The transcriptional landscape of Shh medulloblastoma.


Journal

Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555

Informations de publication

Date de publication:
19 03 2021
Historique:
received: 14 05 2020
accepted: 26 01 2021
entrez: 20 3 2021
pubmed: 21 3 2021
medline: 7 4 2021
Statut: epublish

Résumé

Sonic hedgehog medulloblastoma encompasses a clinically and molecularly diverse group of cancers of the developing central nervous system. Here, we use unbiased sequencing of the transcriptome across a large cohort of 250 tumors to reveal differences among molecular subtypes of the disease, and demonstrate the previously unappreciated importance of non-coding RNA transcripts. We identify alterations within the cAMP dependent pathway (GNAS, PRKAR1A) which converge on GLI2 activity and show that 18% of tumors have a genetic event that directly targets the abundance and/or stability of MYCN. Furthermore, we discover an extensive network of fusions in focally amplified regions encompassing GLI2, and several loss-of-function fusions in tumor suppressor genes PTCH1, SUFU and NCOR1. Molecular convergence on a subset of genes by nucleotide variants, copy number aberrations, and gene fusions highlight the key roles of specific pathways in the pathogenesis of Sonic hedgehog medulloblastoma and open up opportunities for therapeutic intervention.

Identifiants

pubmed: 33741928
doi: 10.1038/s41467-021-21883-0
pii: 10.1038/s41467-021-21883-0
pmc: PMC7979819
doi:

Substances chimiques

Hedgehog Proteins 0
SHH protein, human 0

Types de publication

Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

1749

Subventions

Organisme : NCI NIH HHS
ID : R01 CA235162
Pays : United States
Organisme : NCI NIH HHS
ID : T32 CA151022
Pays : United States
Organisme : NIGMS NIH HHS
ID : P41 GM103504
Pays : United States
Organisme : NCI NIH HHS
ID : P50 CA097257
Pays : United States
Organisme : NCI NIH HHS
ID : P30 CA014236
Pays : United States
Organisme : CCR NIH HHS
ID : HHSN261200800001C
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM007618
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM141323
Pays : United States
Organisme : NINDS NIH HHS
ID : R01 NS106155
Pays : United States
Organisme : NCI NIH HHS
ID : R01 CA159859
Pays : United States
Organisme : NCI NIH HHS
ID : P30 CA015083
Pays : United States
Organisme : NCI NIH HHS
ID : P50 CA211015
Pays : United States
Organisme : NCI NIH HHS
ID : R01 CA148699
Pays : United States
Organisme : NHLBI NIH HHS
ID : HHSN268201000029C
Pays : United States
Organisme : Cancer Research UK
Pays : United Kingdom
Organisme : NCI NIH HHS
ID : HHSN261200800001E
Pays : United States

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Auteurs

Patryk Skowron (P)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Hamza Farooq (H)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Florence M G Cavalli (FMG)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

A Sorana Morrissy (AS)

Department of Biochemistry and Molecular Biology, Cumming School of Medicine, University of Calgary, Calgary, AB, Canada.
Alberta Children's Hospital Research Institute, Calgary, AB, Canada.
Charbonneau Cancer Institute, University of Calgary, Calgary, AB, Canada.

Michelle Ly (M)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Liam D Hendrikse (LD)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.

Evan Y Wang (EY)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.

Haig Djambazian (H)

McGill University Genome Centre, McGill University, Montreal, QC, Canada.
Department of Human Genetics, McGill University, Montreal, QC, Canada.

Helen Zhu (H)

Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.
Computational Biology Program, Ontario Institute for Cancer Research, Toronto, ON, Canada.

Karen L Mungall (KL)

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada.

Quang M Trinh (QM)

Computational Biology Program, Ontario Institute for Cancer Research, Toronto, ON, Canada.

Tina Zheng (T)

Department of Neurology, University of California San Francisco, San Francisco, CA, United States.

Shizhong Dai (S)

Department of Cellular and Molecular Pharmacology, University of California San Francisco, San Francisco, CA, United States.

Ana S Guerreiro Stucklin (ASG)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Maria C Vladoiu (MC)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Vernon Fong (V)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Borja L Holgado (BL)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Carolina Nor (C)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Xiaochong Wu (X)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Diala Abd-Rabbo (D)

Computational Biology Program, Ontario Institute for Cancer Research, Toronto, ON, Canada.

Pierre Bérubé (P)

McGill University Genome Centre, McGill University, Montreal, QC, Canada.

Yu Chang Wang (YC)

McGill University Genome Centre, McGill University, Montreal, QC, Canada.

Betty Luu (B)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Raul A Suarez (RA)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Avesta Rastan (A)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Institute of Medical Science, University of Toronto, Toronto, ON, Canada.

Aaron H Gillmor (AH)

Department of Biochemistry and Molecular Biology, Cumming School of Medicine, University of Calgary, Calgary, AB, Canada.
Alberta Children's Hospital Research Institute, Calgary, AB, Canada.
Charbonneau Cancer Institute, University of Calgary, Calgary, AB, Canada.

John J Y Lee (JJY)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Xiao Yun Zhang (XY)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.

Craig Daniels (C)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

Peter Dirks (P)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Division of Neurosurgery, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.

David Malkin (D)

Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.
Division of Haematology/Oncology, Department of Pediatrics, The Hospital for Sick Children, Toronto, ON, Canada.

Eric Bouffet (E)

The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Division of Haematology/Oncology, Department of Pediatrics, The Hospital for Sick Children, Toronto, ON, Canada.

Uri Tabori (U)

The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Institute of Medical Science, University of Toronto, Toronto, ON, Canada.
Division of Haematology/Oncology, Department of Pediatrics, The Hospital for Sick Children, Toronto, ON, Canada.

James Loukides (J)

The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.

François P Doz (FP)

SIREDO Center (pediatric, adolescent and young adults oncology), Institut Curie, University of Paris, Paris, France.

Franck Bourdeaut (F)

SIREDO Center (pediatric, adolescent and young adults oncology), Institut Curie, University of Paris, Paris, France.

Olivier O Delattre (OO)

INSERM U 830, Institut Curie, Paris, France.

Julien Masliah-Planchon (J)

Unit of Somatic Genetics, Institut Curie, Paris, France.

Olivier Ayrault (O)

PSL Research University, Université Paris Sud, Université Paris-Saclay, CNRS UMR 3347, INSERM U1021, Institut Curie, Paris, France.

Seung-Ki Kim (SK)

Department of Neurosurgery, Division of Pediatric Neurosurgery, Seoul National University Children's Hospital, Seoul, South Korea.

David Meyronet (D)

Hospices Civils de Lyon, Institute of Pathology, University Lyon 1, Department of Cancer Cell Plasticity-INSERM U1052 Cancer Research Center of Lyon, Lyon, France.

Wieslawa A Grajkowska (WA)

Department of Pathology, The Children's Memorial Health Institute, Warsaw, Poland.

Carlos G Carlotti (CG)

Department of Surgery and Anatomy, Faculty of Medicine of Ribeirão Preto, University of Sao Paulo, São Paulo, Brazil.

Carmen de Torres (C)

Developmental Tumor Biology Laboratory, Hospital Sant Joan de Déu, Esplugues de Llobregat, Barcelona, Spain.

Jaume Mora (J)

Developmental Tumor Biology Laboratory, Hospital Sant Joan de Déu, Esplugues de Llobregat, Barcelona, Spain.

Charles G Eberhart (CG)

Departments of Pathology, Ophthalmology and Oncology, John Hopkins University School of Medicine, Baltimore, MD, United States.

Erwin G Van Meir (EG)

Department of Hematology & Medical Oncology, School of Medicine and Winship Cancer Institute, Emory University, Atlanta, GA, United States.

Toshihiro Kumabe (T)

Department of Neurosurgery, Kitasato University School of Medicine, Sagamihara, Kanagawa, Japan.

Pim J French (PJ)

Department of Neurology, Erasmus University Medical Center, Rotterdam, Netherlands.

Johan M Kros (JM)

Department of Pathology, Erasmus University Medical Center, Rotterdam, Netherlands.

Nada Jabado (N)

Division of Experimental Medicine, McGill University, Montreal, QC, Canada.

Boleslaw Lach (B)

Department of Pathology and Molecular Medicine, Division of Anatomical Pathology, McMaster University, Hamilton, ON, Canada.
Department of Pathology and Laboratory Medicine, Hamilton General Hospital, Hamilton, ON, Canada.

Ian F Pollack (IF)

Department of Neurological Surgery, University of Pittsburgh School of Medicine, Pittsburgh, PA, United States.

Ronald L Hamilton (RL)

Department of Pathology, University of Pittsburgh School of Medicine, Pittsburgh, PA, United States.

Amulya A Nageswara Rao (AAN)

Division of Pediatric Hematology/Oncology, Mayo Clinic, Rochester, MN, United States.

Caterina Giannini (C)

Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, United States.

James M Olson (JM)

Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA, United States.

László Bognár (L)

Department of Neurosurgery, University of Debrecen, Medical and Health Science Centre, Debrecen, Hungary.

Almos Klekner (A)

Department of Neurosurgery, University of Debrecen, Medical and Health Science Centre, Debrecen, Hungary.

Karel Zitterbart (K)

Department of Pediatric Oncology, Masaryk University School of Medicine, Brno, Czech Republic.

Joanna J Phillips (JJ)

Department of Neurological Surgery, University of California San Francisco, San Francisco, CA, United States.
Department of Pathology, University of California San Francisco, San Francisco, CA, United States.

Reid C Thompson (RC)

Department of Neurological Surgery, Vanderbilt Medical Center, Nashville, TN, United States.

Michael K Cooper (MK)

Department of Neurology, Vanderbilt Medical Center, Nashville, TN, United States.

Joshua B Rubin (JB)

Departments of Neuroscience, Washington University School of Medicine in St. Louis, St. Louis, MO, United States.

Linda M Liau (LM)

Department of Neurosurgery, David Geffen School of Medicine at UCLA, Los Angeles, California, United States.

Miklós Garami (M)

2nd Department of Pediatrics, Semmelweis University, Budapest, Hungary.

Peter Hauser (P)

2nd Department of Pediatrics, Semmelweis University, Budapest, Hungary.

Kay Ka Wai Li (KKW)

Department of Anatomical and Cellular Pathology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong.

Ho-Keung Ng (HK)

Department of Anatomical and Cellular Pathology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong.

Wai Sang Poon (WS)

Department of Surgery, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong.

G Yancey Gillespie (G)

Department of Neurosurgery, University of Alabama at Birmingham, Birmingham, AL, United States.

Jennifer A Chan (JA)

Charbonneau Cancer Institute, University of Calgary, Calgary, AB, Canada.

Shin Jung (S)

Department of Neurosurgery, Chonnam National University Research Institute of Medical Sciences, Chonnam National University Hwasun Hospital and Medical School, Hwasun-gun, Jeollanam-do, South Korea.

Roger E McLendon (RE)

Department of Pathology, Duke University, Durham, NC, United States.
Department of Neurosurgery, Duke University, Durham, NC, United States.

Eric M Thompson (EM)

Department of Neurosurgery, Duke University, Durham, NC, United States.

David Zagzag (D)

Department of Pathology and Neurosurgery, NYU Grossman School of Medicine and NYU Langone Health, New York, NY, United States.

Rajeev Vibhakar (R)

Department of Pediatrics, University of Colorado Denver, Aurora, CO, United States.

Young Shin Ra (YS)

Department of Neurosurgery, University of Ulsan, Asan Medical Center, Seoul, South Korea.

Maria Luisa Garre (ML)

U.O. Neurochirurgia, Istituto Giannina Gaslini, Genova, Italy.

Ulrich Schüller (U)

Institute of Neuropathology, University Medical Center, Hamburg-Eppendorf, Germany.
Research Institute Children's Cancer Center, Hamburg, Germany.
Pediatric Hematology and Oncology, University Medical Center, Hamburg-Eppendorf, Germany.

Tomoko Shofuda (T)

Division of Stem Cell Research, Institute for Clinical Research, Osaka National Hospital, Osaka, Japan.

Claudia C Faria (CC)

Division of Neurosurgery, Centro Hospitalar Lisboa Norte (CHULN), Hospital de Santa Maria, Lisbon, Portugal.
Instituto de Medicina Molecular João Lobo Antunes, Faculdade de Medicina, Universidade de Lisboa, Lisbon, Portugal.

Enrique López-Aguilar (E)

Division of Pediatric Hematology/Oncology, Hospital Pediatría Centro Médico Nacional century XXI, Mexico City, Mexico.

Gelareh Zadeh (G)

Division of Neurosurgery, Toronto Western Hospital, University Health Network, Toronto, ON, Canada.
MacFeeters-Hamilton Center for Neuro-Oncology Research, Princess Margaret Cancer Centre, University Health Network, Toronto, ON, Canada.

Chi-Chung Hui (CC)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.

Vijay Ramaswamy (V)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada.
Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.
Division of Haematology/Oncology, Department of Pediatrics, The Hospital for Sick Children, Toronto, ON, Canada.

Swneke D Bailey (SD)

Department of Surgery, Division of Thoracic and Upper Gastrointestinal Surgery, Faculty of Medicine, McGill University, Montreal, QC, Canada.
Cancer Research Program, Research Institute of the McGill University Health Centre, Montreal, QC, Canada.

Steven J Jones (SJ)

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada.
Department of Medical Genetics, University of British Columbia, Vancouver, BC, Canada.
Department of Molecular Biology & Biochemistry, Simon Fraser University, Burnaby, BC, Canada.

Andrew J Mungall (AJ)

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada.

Richard A Moore (RA)

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada.

John A Calarco (JA)

Department of Cell & Systems Biology, University of Toronto, Toronto, ON, Canada.

Lincoln D Stein (LD)

Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.
Adaptive Oncology, Ontario Institute for Cancer Research, Toronto, ON, Canada.

Gary D Bader (GD)

Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.
The Donnelly Centre, University of Toronto, Toronto, ON, Canada.

Jüri Reimand (J)

Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.
Computational Biology Program, Ontario Institute for Cancer Research, Toronto, ON, Canada.
Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.

Jiannis Ragoussis (J)

McGill University Genome Centre, McGill University, Montreal, QC, Canada.
Department of Human Genetics, McGill University, Montreal, QC, Canada.

William A Weiss (WA)

Department of Neurology, University of California San Francisco, San Francisco, CA, United States.
Department of Neurological Surgery, University of California San Francisco, San Francisco, CA, United States.
Department of Pediatrics, University of California San Francisco, San Francisco, CA, United States.

Marco A Marra (MA)

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada.
Department of Medical Genetics, University of British Columbia, Vancouver, BC, Canada.

Hiromichi Suzuki (H)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada. hisuzuki-ngy@umin.ac.jp.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada. hisuzuki-ngy@umin.ac.jp.

Michael D Taylor (MD)

Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada. mdt.cns@gmail.com.
Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada. mdt.cns@gmail.com.
The Arthur and Sonia Labatt Brain Tumour Research Centre, The Hospital for Sick Children, Toronto, ON, Canada. mdt.cns@gmail.com.
Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada. mdt.cns@gmail.com.
Division of Neurosurgery, The Hospital for Sick Children, Toronto, ON, Canada. mdt.cns@gmail.com.
Department of Surgery, University of Toronto, Toronto, ON, Canada. mdt.cns@gmail.com.

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