 µL ligase, 1 µL probe mix, and 7.5 µL Milli-Q water. After the ligation product was prepared, PCR reactions were prepared in a 20 µL mixture containing 1×PCR master mix, 1 µL primer mix set A or set B, and 1 µL ligation product. Then an ABI 2720 thermal cycler was used for the ligation reaction. And an ABI 3730XL sequencer was used to separate and detect PCR products. Raw data were generated based on the information obtained for the labeling dye color and fragment size of the allele-specific ligation-PCR product. Genotyping was conducted without any knowledge regarding the subject’s case or control status. To ensure the accuracy of the results, 53 participants (5% of all participants) were randomly selected whose 42 tSNPs were double genotyped and the accuracy rate was 100%.

Statistical analysis

The difference of age distribution between the case group and the control group was compared by Student’s t-test. The Hardy-Weinberg equilibrium (HWE) of the control group was checked by the chi-square test. The association of these 42 tSNPs with susceptibility to HIV-1 infection and AIDS progression were determined using the chi-square test, and the effect size was expressed as an odds ratio (OR) with 95% confidence interval (95% CI). Haploview v4.2 was used to analyze the LD and haplotypes, and 10,000 permutations were run to compute P values. Generalized Multifactor Dimensionality Reduction (GMDR) v 0.9 (http://www.ssg.uab.edu/gmdr/) was utilized to explore the possible gene-gene interaction. Association between the number of risk alleles and AIDS was calculated using logistic regression. The statistical analyses were performed by SPSS v. 22.0 statistical software (IBM-SPSS, Inc., Chicago, USA) and R statistical software (v3.6.3). P < 0.05 was considered statistically significant.

Results

Characteristics of the study subjects

The basic characteristics and clinical parameters of the patient and control groups were shown in the Table 1. No significant difference in age was observed between cases (mean age ± SD, 39.09 ± 10.57 years; aged between 16 and 80) and controls (mean age ± SD, 38.60 ± 10.97 years; aged between 16 and 75) (P = 0.458). All the tSNPs in the control group were in HWE (P > 0.05) except for Chk1 rs537046 (P = 0.049) and CDK1 rs16915503 (P = 0.029), which were excluded from further analysis (Table 2).

Table 2 The information and allele frequencies of the 42 tSNPs in cases and controls
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Alleles and genotypes associated with the susceptibility to HIV-1 infection

Among 42 SNPs genotyped, the frequencies of rs34660854 A allele and rs75368165 A allele in ATR gene, and rs3756766 A allele in Cdc25C gene in patients were significantly higher than those in controls, which suggested that these alleles could increase the susceptibility to HIV-1 infection (P = 0.049, OR = 1.234, 95% CI = 1.001–1.521; P = 0.020, OR = 1.296, 95% CI = 1.042–1.611; P = 0.011, OR = 1.392, 95% CI = 1.080–1.794, respectively) (Table 2). Genotype analyses showed that under dominant and codominant models, the risk of HIV-1 infection was increased for ATR rs34660854 and rs75368165, Chk1 rs540436 and Cdc25C rs3756766, with OR values ranging from 1.337 to 1.460 (P < 0.05). In contrast with the above loci showing increased risk of genotypes on HIV-1 infection, a decreased risk for HIV-1 infection was observed of Chk1 rs12576279 under dominant and codominant models (P = 0.048, OR = 0.437, 95% CI = 0.192–0.991; P = 0.013, OR = 0.343, 95% CI = 0.147-0.800). Moreover, CDK1 rs139245206 showed significant differences between cases and controls under recessive and codominant models (P = 0.020, OR = 5.067, 95% CI = 1.286–19.970; P = 0.022, OR = 5.011, 95% CI = 1.267–19.816) (Fig. 1). The genotype frequencies of other tSNPs were not significantly associated with HIV-1 infection under different genetic models (P > 0.05) (Table S1).

Fig. 1
figure 1

Distribution of genotypes of the tSNPs with significant difference in cases and controls. Codominant 1, homozygous including risk allele versus homozygous including non-risk-allele; Codominant 2, heterozygous versus homozygous including risk allele. Sum of the genotype frequencies may not be 100% due to the rounding at one decimal positions. a: The value was not showed due to the rounding at one decimal positions

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Haplotype analysis

There was a strong linkage disequilibrium among tSNPs, with 13 haplotypes found in Chk1 block 1 and 2, and four haplotypes found in Cdc25C block 1 (Fig. 2). The haplotype distribution of Chk1 and Cdc25C genes was significantly different between the case group and the control group (Table S2). The frequencies of Chk1 H7 (haplotype CCTCGACGC) and Cdc25C H4 (haplotype GGT) of block 1 in case group were higher than those in control group (P = 0.005 and P = 0.001, respectively). The association remained significant after correcting for multiple testing using 10,000 permutations with the Haploview program (P = 0.045 and P = 0.002). There was no significant difference in frequencies of other haplotypes (P > 0.05).

Fig. 2
figure 2

(A). Linkage analysis of the SNPs in the Chk1 gene and haplotype blocks. (B). Linkage analysis of the SNPs in the Cdc25C gene and haplotype blocks. Haplotype blocks were defined for all samples using Haploview. Each square represents a value of D’. Light color shading indicates low logarithm of the odds (LOD) and low D’; Dark red indicates high LOD and high D’

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Association analysis of SNPs with CD4+ T cell counts and clinical stage

According to the grading standards of the World Health Organization, HIV-1 positive samples were divided into pre-AIDS phase (clinical stages I, II and III) and AIDS phase (clinical stage IV), and the baseline value of < 200 cells/mm3 of CD4+ T cell count was an important diagnostic criterion for AIDS phase [20]. On this basis, we analyzed the association of these tSNPs with CD4+ T cell counts and AIDS clinical stages. There was a significant association between the ATR rs75069062 and Chk1 rs10893405 and the clinical stage of AIDS. In detail, rs75069062 showed significant difference between category A (clinical stage I + II + III) and category B (clinical stage IV) (P = 0.026). And the frequency of rs10893405 G in category B patients was higher than that in category A patients (P = 0.029, OR = 1.629, 95% CI = 1.051–2.523) (Table S3). No significant association was observed between tSNPs and CD4+ T cell counts (Table S4).

Analysis of cumulative effects of risk genotypes associated with HIV-1 infection

GMDR was applied to screen the possible gene-gene interaction combinations among 40 tSNPs in 4 genes and the results obtained from GMDR analysis were showed in Table S5. There was only one significant model involving ATR rs68065420, Chk1 rs1057733 and Cdc25C rs6861656 whose cross-validation consistency was 10/10 and test accuracy was 0.558. Different combinations of high risk and low risk genotypes of three SNPs in the best model was summarized and an interaction analysis also conducted to explore the association between these combinations and susceptibility to HIV-1 infection (Fig. 3). We further assessed the association between the sum of risk alleles of rs68065420 A, rs1057733 T and rs6861656 T and susceptibility to HIV-1 infection. Figure 4 A shows the numbers of patients and healthy individuals with each the sum of risk allele in cases and controls, and an additive effect of risk alleles on the susceptibility of HIV-1 infection was observed (Fig. 4B). The OR for AIDS was 1.210 (95% CI = 0.899–1.631) in individuals with three to four risk alleles, and the corresponding OR in those with five to six risk alleles was 1.871 (95% CI = 1.265–2.767, P = 0.002), compared to individuals with zero to two risk alleles.

Fig. 3
figure 3

Distributions of high-risk and low-risk genotypes in the best three-locus model. Dark gray boxes represent the high-risk genotype combinations. Light gray boxes represent the low-risk genotype combinations. White boxes represent no data

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Fig. 4
figure 4

Association between the number of risk alleles in rs68065420, rs1057733 and rs6861656 and AIDS. (A) the numbers of patients and healthy individuals with each risk allele in cases and controls, (B) The risk of AIDS by the number of risk allele categories. Data are crude ORs and 95% CIs. The 0–2 group was the reference. OR = odds ratio

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Discussion

Our study found that genetic variants of G2/M checkpoint genes had a molecular influence on the occurrence of HIV-1 infection and AIDS progression in a northern Chinese MSM population. It is known that many viruses including HIV-1 induce cell cycle arrest in G2 phase via G2/M checkpoint activation through a variety of mechanisms [21]. HIV-1 is a kind of retrovirus and the integration after reverse transcription is important for its proliferation [22]. The integration of HIV-1 can cause DSB of CD4+ T cell and activate G2/M checkpoint that leads to cell cycle arrest [23, 24]. This mechanism will also affect the proliferation of HIV-1 [25]. Therefore, it is critical to investigate the association between G2/M checkpoint and HIV-1. In this study, 42 tSNPs in ATR, Chk1, Cdc25C and CDK1 gene were genotyped to analyze the association with susceptibility to HIV-1 infection and AIDS progress among MSM population in the northern China.

ATR, as a sensor of DNA damage, contributes to cell cycle arrest, DNA damage repair and stable replication of cells after being activated, which is an important kinase of avoiding apoptosis for cells [26, 27]. A study also found that Vpr-induced structural alteration of DNA can trigger ATR-mediated DNA damage response and contributed to HIV-1 infection [14]. Previous reports showed that rs13091637, which also located in the ATR intronic region and was in strong linkage disequilibrium with rs34660854 in Chinese population, was significantly associated with melanoma and breast cancer [28,29,30]. The results of our study showed that rs34660854 A and rs75368165 A in ATR gene were significantly associated with increased susceptibility to HIV-1 infection. These two SNPs also showed significant differences under codominant and dominant model. It indicated that the rs34660854-A and rs75368165-A in ATR gene were the pathogenic factors for HIV-1 infection. The genotypes carrying risk alleles of these tSNPs were more likely to infect HIV-1 among MSM population in the northern China. By analyzing the effect of the SNPs on AIDS progression, rs75069062 showed a difference between clinical phase I/II/III and clinical phase IV. Although rs34660854, rs75368165 and rs75069062 were all located in the intronic regions, they might be responsible for affecting gene function at transcription level, splicing enhancer or silencer and other mechanisms.

Chk1 was phosphorylated and activated by ATR after DNA damage had been sensed by ATR at G2/M checkpoint. The genetic mutations of Chk1 gene can cause many kinds of disease such as breast cancers, colorectal cancers, human lymphoid neoplasms and so on [31,32,33]. However, there are few reports which clearly explain the association between Chk1 and HIV-1 infection. Our results showed that rs12576279 and rs540436 in Chk1 gene were significantly associated with HIV-1 infection risk under codominant and dominant model. The individuals carrying rs12576279-T were at lower risk for HIV-1infection. The results also indicated that the genotypes including rs540436-T were pathogenic factors for HIV-1 infection. In addition, rs10893405 also showed significant differences between clinical phase I/II/III and IV by analyzing the association between the polymorphisms of Chk1 gene and AIDS progression. It indicated that the rs10893405-G was the risk factor of AIDS progression. Furthermore, a haplotype (H7) and haploid allele of Chk1 gene was significantly associated with HIV-1 infection susceptibility. These three SNPs were all located in the intronic regions and any publications about them were not found in PubMed database (https://www.ncbi.nlm.nih.gov). Moreover, the functional studies about these SNPs with HIV-1 infection needed to be carried out.

The protein Cdc25 is a key inducer for the entry of M phase and controls the timing of mitosis. It includes three homologues i.e. Cdc25A, Cdc5B and Cdc25C [34]. Cdc25C, which are phosphorylated and inactivated by Chk1, play important roles in the process of G2/M checkpoint [35]. Many reports showed that Cdc25A and Cdc25B were associated with breast cancers, colorectal cancers, non-small cell lung cancers and so on. But there were few reports about the association between Cdc25C and carcinogenesis [36]. Vpr, which is an important protein of HIV-1, can trigger G2 arrest by inhibiting the Cdc25C phosphatase activities. However, no study reported the association between the polymorphisms of Cdc25C and HIV-1 infection and AIDS progression [13]. Our results showed that rs3756766-A in Cdc25C was significantly associated with increased susceptibility to HIV-1 infection. Moreover, this SNP also showed a significant association under codominant and dominant model. It indicated that the rs3456766-A was the pathogenic factor of HIV-1 infection. Thus, the genotypes including allele A could also increase the cumulative risk of HIV-1 infection.

CDK1-Cyclin B1 complex plays an important role in the process of G2/M transition. The activation and nuclear accumulation of this complex are key events for G2/M transition [37, 38]. In the process of G2/M checkpoint, Cdc25C phosphatase activates CDK1 by removing two inhibitory phosphates from Thr14 and Tyr15 [39]. A study showed that the Vif of HIV-1 could impair the mitotic entry by interfering with CDK1-Cyclin B1 complex activation causing cell cycle arrest [11]. However, the association of CDK1 polymorphisms and HIV-1infection and AIDS progression remains unclear. The results of our study showed that CDK1 rs139245206 was significantly associated with HIV-1 infection under codominant and recessive model. Although this SNP located in intron regions, it might regulate gene transcription level by binding with transcription factors.

Gene-gene interaction is extremely important because many genes involve the complex process of G2/M checkpoint regulating cell cycle and the role of a single gene may be finite. Therefore, GMDR software was used to investigate the impact of interaction between ATR, Chk1, Cdc25C and CDK1 gene polymorphisms on HIV-1 infection susceptibility. Our results showed a trend toward an increased AIDS risk as the number of rs68065420 A, rs1057733 T and rs6861656 T alleles increased, indicating the cumulative effect of genetic variants on AIDS risk. However, the exact mechanisms underlying the interaction remain unclear and need to be further investigated by functional studies.

In our study, we investigated the association between genetic polymorphisms of G2/M checkpoint genes and HIV-1 infection and AIDS progression. Rs34660854 and rs37568165 in ATR gene, rs12576279 and rs540436 in Chk1 gene, rs3756766 in Cdc25C and rs139245206 in CDK1 gene were associated with susceptibility to HIV-1 infection. Rs75069062 in ATR gene and rs10893405 in Chk1 gene were associated with AIDS progression among MSM population in northern Chinese. It revealed that G2/M checkpoint played a crucial role in HIV-1 infection and AIDS progression. Although correcting for multiple testing is usually an extremely strict way to keep certain that may be associated with outcome variables of SNP statistical significance, this type of correction may not be needed when focusing on different associations only once at a time [40]. And frequent use of Bayesian techniques or Bonferroni corrections can lead to issues in the correction of multiple comparisons [41]. In addition, the results we got were still positive for HIV prevention and should not be ignored due to the possible false negatives.

Conclusions

This finding will provide the theoretical basis and basic data for the prevention of HIV infection and the treatment of AIDS. Moreover, more related studies are still needed by using larger sample size and different populations to verify our findings.

Data Availability

The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.

Abbreviations

MSM:

Men who have sex with men

AIDS:

Acquired immune deficiency syndrome

HIV:

Human immunodeficiency virus

ATR:

Ataxia Telangiectasia and Rad3-related

Chk1:

Checkpoint kinase 1

Cdc25:

Cell division control protein 25

CDK1:

Cyclin-dependent kinases 1

DSB:

Double strand break

tSNPs:

Tagging single nucleotide polymorphisms

LOD:

Logarithm of the odds

CDC:

Disease Control and Prevention

LD:

Linkage disequilibrium

CHB:

Han Chinese in Beijing

HWE:

Hardy-Weinberg equilibrium

OR:

Odds ratio

CI:

Confidence interval

GMDR:

Generalized Multifactor Dimensionality Reduction.

References

  1. Hussein M, Molina MA, Berkhout B, Herrera-Carrillo E. A CRISPR-Cas cure for HIV/AIDS. Int J Mol Sci Jan 13 2023;24(2).

  2. Guilamo-Ramos V, Thimm-Kaiser M, Benzekri A, et al. Nurses at the frontline of public health emergency preparedness and response: lessons learned from the HIV/AIDS pandemic and emerging infectious disease outbreaks. Lancet Infect Dis Oct. 2021;21(10):e326–33.

    Article  Google Scholar 

  3. Giacinti C, Giordano A. RB and cell cycle progression. Oncogene Aug. 2006;28(38):5220–7.

    Article  Google Scholar 

  4. Wiman KG, Zhivotovsky B. Understanding cell cycle and cell death regulation provides novel weapons against human diseases. J Intern Med May. 2017;281(5):483–95.

    Article  CAS  Google Scholar 

  5. Barnum KJ, O’Connell MJ. Cell cycle regulation by checkpoints. Methods in molecular biology (Clifton N J). 2014;1170:29–40.

    Article  PubMed  Google Scholar 

  6. Luo Q, Guo H, Kuang P, et al. Sodium Fluoride Arrests Renal G2/M phase cell-cycle progression by activating ATM-Chk2-P53/Cdc25C signaling pathway in mice. Cell Physiol biochemistry: Int J experimental Cell Physiol Biochem Pharmacol. 2018;51(5):2421–33.

    Article  CAS  Google Scholar 

  7. Brown EJ, Baltimore D. Essential and dispensable roles of ATR in cell cycle arrest and genome maintenance. Genes & development Mar. 2003;1(5):615–28.

    Article  Google Scholar 

  8. Koniaras K, Cuddihy AR, Christopoulos H, Hogg A, O’Connell MJ. Inhibition of Chk1-dependent G2 DNA damage checkpoint radiosensitizes p53 mutant human cells. Oncogene Nov. 2001;8(51):7453–63.

    Article  Google Scholar 

  9. Nilsson I, Hoffmann I. Cell cycle regulation by the Cdc25 phosphatase family. Prog Cell Cycle Res. 2000;4:107–14.

    Article  CAS  PubMed  Google Scholar 

  10. Zhao RY, Elder RT. Viral infections and cell cycle G2/M regulation. Cell Res Mar. 2005;15(3):143–9.

    Article  CAS  Google Scholar 

  11. Sakai K, Barnitz RA, Chaigne-Delalande B, Bidere N, Lenardo MJ. Human immunodeficiency virus type 1 vif causes dysfunction of Cdk1 and CyclinB1: implications for cell cycle arrest. Virol J May. 2011;11:8:219.

    Article  Google Scholar 

  12. He J, Choe S, Walker R, Di Marzio P, Morgan DO, Landau NR. Human immunodeficiency virus type 1 viral protein R (vpr) arrests cells in the G2 phase of the cell cycle by inhibiting p34cdc2 activity. J Virol Nov. 1995;69(11):6705–11.

    Article  CAS  Google Scholar 

  13. Goh WC, Manel N, Emerman M. The human immunodeficiency virus vpr protein binds Cdc25C: implications for G2 arrest. Virol Jan. 2004;5(1):337–49.

    Article  Google Scholar 

  14. Iijima K, Kobayashi J, Ishizaka Y. Structural alteration of DNA induced by viral protein R of HIV-1 triggers the DNA damage response. Retrovirology Jan. 2018;16(1):8.

    Article  Google Scholar 

  15. Izumi T, Io K, Matsui M, et al. HIV-1 viral infectivity factor interacts with TP53 to induce G2 cell cycle arrest and positively regulate viral replication. Proc Natl Acad Sci United States Am Nov. 2010;30(48):20798–803.

    Article  Google Scholar 

  16. Li Y, Chen YL, Xie YT, et al. Association study of germline variants in CCNB1 and CDK1 with breast cancer susceptibility, progression, and survival among chinese Han women. PLoS ONE. 2013;8(12):e84489.

    Article  PubMed  PubMed Central  Google Scholar 

  17. Lin WY, Brock IW, Connley D, et al. Associations of ATR and CHEK1 single nucleotide polymorphisms with breast cancer. PLoS ONE. 2013;8(7):e68578.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  18. Nan YL, Hu YL, Liu ZK, et al. Relationships between cell cycle pathway gene polymorphisms and risk of hepatocellular carcinoma. World J Gastroenterol Jun. 2016;28(24):5558–67.

    Article  Google Scholar 

  19. Barrett JC, Fry B, Maller J, Daly MJ. Haploview: analysis and visualization of LD and haplotype maps. Bioinf Jan. 2005;15(2):263–5.

    Google Scholar 

  20. World Health Organization. WHO Case definitions of definitions of HIV for surveillance and revised clinical staging and inmunological classification of HIV-related disease in adults and children. ISBN 9789241595629. HIV/AIDS Programme; 2007.

  21. Ariumi Y, Turelli P, Masutani M, Trono D. DNA damage sensors ATM, ATR, DNA-PKcs, and PARP-1 are dispensable for human immunodeficiency virus type 1 integration. J Virol Mar. 2005;79(5):2973–8.

    Article  CAS  Google Scholar 

  22. Hemelaar J. The origin and diversity of the HIV-1 pandemic. Trends in molecular medicine Mar. 2012;18(3):182–92.

    Article  Google Scholar 

  23. Elder RT, Yu M, Chen M, Zhu X, Yanagida M, Zhao Y. HIV-1 vpr induces cell cycle G2 arrest in fission yeast (Schizosaccharomyces pombe) through a pathway involving regulatory and catalytic subunits of PP2A and acting on both Wee1 and Cdc25. Virol Sep. 2001;1(2):359–70.

    Article  Google Scholar 

  24. DeHart JL, Bosque A, Harris RS, Planelles V. Human immunodeficiency virus type 1 Vif induces cell cycle delay via recruitment of the same E3 ubiquitin ligase complex that targets APOBEC3 proteins for degradation. J Virol Sep. 2008;82(18):9265–72.

    Article  CAS  Google Scholar 

  25. Lawn SD, Butera ST, Folks TM. Contribution of immune activation to the pathogenesis and transmission of human immunodeficiency virus type 1 infection. Clin Microbiol reviews Oct. 2001;14(4):753–77. table of contents.

    Article  CAS  Google Scholar 

  26. Cimprich KA, Cortez D. ATR: an essential regulator of genome integrity. Nat reviews Mol cell biology Aug. 2008;9(8):616–27.

    Article  CAS  Google Scholar 

  27. Xu B, Kim ST, Lim DS, Kastan MB. Two molecularly distinct G(2)/M checkpoints are induced by ionizing irradiation. Mol Cell biology Feb. 2002;22(4):1049–59.

    Article  CAS  Google Scholar 

  28. Zhang M, Qureshi AA, Guo Q, Han J. Genetic variation in DNA repair pathway genes and melanoma risk. DNA repair Jan. 2011;2(1):111–6.

    Article  CAS  Google Scholar 

  29. Wang K, Ye Y, Xu Z, et al. Interaction between BRCA1/BRCA2 and ATM/ATR associate with breast cancer susceptibility in a chinese Han population. Cancer Genet Cytogenet Jul. 2010;1(1):40–6.

    Article  Google Scholar 

  30. Durocher F, Labrie Y, Soucy P, et al. Mutation analysis and characterization of ATR sequence variants in breast cancer cases from high-risk french canadian breast/ovarian cancer families. BMC cancer Sep. 2006;29:6:230.

    Article  Google Scholar 

  31. Tort F, Hernandez S, Bea S, et al. Checkpoint kinase 1 (CHK1) protein and mRNA expression is downregulated in aggressive variants of human lymphoid neoplasms. Leuk Jan. 2005;19(1):112–7.

    CAS  Google Scholar 

  32. Bertoni F, Codegoni AM, Furlan D, Tibiletti MG, Capella C, Broggini M. CHK1 frameshift mutations in genetically unstable colorectal and endometrial cancers. Genes chromosomes & cancer Oct. 1999;26(2):176–80.

    Article  CAS  Google Scholar 

  33. Solyom S, Pylkas K, Winqvist R. Screening for large genomic rearrangements of the BRIP1 and CHK1 genes in finnish breast cancer families. Familial cancer Dec. 2010;9(4):537–40.

    Article  CAS  Google Scholar 

  34. Jinno S, Suto K, Nagata A, et al. Cdc25A is a novel phosphatase functioning early in the cell cycle. EMBO J Apr. 1994;1(7):1549–56.

    Article  Google Scholar 

  35. Zhou BB, Elledge SJ. The DNA damage response: putting checkpoints in perspective. Nat Nov. 2000;23(6811):433–9.

    Article  Google Scholar 

  36. Kristjansdottir K, Rudolph J. Cdc25 phosphatases and cancer. Chem biology Aug. 2004;11(8):1043–51.

    Article  CAS  Google Scholar 

  37. Doree M, Galas S. The cyclin-dependent protein kinases and the control of cell division. FASEB journal: official publication of the Federation of American Societies for Experimental Biology Nov. 1994;8(14):1114–21.

    Article  CAS  Google Scholar 

  38. Masui Y. Towards understanding the control of the division cycle in animal cells. Biochem cell biology = Biochimie et Biol cellulaire Oct-Nov. 1992;70(10–11):920–45.

    Article  CAS  Google Scholar 

  39. Dunphy WG, Kumagai A. The cdc25 protein contains an intrinsic phosphatase activity. Cell Oct. 1991;4(1):189–96.

    Article  Google Scholar 

  40. Rothman KJ. No adjustments are needed for multiple comparisons. Epidemiol Jan. 1990;1(1):43–6.

    Article  CAS  Google Scholar 

  41. Green J, Britten N. Qualitative research and evidence based medicine. Bmj Apr. 1998;18(7139):1230–2.

    Article  Google Scholar 

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Acknowledgements

We gratefully acknowledge the numerous sample donors for making this work possible.

Funding

This work was supported by the Program for the Postdoctoral Foundation of Heilongjiang Province (LRB08-340) of Yuandong Qiao, the Natural Science Foundation of Heilongjiang Province (LH2023H009) and the National Natural Science Foundation of China (81373220) of Xuelong Zhang, Wu lien-the Youth Science Foundation of Harbin Medical University (WLD-QN1405) of Lidan Xu and HMU Marshal Initiative Funding (HMUMIF-21007) of Wenjing Sun.

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Authors and Affiliations

  1. College of Basic Medicine, Harbin Medical University-Daqing Campus, Daqing, Heilongjiang Province, 163319, China

    Jiawei Wu & Yuandong Qiao

  2. Laboratory of Medical Genetics, Harbin Medical University, Harbin, Heilongjiang Province, 150081, China

    Lidan Xu, Bangquan Liu, Wenjing Sun, Yuanting Hu, Yi Yang, Keer Guo, Xueyuan Jia, Haiming Sun, Jie Wu, Yun Huang, Wei Ji, Songbin Fu, Yuandong Qiao & Xuelong Zhang

  3. Key Laboratory of Preservation of Human Genetic Resources and Disease Control in China, Harbin Medical University, Ministry of Education, Harbin, Heilongjiang Province, 150081, China

    Lidan Xu, Wenjing Sun, Xueyuan Jia, Haiming Sun, Jie Wu, Yun Huang, Wei Ji, Songbin Fu, Yuandong Qiao & Xuelong Zhang

Authors
  1. Jiawei Wu
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  2. Lidan Xu
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  3. Bangquan Liu
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  4. Wenjing Sun
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  10. Jie Wu
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  14. Yuandong Qiao
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  15. Xuelong Zhang
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Contributions

All authors contributed to the study conception and design. Y.Q. and X.Z. performed conceptualization, supervision and validation. J.W., L.X., B.L., Y.Y., K.G. and Y.H. performed data curation. Y.Q., X.Z., L.X. and W.S. performed funding acquisition. J.W., X.Z. and W.S. performed investigation. J.W., X.J., H.S., Y.H. and W.J. performed methodology. J.W. and X.Z. performed software, visualization and original draft writing. X.Z., S.F. and Y.Q. performed writing review and editing. All authors reviewed the manuscript.

Corresponding authors

Correspondence to Yuandong Qiao or Xuelong Zhang.

Ethics declarations

Competing interests

The authors declare no competing interests.

Ethics approval and consent to participate

This study was performed in line with the principles of the Declaration of Helsinki. Approval was granted by the Ethics Committee of Harbin Medical University (No.: HMUIRB20180019)

Consent to participate

Informed consent was obtained from all individual participants included in the study.

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Not applicable.

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Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary Material 1: Table S1

. Distribution of genotypes of tSNPs in cases and controls

Supplementary Material 2: Table S2

. Distribution of haplotypes of Chk1 and Cdc25C gene in cases and controls

Supplementary Material 3: Table S3

. Association between the 40 tSNPs in 4 genes and AIDS clinical stages

Supplementary Material 4: Table S4

. Association between the tSNPs and HIV-1 infection susceptibility in different subgroups divided by CD4+ T cell counts

Supplementary Material 5: Table S5

. Gene-gene interaction models, as identified by GMDR

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Wu, J., Xu, L., Liu, B. et al. Biomedical association analysis between G2/M checkpoint genes and susceptibility to HIV-1 infection and AIDS progression from a northern chinese MSM population. AIDS Res Ther 20, 51 (2023). https://0-doi-org.brum.beds.ac.uk/10.1186/s12981-023-00536-w

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  • DOI: https://0-doi-org.brum.beds.ac.uk/10.1186/s12981-023-00536-w

Keywords

AIDS Research and Therapy

ISSN: 1742-6405

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