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Variation in genomic landscape of clear cell renal cell carcinoma across Europe

Author

Listed:
  • Ghislaine Scelo

    (International Agency for Research on Cancer (IARC))

  • Yasser Riazalhosseini

    (McGill University, 1205 Dr Penfield Avenue, Montreal, Quebec, Canada H3A 1B1
    McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Liliana Greger

    (European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus)

  • Louis Letourneau

    (McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Mar Gonzàlez-Porta

    (European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus)

  • Magdalena B. Wozniak

    (International Agency for Research on Cancer (IARC))

  • Mathieu Bourgey

    (McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Patricia Harnden

    (Leeds Institute of Cancer and Pathology, University of Leeds, Cancer Research Building, St James’s University Hospital)

  • Lars Egevad

    (Karolinska Institutet)

  • Sharon M. Jackson

    (Leeds Institute of Cancer and Pathology, University of Leeds, Cancer Research Building, St James’s University Hospital)

  • Mehran Karimzadeh

    (McGill University, 1205 Dr Penfield Avenue, Montreal, Quebec, Canada H3A 1B1
    McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Madeleine Arseneault

    (McGill University, 1205 Dr Penfield Avenue, Montreal, Quebec, Canada H3A 1B1
    McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Pierre Lepage

    (McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Alexandre How-Kit

    (Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain)

  • Antoine Daunay

    (Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain)

  • Victor Renault

    (Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain)

  • Hélène Blanché

    (Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain)

  • Emmanuel Tubacher

    (Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain)

  • Jeremy Sehmoun

    (Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain)

  • Juris Viksna

    (Institute of Mathematics and Computer Science, University of Latvia)

  • Edgars Celms

    (Institute of Mathematics and Computer Science, University of Latvia)

  • Martins Opmanis

    (Institute of Mathematics and Computer Science, University of Latvia)

  • Andris Zarins

    (Institute of Mathematics and Computer Science, University of Latvia)

  • Naveen S. Vasudev

    (Leeds Institute of Cancer and Pathology, University of Leeds, Cancer Research Building, St James’s University Hospital)

  • Morag Seywright

    (The Beatson Institute for Cancer Research)

  • Behnoush Abedi-Ardekani

    (International Agency for Research on Cancer (IARC))

  • Christine Carreira

    (International Agency for Research on Cancer (IARC))

  • Peter J. Selby

    (Leeds Institute of Cancer and Pathology, University of Leeds, Cancer Research Building, St James’s University Hospital)

  • Jon J. Cartledge

    (Leeds Teaching Hospitals NHS Trust, Lincoln Wing, St James’s University Hospital)

  • Graham Byrnes

    (International Agency for Research on Cancer (IARC))

  • Jiri Zavadil

    (International Agency for Research on Cancer (IARC))

  • Jing Su

    (European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus)

  • Ivana Holcatova

    (First Faculty of Medicine, Institute of Hygiene and Epidemiology, Charles University in Prague)

  • Antonin Brisuda

    (University Hospital Motol)

  • David Zaridze

    (Russian N.N. Blokhin Cancer Research Centre)

  • Anush Moukeria

    (Russian N.N. Blokhin Cancer Research Centre)

  • Lenka Foretova

    (Masaryk Memorial Cancer Institute and MF MU)

  • Marie Navratilova

    (Masaryk Memorial Cancer Institute and MF MU)

  • Dana Mates

    (National Institute of Public Health)

  • Viorel Jinga

    (Carol Davila University of Medicine and Pharmacy, Th. Burghele Hospital)

  • Artem Artemov

    (Centre ‘Bioengineering’, The Russian Academy of Sciences)

  • Artem Nedoluzhko

    (National Research Centre ‘Kurchatov Institute’)

  • Alexander Mazur

    (Centre ‘Bioengineering’, The Russian Academy of Sciences)

  • Sergey Rastorguev

    (National Research Centre ‘Kurchatov Institute’)

  • Eugenia Boulygina

    (National Research Centre ‘Kurchatov Institute’)

  • Simon Heath

    (Centro Nacional de Análisis Genómico)

  • Marta Gut

    (Centro Nacional de Análisis Genómico)

  • Marie-Therese Bihoreau

    (Centre National de Génotypage, CEA - Institute de Génomique)

  • Doris Lechner

    (Centre National de Génotypage, CEA - Institute de Génomique)

  • Mario Foglio

    (Centre National de Génotypage, CEA - Institute de Génomique)

  • Ivo G. Gut

    (Centro Nacional de Análisis Genómico)

  • Konstantin Skryabin

    (Centre ‘Bioengineering’, The Russian Academy of Sciences
    National Research Centre ‘Kurchatov Institute’)

  • Egor Prokhortchouk

    (Centre ‘Bioengineering’, The Russian Academy of Sciences
    National Research Centre ‘Kurchatov Institute’)

  • Anne Cambon-Thomsen

    (Faculty of Medicine, Institut National de la Santé et de la Recherche Medicale (INSERM) and University Toulouse III-Paul Sabatier, UMR 1027)

  • Johan Rung

    (European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus)

  • Guillaume Bourque

    (McGill University, 1205 Dr Penfield Avenue, Montreal, Quebec, Canada H3A 1B1
    McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

  • Paul Brennan

    (International Agency for Research on Cancer (IARC))

  • Jörg Tost

    (Centre National de Génotypage, CEA - Institute de Génomique)

  • Rosamonde E. Banks

    (Leeds Institute of Cancer and Pathology, University of Leeds, Cancer Research Building, St James’s University Hospital)

  • Alvis Brazma

    (European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus)

  • G. Mark Lathrop

    (McGill University, 1205 Dr Penfield Avenue, Montreal, Quebec, Canada H3A 1B1
    Fondation Jean Dausset - Centre d'Etude du Polymorphisme Humain
    Centre National de Génotypage, CEA - Institute de Génomique
    Present address: McGill University and Genome Quebec Innovation Centre, 740 Doctor Penfield Avenue, Montreal, Quebec, Canada H3A 0G1)

Abstract

The incidence of renal cell carcinoma (RCC) is increasing worldwide, and its prevalence is particularly high in some parts of Central Europe. Here we undertake whole-genome and transcriptome sequencing of clear cell RCC (ccRCC), the most common form of the disease, in patients from four different European countries with contrasting disease incidence to explore the underlying genomic architecture of RCC. Our findings support previous reports on frequent aberrations in the epigenetic machinery and PI3K/mTOR signalling, and uncover novel pathways and genes affected by recurrent mutations and abnormal transcriptome patterns including focal adhesion, components of extracellular matrix (ECM) and genes encoding FAT cadherins. Furthermore, a large majority of patients from Romania have an unexpected high frequency of A:T>T:A transversions, consistent with exposure to aristolochic acid (AA). These results show that the processes underlying ccRCC tumorigenesis may vary in different populations and suggest that AA may be an important ccRCC carcinogen in Romania, a finding with major public health implications.

Suggested Citation

  • Ghislaine Scelo & Yasser Riazalhosseini & Liliana Greger & Louis Letourneau & Mar Gonzàlez-Porta & Magdalena B. Wozniak & Mathieu Bourgey & Patricia Harnden & Lars Egevad & Sharon M. Jackson & Mehran , 2014. "Variation in genomic landscape of clear cell renal cell carcinoma across Europe," Nature Communications, Nature, vol. 5(1), pages 1-13, December.
    • Handle: RePEc:nat:natcom:v:5:y:2014:i:1:d:10.1038_ncomms6135
    DOI: 10.1038/ncomms6135
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    Citations

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    Cited by:

    1. Hailiang Zhang & Lin Bai & Xin-Qiang Wu & Xi Tian & Jinwen Feng & Xiaohui Wu & Guo-Hai Shi & Xiaoru Pei & Jiacheng Lyu & Guojian Yang & Yang Liu & Wenhao Xu & Aihetaimujiang Anwaier & Yu Zhu & Da-Long, 2023. "Proteogenomics of clear cell renal cell carcinoma response to tyrosine kinase inhibitor," Nature Communications, Nature, vol. 14(1), pages 1-21, December.
    2. Yuanyuan Qu & Jinwen Feng & Xiaohui Wu & Lin Bai & Wenhao Xu & Lingli Zhu & Yang Liu & Fujiang Xu & Xuan Zhang & Guojian Yang & Jiacheng Lv & Xiuping Chen & Guo-Hai Shi & Hong-Kai Wang & Da-Long Cao &, 2022. "A proteogenomic analysis of clear cell renal cell carcinoma in a Chinese population," Nature Communications, Nature, vol. 13(1), pages 1-21, December.
    3. Kakushadze, Zura & Yu, Willie, 2016. "Factor models for cancer signatures," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 462(C), pages 527-559.
    4. Yige Wu & Nadezhda V. Terekhanova & Wagma Caravan & Nataly Naser Al Deen & Preet Lal & Siqi Chen & Chia-Kuei Mo & Song Cao & Yize Li & Alla Karpova & Ruiyang Liu & Yanyan Zhao & Andrew Shinkle & Ilya , 2023. "Epigenetic and transcriptomic characterization reveals progression markers and essential pathways in clear cell renal cell carcinoma," Nature Communications, Nature, vol. 14(1), pages 1-25, December.
    5. Akihiko Fukagawa & Natsuko Hama & Yasushi Totoki & Hiromi Nakamura & Yasuhito Arai & Mihoko Saito-Adachi & Akiko Maeshima & Yoshiyuki Matsui & Shinichi Yachida & Tetsuo Ushiku & Tatsuhiro Shibata, 2023. "Genomic and epigenomic integrative subtypes of renal cell carcinoma in a Japanese cohort," Nature Communications, Nature, vol. 14(1), pages 1-15, December.

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