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The interaction of DNA repair factors ASCC2 and ASCC3 is affected by somatic cancer mutations. Nat Commun 2020; 11:5535. [PMID: 33139697 PMCID: PMC7608686 DOI: 10.1038/s41467-020-19221-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2020] [Accepted: 10/02/2020] [Indexed: 02/06/2023] Open
Abstract
The ASCC3 subunit of the activating signal co-integrator complex is a dual-cassette Ski2-like nucleic acid helicase that provides single-stranded DNA for alkylation damage repair by the α-ketoglutarate-dependent dioxygenase AlkBH3. Other ASCC components integrate ASCC3/AlkBH3 into a complex DNA repair pathway. We mapped and structurally analyzed interacting ASCC2 and ASCC3 regions. The ASCC3 fragment comprises a central helical domain and terminal, extended arms that clasp the compact ASCC2 unit. ASCC2–ASCC3 interfaces are evolutionarily highly conserved and comprise a large number of residues affected by somatic cancer mutations. We quantified contributions of protein regions to the ASCC2–ASCC3 interaction, observing that changes found in cancers lead to reduced ASCC2–ASCC3 affinity. Functional dissection of ASCC3 revealed similar organization and regulation as in the spliceosomal RNA helicase Brr2. Our results delineate functional regions in an important DNA repair complex and suggest possible molecular disease principles. The DNA helicase ASCC3 is the largest subunit of the activating signal co-integrator complex (ASCC), and its DNA unwinding activity is required for the AlkBH3/ASCC-dependent DNA de-alkylation repair pathway. Here, the authors identify a minimal stable complex of the two ASCC subunits ASCC2 and ASCC3, determine the complex crystal structure and further show that cancer-related mutations at the interface between both proteins reduce ASCC2–ASCC3 affinity.
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Identification of Susceptibility Genes in Hepatic Cancer Using Whole Exome Sequencing and Risk Prediction Model Construction. REV ROMANA MED LAB 2020. [DOI: 10.2478/rrlm-2020-0008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Abstract
Objective: To identify the susceptible single nucleotide polymorphisms (SNPs) loci in HCC patients in Guangxi Region, screen biomarkers from differential SNPs loci by using predictors, and establish risk prediction models for HCC, to provide a basis of screening high-risk individuals of HCC.
Methods: Blood sample and clinical data of 50 normal participants and 50 hepatic cancer (HCC) patients in Rui Kang Hospital affiliated to Guangxi University of Traditional Chinese Medicine were collected. Normal participants and HCC patients were assigned to training set and testing set, respectively. Whole Exome Sequencing (WES) technique was employed to compare the exon sequence of the normal participants and HCC patients. Five predictors were used to screen the biomarkers and construct HCC prediction models. The prediction models were validated with both training and testing set.
Results: Two-hundred seventy SNPs were identified to be significantly different from HCC, among which 100 SNPs were selected as biomarkers for prediction models. Five prediction models constructed with the 100 SNPs showed good sensitivity and specificity for HCC prediction among the training set and testing set.
Conclusion: A series of SNPs were identified as susceptible genes for HCC. Some of these SNPs including CNN2, CD177, KMT2C, and HLADQB1 were consistent with the previously identified polymorphisms by targeted genes examination. The prediction models constructed with part of those SNPs could accurately predict HCC development.
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Ren G, Liu X, Yu Z, Li J, Niu F, Jin T, Liu J, Chen M. Association of TERT polymorphisms with chronic hepatitis B in a Chinese Han population. Oncotarget 2018; 9:9199-9205. [PMID: 29507683 PMCID: PMC5823638 DOI: 10.18632/oncotarget.23905] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2017] [Accepted: 12/26/2017] [Indexed: 11/25/2022] Open
Abstract
In this study, we investigated the association between the polymorphisms of telomerase reverse transcriptase (TERT) gene and the risk of chronic hepatitis B (CHB) in a Chinese Han population. Four single nucleotide polymorphisms (SNPs) in TERT (rs10069690, rs2242652, rs2853677 and rs2853676) were genotyped from 224 CHB patients and 300 healthy controls using the Sequenom Mass-ARRAY platform. We used genetic model, haplotype analyses, chi-square test, logistic regression analysis to evaluate the association between SNPs and CHB risk. The relative risk was estimated by odd ratios (ORs) and 95% confidence intervals (CIs). We found that rs10069690 was significantly associated with an increased CHB risk in the dominant model (adjusted OR = 1.70, 95% CI: 1.06–2.71, P = 0.031) and additive model (adjusted OR = 1.62, 95% CI: 1.09–2.41, P = 0.018). The haplotype “TA” (rs10069690 and rs2242652) was found to be associated with an increased risk of CHB (adjusted OR = 1.58, 95% CI: 1.05–2.38, P = 0.027). Our results suggested potential genetic contributes for TERT in CHB development in a Chinese Han population. Future functional and association studies with larger sample sizes are required to confirm these findings.
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Affiliation(s)
- Guoxia Ren
- Department of Respiratory and Critical Care Medicine, The First Affiliated Hospital of School of Medicine of Xi'an Jiaotong University, Xi'an 710061, China.,Department of Intergrated Traditional Chinese and Western Medicine, Xi'an Chest Hospital, Xi'an 710100, China
| | - Xu Liu
- Hepato-Pancreato-Biliary Surgery, Peking University Shenzhen Hospital, Guangdong, Shenzhen 518036, China
| | - Zhendong Yu
- Central Laboratory, Peking University Shenzhen Hospital, Guangdong, Shenzhen 518036, China
| | - Jingjie Li
- Key Laboratory of Resource Biology and Biotechnology in Western China (Northwest University), Ministry of Education, School of Life Sciences, Northwest University, Xi'an, Shaanxi 710069, China
| | - Fanglin Niu
- Key Laboratory of Resource Biology and Biotechnology in Western China (Northwest University), Ministry of Education, School of Life Sciences, Northwest University, Xi'an, Shaanxi 710069, China
| | - Tianbo Jin
- Key Laboratory of Resource Biology and Biotechnology in Western China (Northwest University), Ministry of Education, School of Life Sciences, Northwest University, Xi'an, Shaanxi 710069, China
| | - Jikui Liu
- Hepato-Pancreato-Biliary Surgery, Peking University Shenzhen Hospital, Guangdong, Shenzhen 518036, China
| | - Mingwei Chen
- Department of Respiratory and Critical Care Medicine, The First Affiliated Hospital of School of Medicine of Xi'an Jiaotong University, Xi'an 710061, China
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Cheng G, Yuan X, Wang F, Sun Q, Xin Q, Li K, Sun C, Lin Z, Luan Y, Xu Y, Li P, Kong F, Xu D. Association Between the Telomerase rs2736098_TT Genotype and a Lower Risk of Chronic Hepatitis B and Cirrhosis in Chinese Males. Clin Transl Gastroenterol 2017; 8:e79. [PMID: 28300824 PMCID: PMC5387758 DOI: 10.1038/ctg.2017.9] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/03/2016] [Accepted: 01/30/2017] [Indexed: 12/19/2022] Open
Abstract
OBJECTIVES Chronic hepatitis B (CHB) is caused by infection of hepatitis B virus (HBV) and liver cirrhosis (LC) is its most common complication. The accumulated evidence indicates a genetic context of HBV infection phenotypes. Here we determine a potential association of CHB/LC with the genetic variant of telomerase reverse transcriptase (TERT), a key player in aging including immune-senescence. METHODS The study included 227 Chinese CHB patients and 315 sex/age-matched healthy controls. TERT rs2736098 and rs2736100 genotyping was performed using pre-designed TaqMan SNP genotyping assay kits. Leukocyte telomere length (LTL) was determined using quantitative PCR. RESULTS The rs2736098_CT/CC genotypes were significantly associated with risk of CHB compared to the TT one (OR 2.265, 95% CI 1.202-4.269, P=0.015). A similar association was also found in CHB patients with cirrhosis (CT/CC vs TT: OR 2.398, 95% CI 1.168-4.922, P=0.02). Further analyses showed that the rs2736098_TT genotype difference occurred between male controls and patients (P=0.008) and male CT/CC-carriers exhibited highly increased risk of CHB compared to male controls (CT+CC vs TT, OR 3.182, 95% CI 1.350-7.500, P=0.01). There was no difference in the rs2736100 variants between controls and CHB patients. LTL was not different between cases and controls. CONCLUSIONS The TERT rs2736098_TT genotype is associated with a lower CHB and LC risk in Chinese males, which may have implications in CHB pathogenesis and prevention.
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Affiliation(s)
- Guanghui Cheng
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Xiaotian Yuan
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
- Department of Medicine, Division of Hematology and Center for Molecular Medicine, Karolinska University Institutet and Karolinska University Hospital, Stockholm, Sweden
| | - Fang Wang
- Clinical Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Qing Sun
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Qian Xin
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Kailin Li
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Chao Sun
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Zhaomin Lin
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Yun Luan
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Yiteng Xu
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Ping Li
- School of Nursing, Shandong University, Jinan, PR China
| | - Feng Kong
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
| | - Dawei Xu
- Central Research Laboratory, The Second Hospital of Shandong University, Jinan, PR China
- Department of Medicine, Division of Hematology and Center for Molecular Medicine, Karolinska University Institutet and Karolinska University Hospital, Stockholm, Sweden
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