The 12p13.33/RAD52 locus and genetic susceptibility to squamous cell cancers of upper aerodigestive tract

. 2015 ; 10 (3) : e0117639. [epub] 20150320

Jazyk angličtina Země Spojené státy americké Médium electronic-ecollection

Typ dokumentu časopisecké články, Research Support, N.I.H., Extramural

Perzistentní odkaz   https://www.medvik.cz/link/pmid25793373

Grantová podpora
R01 CA092039 NCI NIH HHS - United States
R01 CA092039 05/05S1 NCI NIH HHS - United States
R03 DE020116 NIDCR NIH HHS - United States
001 World Health Organization - International
1R03DE020116 NIDCR NIH HHS - United States

Genetic variants located within the 12p13.33/RAD52 locus have been associated with lung squamous cell carcinoma (LUSC). Here, within 5,947 UADT cancers and 7,789 controls from 9 different studies, we found rs10849605, a common intronic variant in RAD52, to be also associated with upper aerodigestive tract (UADT) squamous cell carcinoma cases (OR = 1.09, 95% CI: 1.04-1.15, p = 6x10(-4)). We additionally identified rs10849605 as a RAD52 cis-eQTL inUADT(p = 1x10(-3)) and LUSC (p = 9x10(-4)) tumours, with the UADT/LUSC risk allele correlated with increased RAD52 expression levels. The 12p13.33 locus, encompassing rs10849605/RAD52, was identified as a significant somatic focal copy number amplification in UADT(n = 374, q-value = 0.075) and LUSC (n = 464, q-value = 0.007) tumors and correlated with higher RAD52 tumor expression levels (p = 6x10(-48) and p = 3x10(-29) in UADT and LUSC, respectively). In combination, these results implicate increased RAD52 expression in both genetic susceptibility and tumorigenesis of UADT and LUSC tumors.

Biostatistics group Lyon France

Cancer Registry of Norway Oslo Norway

Cancer Research Institute Advanced Centre for Treatment Research and Education in Cancer Tata Memorial Centre Navi Mumbai India

Catalan Institute of Oncology ICO IDIBELL L'Hospitalet de Llobregat Barcelona Spain

Catalan Institute of Oncology ICO IDIBELL L'Hospitalet de Llobregat Barcelona Spain; CIBER Epidemiología y Salud Pública Madrid Spain

Centro di Riferimento Oncologico IRCSS Unit of Epidemiology and Biostatistics Aviano Italy

Croatian National Cancer Registry Croatian National Institute of Public Health Zagreb Croatia

Department of Cancer Epidemiology and Genetics Masaryk Memorial Cancer Institute and Masaryk University Brno Czech Republic

Department of Cancer Epidemiology and Prevention M Sklodowska Curie Memorial Cancer Center and Institute of Oncology Warsaw Poland

Department of Environmental Medicine and Public Health University of Padova Padova Italy; MRC HPA Centre for Environment and Health Respiratory Epidemiology and Public Health National Heart and Lung Institute Imperial College London United Kingdom

Department of Epidemiology Institute of Occupational Medicine Lodz Poland

Department of Genetics and Pathology International Hereditary Cancer Center Pomeranian Medical University Szczecin Poland

Department of Health Promotion Division of Oral Pathology Kyushu Dental University Kitakyushu Japan

Department of Hygiene Epidemiology and Medical Statistics University of Athens School of Medicine Athens Greece

Department of Otolaryngology and Laryngological Oncology Pomeranian Medical University Szczecin Poland

Dept of Molecular Oncology Cancer Institute Chennai Tamil Nadu India

General Hospital of Pordenone Pordenone Italy

Genetic Cancer Susceptibility group Lyon France

Genetic Epidemiology group Human Genetics Unit Edinburgh United Kingdom

Genetic Epidemiology group Lyon France

Infections and Cancer Epidemiology group Lyon France

Institute of Carcinogenesis Cancer Research Centre Moscow Russian Federation

Institute of Hygiene and Epidemiology 1st Faculty of Medicine Charles University Prague Czech Republic

Institute of Oncology and Radiobiology Havana Cuba

Institute of Public Health Section of Hygiene Faculty of Medicine Università Cattolica del Sacro Cuore Rome Italy

International Prevention Research Institute Ecully France

Leibniz Institute for Prevention Research and Epidemiology BIPS Bremen Germany; Faculty of Mathematics and Computer Science University of Bremen Bremen Germany

National School of Public Health FIOCRUZ Rio de Janeiro Brazil

Palacky University Olomouc Czech Republic

Regional Authority of Public Health Banska Bystrica Slovakia

Saint Mary General and Esophageal Surgery Clinic Carol Davila University of Medicine and Pharmacy Bucharest Romania

School of Medicine and Dentistry University of Aberdeen Aberdeen United Kingdom

The Tisch Cancer Institute Mount Sinai School of Medicine New York NY United States of America

Trinity College School of Dental Science Dublin Ireland

Universidade de Sao Paulo Sao Paulo Brazil

Universidade Federal de Pelotas Pelotas Brazil

University of Glasgow Dental School Glasgow Scotland United Kingdom

University of Manchester School of Dentistry Manchester United Kingdom

University of Turin Department of Medical Sciences Unit of Cancer Epidemiology Turin Italy

Zobrazit více v PubMed

Ferlay J, Shin HR, Bray F, Forman D, Mathers C, et al. (2010) Estimates of worldwide burden of cancer in 2008: GLOBOCAN 2008. Int J Cancer 127: 2893–2917. 10.1002/ijc.25516 PubMed DOI

Stewart B, Kleihues P (2003) World Cancer Report: IARC Press.

McKay JD, Truong T, Gaborieau V, Chabrier A, Chuang SC, et al. (2011) A genome-wide association study of upper aerodigestive tract cancers conducted within the INHANCE consortium. PLoS Genet 7: e1001333 10.1371/journal.pgen.1001333 PubMed DOI PMC

Negri E, Boffetta P, Berthiller J, Castellsague X, Curado MP, et al. (2009) Family history of cancer: pooled analysis in the International Head and Neck Cancer Epidemiology Consortium. Int J Cancer 124: 394–401. 10.1002/ijc.23848 PubMed DOI PMC

Hoeijmakers JH (2001) Genome maintenance mechanisms for preventing cancer. Nature 411: 366–374. PubMed

Scully C, Field JK, Tanzawa H (2000) Genetic aberrations in oral or head and neck squamous cell carcinoma (SCCHN): 1. Carcinogen metabolism, DNA repair and cell cycle control. Oral Oncol 36: 256–263. PubMed

Thacker J (1999) The role of homologous recombination processes in the repair of severe forms of DNA damage in mammalian cells. Biochimie 81: 77–85. PubMed

Sung P, Klein H (2006) Mechanism of homologous recombination: mediators and helicases take on regulatory functions. Nat Rev Mol Cell Biol 7: 739–750. PubMed

Liu J, Heyer WD (2011) Who's who in human recombination: BRCA2 and RAD52. Proc Natl Acad Sci U S A 108: 441–442. 10.1073/pnas.1016614108 PubMed DOI PMC

Baumann P, West SC (1998) Role of the human RAD51 protein in homologous recombination and double-stranded-break repair. Trends Biochem Sci 23: 247–251. PubMed

Shi J, Chatterjee N, Rotunno M, Wang Y, Pesatori AC, et al. (2012) Inherited variation at chromosome 12p13.33, including RAD52, influences the risk of squamous cell lung carcinoma. Cancer Discov 2: 131–139. 10.1158/2159-8290.CD-11-0246 PubMed DOI PMC

Timofeeva MN, Hung RJ, Rafnar T, Christiani DC, Field JK, et al. (2012) Influence of common genetic variation on lung cancer risk: meta-analysis of 14 900 cases and 29 485 controls. Hum Mol Genet 21: 4980–4995. 10.1093/hmg/dds334 PubMed DOI PMC

Yan W, Wistuba II, Emmert-Buck MR, Erickson HS (2011) Squamous Cell Carcinoma—Similarities and Differences among Anatomical Sites. Am J Cancer Res 1: 275–300. PubMed PMC

Anantharaman D, Chabrier A, Gaborieau V, Franceschi S, Herrero R, et al. (2014) Genetic variants in nicotine addiction and alcohol metabolism genes, oral cancer risk and the propensity to smoke and drink alcohol: a replication study in India. PLoS One 9: e88240 10.1371/journal.pone.0088240 PubMed DOI PMC

Oze I, Matsuo K, Hosono S, Ito H, Kawase T, et al. (2010) Comparison between self-reported facial flushing after alcohol consumption and ALDH2 Glu504Lys polymorphism for risk of upper aerodigestive tract cancer in a Japanese population. Cancer Sci 101: 1875–1880. 10.1111/j.1349-7006.2010.01599.x PubMed DOI PMC

Ng PC, Henikoff S (2003) SIFT: Predicting amino acid changes that affect protein function. Nucleic Acids Res 31: 3812–3814. PubMed PMC

Adzhubei IA, Schmidt S, Peshkin L, Ramensky VE, Gerasimova A, et al. (2010) A method and server for predicting damaging missense mutations. Nat Methods 7: 248–249. 10.1038/nmeth0410-248 PubMed DOI PMC

Flicek P, Ahmed I, Amode MR, Barrell D, Beal K, et al. (2013) Ensembl 2013. Nucleic Acids Res 41: D48–55. 10.1093/nar/gks1236 PubMed DOI PMC

Du P, Zhang X, Huang CC, Jafari N, Kibbe WA, et al. (2010) Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis. BMC Bioinformatics (11): 587. PubMed PMC

Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, et al. (2006) Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 38: 904–909. PubMed

Yu K, Wang Z, Li Q, Wacholder S, Hunter DJ, et al. (2008) Population substructure and control selection in genome-wide association studies. PLoS One 3: e2551 10.1371/journal.pone.0002551 PubMed DOI PMC

Li Q, Seo JH, Stranger B, McKenna A, Pe'er I, et al. (2013) Integrative eQTL-based analyses reveal the biology of breast cancer risk loci. Cell 152: 633–641. 10.1016/j.cell.2012.12.034 PubMed DOI PMC

Stranger BE, Forrest MS, Dunning M, Ingle CE, Beazley C, et al. (2007) Relative impact of nucleotide and copy number variation on gene expression phenotypes. Science 315: 848–853. PubMed PMC

Portela A, Esteller M (2010) Epigenetic modifications and human disease. Nat Biotechnol 28: 1057–1068. 10.1038/nbt.1685 PubMed DOI

Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945–959. PubMed PMC

Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, et al. (2007) A second generation human haplotype map of over 3.1 million SNPs. Nature 449: 851–861. PubMed PMC

Beroukhim R, Getz G, Nghiemphu L, Barretina J, Hsueh T, et al. (2007) Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proc Natl Acad Sci U S A 104: 20007–20012. PubMed PMC

Mermel CH, Schumacher SE, Hill B, Meyerson ML, Beroukhim R, et al. (2011) GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers. Genome Biol 12: R41 10.1186/gb-2011-12-4-r41 PubMed DOI PMC

Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 5: 621–628. 10.1038/nmeth.1226 PubMed DOI

Robinson MD, Oshlack A (2010) A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biol 11: R25 10.1186/gb-2010-11-3-r25 PubMed DOI PMC

Robinson MD, McCarthy DJ, Smyth GK (2010) edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26: 139–140. 10.1093/bioinformatics/btp616 PubMed DOI PMC

Smyth G (2005) Bioinformatics and Computational Biology Solutions Using R and Bioconductor. In: R Gentleman VC, W. Huber, R. Irizarry, S. Dudoit editor. pp. 397–420.

Symington LS (2002) Role of RAD52 epistasis group genes in homologous recombination and double-strand break repair. Microbiol Mol Biol Rev 66: 630–670, table of contents. PubMed PMC

Lok BH, Powell SN (2012) Molecular pathways: understanding the role of Rad52 in homologous recombination for therapeutic advancement. Clin Cancer Res 18: 6400–6406. 10.1158/1078-0432.CCR-11-3150 PubMed DOI PMC

Lok BH, Carley AC, Tchang B, Powell SN (2013) RAD52 inactivation is synthetically lethal with deficiencies in BRCA1 and PALB2 in addition to BRCA2 through RAD51-mediated homologous recombination. Oncogene 32: 3552–3558. 10.1038/onc.2012.391 PubMed DOI PMC

Feng Z, Scott SP, Bussen W, Sharma GG, Guo G, et al. (2011) Rad52 inactivation is synthetically lethal with BRCA2 deficiency. Proc Natl Acad Sci U S A 108: 686–691. 10.1073/pnas.1010959107 PubMed DOI PMC

Cramer-Morales K, Nieborowska-Skorska M, Scheibner K, Padget M, Irvine DA, et al. (2013) Personalized synthetic lethality induced by targeting RAD52 in leukemias identified by gene mutation and expression profile. Blood 122: 1293–1304. 10.1182/blood-2013-05-501072 PubMed DOI PMC

Wang Y, McKay JD, Rafnar T, Wang Z, Timofeeva MN, et al. (2014) Rare variants of large effect in BRCA2 and CHEK2 affect risk of lung cancer. Nat Genet 46: 736–741. 10.1038/ng.3002 PubMed DOI PMC

Delahaye-Sourdeix M, Anantharaman D, Timofeeva M, Gaborieau V, Chabrier A, et al. (2015) A rare truncating BRCA2 variant and genetic susceptibility to upper aerodigestive tract cancer. J Natl Cancer Inst. (in press) PubMed PMC

Najít záznam

Citační ukazatele

Nahrávání dat ...

Možnosti archivace

Nahrávání dat ...