Germline mutations affecting the proofreading domains of POLE and POLD1 predispose to colorectal adenomas and carcinomas.

Abstract:

:Many individuals with multiple or large colorectal adenomas or early-onset colorectal cancer (CRC) have no detectable germline mutations in the known cancer predisposition genes. Using whole-genome sequencing, supplemented by linkage and association analysis, we identified specific heterozygous POLE or POLD1 germline variants in several multiple-adenoma and/or CRC cases but in no controls. The variants associated with susceptibility, POLE p.Leu424Val and POLD1 p.Ser478Asn, have high penetrance, and POLD1 mutation was also associated with endometrial cancer predisposition. The mutations map to equivalent sites in the proofreading (exonuclease) domain of DNA polymerases ɛ and δ and are predicted to cause a defect in the correction of mispaired bases inserted during DNA replication. In agreement with this prediction, the tumors from mutation carriers were microsatellite stable but tended to acquire base substitution mutations, as confirmed by yeast functional assays. Further analysis of published data showed that the recently described group of hypermutant, microsatellite-stable CRCs is likely to be caused by somatic POLE mutations affecting the exonuclease domain.

journal_name

Nat Genet

journal_title

Nature genetics

authors

Palles C,Cazier JB,Howarth KM,Domingo E,Jones AM,Broderick P,Kemp Z,Spain SL,Guarino E,Salguero I,Sherborne A,Chubb D,Carvajal-Carmona LG,Ma Y,Kaur K,Dobbins S,Barclay E,Gorman M,Martin L,Kovac MB,Humphray S,COR

doi

10.1038/ng.2503

subject

Has Abstract

pub_date

2013-02-01 00:00:00

pages

136-44

issue

2

eissn

1061-4036

issn

1546-1718

pii

ng.2503

journal_volume

45

pub_type

杂志文章
  • An oncogenic MYB feedback loop drives alternate cell fates in adenoid cystic carcinoma.

    abstract::Translocation events are frequent in cancer and may create chimeric fusions or 'regulatory rearrangements' that drive oncogene overexpression. Here we identify super-enhancer translocations that drive overexpression of the oncogenic transcription factor MYB as a recurrent theme in adenoid cystic carcinoma (ACC). Whole...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3502

    authors: Drier Y,Cotton MJ,Williamson KE,Gillespie SM,Ryan RJ,Kluk MJ,Carey CD,Rodig SJ,Sholl LM,Afrogheh AH,Faquin WC,Queimado L,Qi J,Wick MJ,El-Naggar AK,Bradner JE,Moskaluk CA,Aster JC,Knoechel B,Bernstein BE

    更新日期:2016-03-01 00:00:00

  • Transcriptome analysis of the acoelomate human parasite Schistosoma mansoni.

    abstract::Schistosoma mansoni is the primary causative agent of schistosomiasis, which affects 200 million individuals in 74 countries. We generated 163,000 expressed-sequence tags (ESTs) from normalized cDNA libraries from six selected developmental stages of the parasite, resulting in 31,000 assembled sequences and 92% sampli...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1237

    authors: Verjovski-Almeida S,DeMarco R,Martins EA,Guimarães PE,Ojopi EP,Paquola AC,Piazza JP,Nishiyama MY Jr,Kitajima JP,Adamson RE,Ashton PD,Bonaldo MF,Coulson PS,Dillon GP,Farias LP,Gregorio SP,Ho PL,Leite RA,Malaquias LC,

    更新日期:2003-10-01 00:00:00

  • A rare nonsynonymous sequence variant in C3 is associated with high risk of age-related macular degeneration.

    abstract::Through whole-genome sequencing of 2,230 Icelanders, we detected a rare nonsynonymous SNP (minor allele frequency = 0.55%) in the C3 gene encoding a p.Lys155Gln substitution in complement factor 3, which, following imputation into a set of Icelandic cases with age-related macular degeneration (AMD) and controls, assoc...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.2740

    authors: Helgason H,Sulem P,Duvvari MR,Luo H,Thorleifsson G,Stefansson H,Jonsdottir I,Masson G,Gudbjartsson DF,Walters GB,Magnusson OT,Kong A,Rafnar T,Kiemeney LA,Schoenmaker-Koller FE,Zhao L,Boon CJ,Song Y,Fauser S,Pei M,

    更新日期:2013-11-01 00:00:00

  • Polycomb repressive complex PRC1 spatially constrains the mouse embryonic stem cell genome.

    abstract::The Polycomb repressive complexes PRC1 and PRC2 maintain embryonic stem cell (ESC) pluripotency by silencing lineage-specifying developmental regulator genes. Emerging evidence suggests that Polycomb complexes act through controlling spatial genome organization. We show that PRC1 functions as a master regulator of mou...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3393

    authors: Schoenfelder S,Sugar R,Dimond A,Javierre BM,Armstrong H,Mifsud B,Dimitrova E,Matheson L,Tavares-Cadete F,Furlan-Magaril M,Segonds-Pichon A,Jurkowski W,Wingett SW,Tabbada K,Andrews S,Herman B,LeProust E,Osborne CS,Kose

    更新日期:2015-10-01 00:00:00

  • Meta-analysis of gene-level tests for rare variant association.

    abstract::The majority of reported complex disease associations for common genetic variants have been identified through meta-analysis, a powerful approach that enables the use of large sample sizes while protecting against common artifacts due to population structure and repeated small-sample analyses sharing individual-level ...

    journal_title:Nature genetics

    pub_type: 杂志文章,meta分析

    doi:10.1038/ng.2852

    authors: Liu DJ,Peloso GM,Zhan X,Holmen OL,Zawistowski M,Feng S,Nikpay M,Auer PL,Goel A,Zhang H,Peters U,Farrall M,Orho-Melander M,Kooperberg C,McPherson R,Watkins H,Willer CJ,Hveem K,Melander O,Kathiresan S,Abecasis GR

    更新日期:2014-02-01 00:00:00

  • A major quantitative trait locus influences hyperactivity in the WKHA rat.

    abstract::The syndrome of hyperactivity describes behavioural disorders existing mainly in children and characterized by increased levels of motor activity, inattention and impulsivity. Overall the aetiology is poorly understood due to the heterogeneity of the pathology although psychological, biological and social factors acti...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1296-471

    authors: Moisan MP,Courvoisier H,Bihoreau MT,Gauguier D,Hendley ED,Lathrop M,James MR,Mormède P

    更新日期:1996-12-01 00:00:00

  • No evidence of clonal somatic genetic alterations in cancer-associated fibroblasts from human breast and ovarian carcinomas.

    abstract::There is increasing evidence showing that the stromal cells surrounding cancer epithelial cells, rather than being passive bystanders, might have a role in modifying tumor outgrowth. The molecular basis of this aspect of carcinoma etiology is controversial. Some studies have reported a high frequency of genetic aberra...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.117

    authors: Qiu W,Hu M,Sridhar A,Opeskin K,Fox S,Shipitsin M,Trivett M,Thompson ER,Ramakrishna M,Gorringe KL,Polyak K,Haviv I,Campbell IG

    更新日期:2008-05-01 00:00:00

  • Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.

    abstract::To further understanding of the genetic basis of type 2 diabetes (T2D) susceptibility, we aggregated published meta-analyses of genome-wide association studies (GWAS), including 26,488 cases and 83,964 controls of European, east Asian, south Asian and Mexican and Mexican American ancestry. We observed a significant ex...

    journal_title:Nature genetics

    pub_type: 杂志文章,meta分析

    doi:10.1038/ng.2897

    authors: DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium.,Asian Genetic Epidemiology Network Type 2 Diabetes (AGEN-T2D) Consortium.,South Asian Type 2 Diabetes (SAT2D) Consortium.,Mexican American Type 2 Diabetes (MAT2D) Consortium.,

    更新日期:2014-03-01 00:00:00

  • Long-range chromatin regulatory interactions in vivo.

    abstract::Communication between distal chromosomal elements is essential for control of many nuclear processes. For example, genes in higher eukaryotes often require distant enhancer sequences for high-level expression. The mechanisms proposed for long-range enhancer action fall into two basic categories. Non-contact models pro...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1051

    authors: Carter D,Chakalova L,Osborne CS,Dai YF,Fraser P

    更新日期:2002-12-01 00:00:00

  • PRC1 proteins orchestrate three-dimensional genome architecture.

    abstract::The three-dimensional organization of the genome has an important role in orchestrating gene expression, but its regulation is poorly understood. Now, a new study uncovers a major role for Polycomb components of the PRC1 complex in organizing physical networks of genes that are co-repressed to maintain pluripotency. ...

    journal_title:Nature genetics

    pub_type: 评论,新闻

    doi:10.1038/ng.3411

    authors: Cavalli G

    更新日期:2015-10-01 00:00:00

  • Genome-wide association study identifies five loci associated with susceptibility to pancreatic cancer in Chinese populations.

    abstract::Pancreatic cancer has the lowest survival rate among human cancers, and there are no effective markers for its screening and early diagnosis. To identify genetic susceptibility markers for this cancer, we carried out a genome-wide association study on 981 individuals with pancreatic cancer (cases) and 1,991 cancer-fre...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.1020

    authors: Wu C,Miao X,Huang L,Che X,Jiang G,Yu D,Yang X,Cao G,Hu Z,Zhou Y,Zuo C,Wang C,Zhang X,Zhou Y,Yu X,Dai W,Li Z,Shen H,Liu L,Chen Y,Zhang S,Wang X,Zhai K,Chang J,Liu Y,Sun M,Cao W,Gao J,Ma Y,Zheng X

    更新日期:2011-12-11 00:00:00

  • Mammalian ultraconserved elements are strongly depleted among segmental duplications and copy number variants.

    abstract::An earlier search in the human, mouse and rat genomes for sequences that are 100% conserved in orthologous segments and > or = 200 bp in length identified 481 distinct sequences. These human-mouse-rat sequences, which represent ultraconserved elements (UCEs), are believed to be important for functions involving DNA bi...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1888

    authors: Derti A,Roth FP,Church GM,Wu CT

    更新日期:2006-10-01 00:00:00

  • An inducible long noncoding RNA amplifies DNA damage signaling.

    abstract::Long noncoding RNAs (lncRNAs) are prevalent genes with frequently precise regulation but mostly unknown functions. Here we demonstrate that lncRNAs guide the organismal DNA damage response. DNA damage activated transcription of the DINO (Damage Induced Noncoding) lncRNA via p53. DINO was required for p53-dependent gen...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3673

    authors: Schmitt AM,Garcia JT,Hung T,Flynn RA,Shen Y,Qu K,Payumo AY,Peres-da-Silva A,Broz DK,Baum R,Guo S,Chen JK,Attardi LD,Chang HY

    更新日期:2016-11-01 00:00:00

  • Promoter bivalency favors an open chromatin architecture in embryonic stem cells.

    abstract::In embryonic stem cells (ESCs), developmental gene promoters are characterized by their bivalent chromatin state, with simultaneous modification by MLL2 and Polycomb complexes. Although essential for embryogenesis, bivalency is functionally not well understood. Here, we show that MLL2 plays a central role in ESC genom...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/s41588-018-0218-5

    authors: Mas G,Blanco E,Ballaré C,Sansó M,Spill YG,Hu D,Aoi Y,Le Dily F,Shilatifard A,Marti-Renom MA,Di Croce L

    更新日期:2018-10-01 00:00:00

  • A component of the transcriptional repressor MeCP1 shares a motif with DNA methyltransferase and HRX proteins.

    abstract::Methylation of cytosines within the sequence CpG is essential for mouse development and has been linked to transcriptional suppression in vertebrate systems. Methyl-CpG binding proteins (MeCPs) 1 and 2 bind preferentially to methylated DNA and can inhibit transcription. The gene for MeCP2 has been cloned and a methyl-...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0797-256

    authors: Cross SH,Meehan RR,Nan X,Bird A

    更新日期:1997-07-01 00:00:00

  • RAF1 mutations in childhood-onset dilated cardiomyopathy.

    abstract::Dilated cardiomyopathy (DCM) is a highly heterogeneous trait with sarcomeric gene mutations predominating. The cause of a substantial percentage of DCMs remains unknown, and no gene-specific therapy is available. On the basis of resequencing of 513 DCM cases and 1,150 matched controls from various cohorts of distinct ...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.2963

    authors: Dhandapany PS,Razzaque MA,Muthusami U,Kunnoth S,Edwards JJ,Mulero-Navarro S,Riess I,Pardo S,Sheng J,Rani DS,Rani B,Govindaraj P,Flex E,Yokota T,Furutani M,Nishizawa T,Nakanishi T,Robbins J,Limongelli G,Hajjar RJ,L

    更新日期:2014-06-01 00:00:00

  • A point mutation in the FMR-1 gene associated with fragile X mental retardation.

    abstract::The vast majority of patients with fragile X syndrome show a folate-sensitive fragile site at Xq27.3 (FRAXA) at the cytogenetic level, and both amplification of the (CGG)n repeat and hypermethylation of the CpG island in the 5' fragile X gene (FMR-1) at the molecular level. We have studied the FMR-1 gene of a patient ...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0193-31

    authors: De Boulle K,Verkerk AJ,Reyniers E,Vits L,Hendrickx J,Van Roy B,Van den Bos F,de Graaff E,Oostra BA,Willems PJ

    更新日期:1993-01-01 00:00:00

  • Mutations in IRF6 cause Van der Woude and popliteal pterygium syndromes.

    abstract::Interferon regulatory factor 6 (IRF6) belongs to a family of nine transcription factors that share a highly conserved helix-turn-helix DNA-binding domain and a less conserved protein-binding domain. Most IRFs regulate the expression of interferon-alpha and -beta after viral infection, but the function of IRF6 is unkno...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng985

    authors: Kondo S,Schutte BC,Richardson RJ,Bjork BC,Knight AS,Watanabe Y,Howard E,de Lima RL,Daack-Hirsch S,Sander A,McDonald-McGinn DM,Zackai EH,Lammer EJ,Aylsworth AS,Ardinger HH,Lidral AC,Pober BR,Moreno L,Arcos-Burgos M,V

    更新日期:2002-10-01 00:00:00

  • A high observed substitution rate in the human mitochondrial DNA control region.

    abstract::The rate and pattern of sequence substitutions in the mitochondrial DNA (mtDNA) control region (CR) is of central importance to studies of human evolution and to forensic identity testing. Here, we report a direct measurement of the intergenerational substitution rate in the human CR. We compared DNA sequences of two ...

    journal_title:Nature genetics

    pub_type: 杂志文章,多中心研究

    doi:10.1038/ng0497-363

    authors: Parsons TJ,Muniec DS,Sullivan K,Woodyatt N,Alliston-Greiner R,Wilson MR,Berry DL,Holland KA,Weedn VW,Gill P,Holland MM

    更新日期:1997-04-01 00:00:00

  • Mutation of ALMS1, a large gene with a tandem repeat encoding 47 amino acids, causes Alström syndrome.

    abstract::Alström syndrome (OMIM 203800) is an autosomal recessive disease, characterized by cone-rod retinal dystrophy, cardiomyopathy and type 2 diabetes mellitus, that has been mapped to chromosome 2p13 (refs 1-5). We have studied an individual with Alström syndrome carrying a familial balanced reciprocal chromosome transloc...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng874

    authors: Hearn T,Renforth GL,Spalluto C,Hanley NA,Piper K,Brickwood S,White C,Connolly V,Taylor JF,Russell-Eggitt I,Bonneau D,Walker M,Wilson DI

    更新日期:2002-05-01 00:00:00

  • The glial cells missing-1 protein is essential for branching morphogenesis in the chorioallantoic placenta.

    abstract::Trophoblast cells of the placenta are established at the blastocyst stage and differentiate into specialized subtypes after implantation. In mice, the outer layer of the placenta consists of trophoblast giant cells that invade the uterus and promote maternal blood flow to the implantation site by producing cytokines w...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/77076

    authors: Anson-Cartwright L,Dawson K,Holmyard D,Fisher SJ,Lazzarini RA,Cross JC

    更新日期:2000-07-01 00:00:00

  • Another piece of the autism puzzle.

    abstract::A new study has identified rare de novo mutations in SHANK2 in individuals with autism and/or mental retardation. SHANK2 encodes a scaffolding protein present in excitatory synapses. This finding sheds some light on the pathophysiology of social and cognitive disability. ...

    journal_title:Nature genetics

    pub_type: 评论,新闻

    doi:10.1038/ng0610-478

    authors: State MW

    更新日期:2010-06-01 00:00:00

  • Unstable expansion of CAG repeat in hereditary dentatorubral-pallidoluysian atrophy (DRPLA).

    abstract::Hereditary dentatorubral-pallidoluysian atrophy (DRPLA) is an autosomal dominant neurologic disorder characterized by variable combinations of myoclonus, epilepsy, cerebellar ataxia, choreoathetosis and dementia. By specifically searching published brain cDNA sequences for the presence of CAG repeats we identified uns...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0194-9

    authors: Koide R,Ikeuchi T,Onodera O,Tanaka H,Igarashi S,Endo K,Takahashi H,Kondo R,Ishikawa A,Hayashi T

    更新日期:1994-01-01 00:00:00

  • Cretinism with combined hormone deficiency caused by a mutation in the PIT1 gene.

    abstract::Cretinism is marked by irreversible mental and growth retardation. We describe here an entirely new case of cretinism showing combined pituitary hormone deficiencies of thyrotropin, growth hormone and prolactin that appears to be caused by homozygosity for a nonsense mutation in the gene for the pituitary specific tra...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0492-56

    authors: Tatsumi K,Miyai K,Notomi T,Kaibe K,Amino N,Mizuno Y,Kohno H

    更新日期:1992-04-01 00:00:00

  • Hyperactivation of HUSH complex function by Charcot-Marie-Tooth disease mutation in MORC2.

    abstract::Dominant mutations in the MORC2 gene have recently been shown to cause axonal Charcot-Marie-Tooth (CMT) disease, but the cellular function of MORC2 is poorly understood. Here, through a genome-wide CRISPR-Cas9-mediated forward genetic screen, we identified MORC2 as an essential gene required for epigenetic silencing b...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3878

    authors: Tchasovnikarova IA,Timms RT,Douse CH,Roberts RC,Dougan G,Kingston RE,Modis Y,Lehner PJ

    更新日期:2017-07-01 00:00:00

  • Identification of genes involved in Drosophila melanogaster geotaxis, a complex behavioral trait.

    abstract::Identifying the genes involved in polygenic traits has been difficult. In the 1950s and 1960s, laboratory selection experiments for extreme geotaxic behavior in fruit flies established for the first time that a complex behavioral trait has a genetic basis. But the specific genes responsible for the behavior have never...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng893

    authors: Toma DP,White KP,Hirsch J,Greenspan RJ

    更新日期:2002-08-01 00:00:00

  • Closing gaps in the human genome with fosmid resources generated from multiple individuals.

    abstract::The human genome sequence has been finished to very high standards; however, more than 340 gaps remained when the finished genome was published by the International Human Genome Sequencing Consortium in 2004. Using fosmid resources generated from multiple individuals, we targeted gaps in the euchromatic part of the hu...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.2007.34

    authors: Bovee D,Zhou Y,Haugen E,Wu Z,Hayden HS,Gillett W,Tuzun E,Cooper GM,Sampas N,Phelps K,Levy R,Morrison VA,Sprague J,Jewett D,Buckley D,Subramaniam S,Chang J,Smith DR,Olson MV,Eichler EE,Kaul R

    更新日期:2008-01-01 00:00:00

  • LD Score regression distinguishes confounding from polygenicity in genome-wide association studies.

    abstract::Both polygenicity (many small genetic effects) and confounding biases, such as cryptic relatedness and population stratification, can yield an inflated distribution of test statistics in genome-wide association studies (GWAS). However, current methods cannot distinguish between inflation from a true polygenic signal a...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3211

    authors: Bulik-Sullivan BK,Loh PR,Finucane HK,Ripke S,Yang J,Schizophrenia Working Group of the Psychiatric Genomics Consortium.,Patterson N,Daly MJ,Price AL,Neale BM

    更新日期:2015-03-01 00:00:00

  • The fecal metabolome as a functional readout of the gut microbiome.

    abstract::The human gut microbiome plays a key role in human health 1 , but 16S characterization lacks quantitative functional annotation 2 . The fecal metabolome provides a functional readout of microbial activity and can be used as an intermediate phenotype mediating host-microbiome interactions 3 . In this comprehensive desc...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/s41588-018-0135-7

    authors: Zierer J,Jackson MA,Kastenmüller G,Mangino M,Long T,Telenti A,Mohney RP,Small KS,Bell JT,Steves CJ,Valdes AM,Spector TD,Menni C

    更新日期:2018-06-01 00:00:00

  • Publisher Correction: Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity.

    abstract::In the version of this article originally published, one of the two authors with the name Wei Zhao was omitted from the author list and the affiliations for both authors were assigned to the single Wei Zhao in the author list. In addition, the ORCID for Wei Zhao (Department of Biostatistics and Epidemiology, Perelman ...

    journal_title:Nature genetics

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/s41588-018-0082-3

    authors: Turcot V,Lu Y,Highland HM,Schurmann C,Justice AE,Fine RS,Bradfield JP,Esko T,Giri A,Graff M,Guo X,Hendricks AE,Karaderi T,Lempradl A,Locke AE,Mahajan A,Marouli E,Sivapalaratnam S,Young KL,Alfred T,Feitosa MF,Mas

    更新日期:2018-05-01 00:00:00