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.
Green Submitted, Green Published, gold
|