The transcriptional landscape of Shh medulloblastoma


Por: Skowron P, Farooq H, Cavalli FMG, Morrissy AS, Ly M, Hendrikse LD, Wang EY, Djambazian H, Zhu H, Mungall KL, Trinh QM, Zheng T, Dai S, Stucklin ASG, Vladoiu MC, Fong V, Holgado BL, Nor C, Wu X, Abd-Rabbo D, Bérubé P, Wang YC, Luu B, Suarez RA, Rastan A, Gillmor AH, Lee JJY, Zhang XY, Daniels C, Dirks P, Malkin D, Bouffet E, Tabori U, Loukides J, Doz FP, Bourdeaut F, Delattre OO, Masliah-Planchon J, Ayrault O, Kim SK, Meyronet D, Grajkowska WA, Carlotti CG, de Torres C, Mora J, Eberhart CG, Van Meir EG, Kumabe T, French PJ, Kros JM, Jabado N, Lach B, Pollack IF, Hamilton RL, Rao AAN, Giannini C, Olson JM, Bognár L, Klekner A, Zitterbart K, Phillips JJ, Thompson RC, Cooper MK, Rubin JB, Liau LM, Garami M, Hauser P, Li KKW, Ng HK, Poon WS, Yancey Gillespie G, Chan JA, Jung S, McLendon RE, Thompson EM, Zagzag D, Vibhakar R, Ra YS, Garre ML, Schüller U, Shofuda T, Faria CC, López-Aguilar E, Zadeh G, Hui CC, Ramaswamy V, Bailey SD, Jones SJ, Mungall AJ, Moore RA, Calarco JA, Stein LD, Bader GD, Reimand J, Ragoussis J, Weiss WA, Marra MA, Suzuki H and Taylor MD

Publicada: 19 mar 2021 Ahead of Print: 19 mar 2021
Resumen:
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. Sonic Hedgehog medulloblastoma (Shh-MB) comprises four subtypes each with distinct clinical traits. Here the authors characterize the genome, transcriptome, and methylome of Shh-MB subtypes, revealing a complex fusion landscape and the molecular convergence of MYCN and cAMP signaling pathways.

Filiaciones:
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

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

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

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

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

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

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

Djambazian H:
 McGill University Genome Centre, McGill University, Montreal, QC, Canada

 Department of Human Genetics, McGill University, Montreal, QC, Canada

Zhu H:
 Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada

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

Mungall KL:
 Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada

Trinh QM:
 Computational Biology Program, Ontario Institute for Cancer Research, Toronto, ON, Canada

Zheng T:
 Department of Neurology, University of California San Francisco, San Francisco, CA, United States

Dai S:
 Department of Cellular and Molecular Pharmacology, University of California San Francisco, San Francisco, CA, United States

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

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

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

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

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

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

Abd-Rabbo D:
 Computational Biology Program, Ontario Institute for Cancer Research, Toronto, ON, Canada

Bérubé P:
 McGill University Genome Centre, McGill University, Montreal, QC, Canada

Wang YC:
 McGill University Genome Centre, McGill University, Montreal, QC, Canada

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

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

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

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

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

Zhang XY:
 Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada

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

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

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

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

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

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

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

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

Delattre OO:
 INSERM U 830, Institut Curie, Paris, France

Masliah-Planchon J:
 Unit of Somatic Genetics, Institut Curie, Paris, France

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

Kim SK:
 Department of Neurosurgery, Division of Pediatric Neurosurgery, Seoul National University Children's Hospital, Seoul, South Korea

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

Grajkowska WA:
 Department of Pathology, The Children's Memorial Health Institute, Warsaw, Poland

Carlotti CG:
 Department of Surgery and Anatomy, Faculty of Medicine of Ribeirão Preto, University of Sao Paulo, São Paulo, Brazil

de Torres C:
 Developmental Tumor Biology Laboratory, Hospital Sant Joan de Déu, Esplugues de Llobregat, Barcelona, Spain

Mora J:
 Developmental Tumor Biology Laboratory, Hospital Sant Joan de Déu, Esplugues de Llobregat, Barcelona, Spain

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

Van Meir EG:
 Department of Hematology & Medical Oncology, School of Medicine and Winship Cancer Institute, Emory University, Atlanta, GA, United States

Kumabe T:
 Department of Neurosurgery, Kitasato University School of Medicine, Sagamihara, Kanagawa, Japan

French PJ:
 Department of Neurology, Erasmus University Medical Center, Rotterdam, Netherlands

Kros JM:
 Department of Pathology, Erasmus University Medical Center, Rotterdam, Netherlands

Jabado N:
 Division of Experimental Medicine, McGill University, Montreal, QC, Canada

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

Pollack IF:
 Department of Neurological Surgery, University of Pittsburgh School of Medicine, Pittsburgh, PA, United States

Hamilton RL:
 Department of Pathology, University of Pittsburgh School of Medicine, Pittsburgh, PA, United States

Rao AAN:
 Division of Pediatric Hematology/Oncology, Mayo Clinic, Rochester, MN, United States

Giannini C:
 Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, United States

Olson JM:
 Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA, United States

Bognár L:
 Department of Neurosurgery, University of Debrecen, Medical and Health Science Centre, Debrecen, Hungary

Klekner A:
 Department of Neurosurgery, University of Debrecen, Medical and Health Science Centre, Debrecen, Hungary

Zitterbart K:
 Department of Pediatric Oncology, Masaryk University School of Medicine, Brno, Czech Republic

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

Thompson RC:
 Department of Neurological Surgery, Vanderbilt Medical Center, Nashville, TN, United States

Cooper MK:
 Department of Neurology, Vanderbilt Medical Center, Nashville, TN, United States

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

Liau LM:
 Department of Neurosurgery, David Geffen School of Medicine at UCLA, Los Angeles, California, United States

Garami M:
 2nd Department of Pediatrics, Semmelweis University, Budapest, Hungary

Hauser P:
 2nd Department of Pediatrics, Semmelweis University, Budapest, Hungary

Li KKW:
 Department of Anatomical and Cellular Pathology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong

Ng HK:
 Department of Anatomical and Cellular Pathology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong

Poon WS:
 Department of Surgery, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong

Yancey Gillespie G:
 Department of Neurosurgery, University of Alabama at Birmingham, Birmingham, AL, United States

Chan JA:
 Charbonneau Cancer Institute, University of Calgary, Calgary, AB, Canada

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

McLendon RE:
 Department of Pathology, Duke University, Durham, NC, United States

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

Thompson EM:
 Department of Neurosurgery, Duke University, Durham, NC, United States

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

Vibhakar R:
 Department of Pediatrics, University of Colorado Denver, Aurora, CO, United States

Ra YS:
 Department of Neurosurgery, University of Ulsan, Asan Medical Center, Seoul, South Korea

Garre ML:
 U.O. Neurochirurgia, Istituto Giannina Gaslini, Genova, Italy

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

Shofuda T:
 Division of Stem Cell Research, Institute for Clinical Research, Osaka National Hospital, Osaka, Japan

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

López-Aguilar E:
 Division of Pediatric Hematology/Oncology, Hospital Pediatría Centro Médico Nacional century XXI, Mexico City, Mexico

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

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

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

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

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

Mungall AJ:
 Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada

Moore RA:
 Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada

Calarco JA:
 Department of Cell & Systems Biology, University of Toronto, Toronto, ON, Canada

Stein LD:
 Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada

 Adaptive Oncology, Ontario Institute for Cancer Research, Toronto, ON, Canada

Bader GD:
 Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada

 The Donnelly Centre, University of Toronto, Toronto, ON, Canada

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

Ragoussis J:
 McGill University Genome Centre, McGill University, Montreal, QC, Canada

 Department of Human Genetics, McGill University, Montreal, QC, Canada

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

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

Suzuki H:
 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.

Taylor MD:
 Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.

 Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.

 Division of Neurosurgery, The Hospital for Sick Children, Toronto, ON, Canada.

 Department of Surgery, University of Toronto, Toronto, ON, Canada.
ISSN: 20411723





Nature Communications
Editorial
NATURE PORTFOLIO, HEIDELBERGER PLATZ 3, BERLIN 14197, GERMANY, Reino Unido
Tipo de documento: Article
Volumen: 12 Número: 1
Páginas: 1749-1749
WOS Id: 000631928500006
ID de PubMed: 33741928
imagen Green Submitted, Green Published, gold

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