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Towards complete and error-free genome assemblies of all vertebrate species

Autor: Rhie, Arang, McCarthy, Shane A, Fedrigo, Olivier, Damas, Joana, Formenti, Giulio, Koren, Sergey, Uliano-Silva, Marcela, Chow, William, Fungtammasan, Arkarachai, Kim, Juwan, Lee, Chul, Ko, Byung June, Chaisson, Mark, Gedman, Gregory L, Cantin, Lindsey J, Thibaud-Nissen, Francoise, Haggerty, Leanne, Bista, Iliana, Smith, Michelle, Haase, Bettina, Mountcastle, Jacquelyn, Winkler, Sylke, Paez, Sadye, Howard, Jason, Vernes, Sonja C, Lama, Tanya M, Grutzner, Frank, Warren, Wesley C, Balakrishnan, Christopher N, Burt, Dave, George, Julia M, Biegler, Matthew T, Iorns, David, Digby, Andrew, Eason, Daryl, Robertson, Bruce, Edwards, Taylor, Wilkinson, Mark, Turner, George, Meyer, Axel, Kautt, Andreas F, Franchini, Paolo, Detrich, H William, Svardal, Hannes, Wagner, Maximilian, Naylor, Gavin JP, Pippel, Martin, Malinsky, Milan, Mooney, Mark, Simbirsky, Maria, Hannigan, Brett T, Pesout, Trevor, Houck, Marlys, Misuraca, Ann, Kingan, Sarah B, Hall, Richard, Kronenberg, Zev, Sović, Ivan, Dunn, Christopher, Ning, Zemin, Hastie, Alex, Lee, Joyce, Selvaraj, Siddarth, Green, Richard E, Putnam, Nicholas H, Gut, Ivo, Ghurye, Jay, Garrison, Erik, Sims, Ying, Collins, Joanna, Pelan, Sarah, Torrance, James, Tracey, Alan, Wood, Jonathan, Dagnew, Robel E, Guan, Dengfeng, London, Sarah E, Clayton, David F, Mello, Claudio V, Friedrich, Samantha R, Lovell, Peter V, Osipova, Ekaterina, Al-Ajli, Farooq O, Secomandi, Simona, Kim, Heebal, Theofanopoulou, Constantina, Hiller, Michael, Zhou, Yang, Harris, Robert S, Makova, Kateryna D, Medvedev, Paul, Hoffman, Jinna, Masterson, Patrick, Clark, Karen, Martin, Fergal, Howe, Kevin, Flicek, Paul, Walenz, Brian P, Kwak, Woori, Clawson, Hiram

Publikováno v: Nature, vol 592, iss 7856

High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are available for only a few non-microbial species1-4. To address this

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=dedup_wf_001::d9b995a5c927b3de46b88782d15293b9
https://escholarship.org/uc/item/8sq9511h

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Towards complete and error-free genome assemblies of all vertebrate species

Autor: Rhie, Arang, McCarthy, Shane A, Fedrigo, Olivier, Damas, Joana, Formenti, Giulio, Koren, Sergey, Uliano-Silva, Marcela, Chow, William, Fungtammasan, Arkarachai, Kim, Juwan, Lee, Chul, Ko, Byung June, Chaisson, Mark, Gedman, Gregory L, Cantin, Lindsey J, Thibaud-Nissen, Francoise, Haggerty, Leanne, Bista, Iliana, Smith, Michelle, Haase, Bettina, Mountcastle, Jacquelyn, Winkler, Sylke, Paez, Sadye, Howard, Jason, Vernes, Sonja C, Lama, Tanya M, Grutzner, Frank, Warren, Wesley C, Balakrishnan, Christopher N, Burt, Dave, George, Julia M, Biegler, Matthew T, Iorns, David, Digby, Andrew, Eason, Daryl, Robertson, Bruce, Edwards, Taylor, Wilkinson, Mark, Turner, George, Meyer, Axel, Kautt, Andreas F, Franchini, Paolo, Detrich, H William, Svardal, Hannes, Wagner, Maximilian, Naylor, Gavin JP, Pippel, Martin, Malinsky, Milan, Mooney, Mark, Simbirsky, Maria, Hannigan, Brett T, Pesout, Trevor, Houck, Marlys, Misuraca, Ann, Kingan, Sarah B, Hall, Richard, Kronenberg, Zev, Sović, Ivan, Dunn, Christopher, Ning, Zemin, Hastie, Alex, Lee, Joyce, Selvaraj, Siddarth, Green, Richard E, Putnam, Nicholas H, Gut, Ivo, Ghurye, Jay, Garrison, Erik, Sims, Ying, Collins, Joanna, Pelan, Sarah, Torrance, James, Tracey, Alan, Wood, Jonathan, Dagnew, Robel E, Guan, Dengfeng, London, Sarah E, Clayton, David F, Mello, Claudio V, Friedrich, Samantha R, Lovell, Peter V, Osipova, Ekaterina, Al-Ajli, Farooq O, Secomandi, Simona, Kim, Heebal, Theofanopoulou, Constantina, Hiller, Michael, Zhou, Yang, Harris, Robert S, Makova, Kateryna D, Medvedev, Paul, Hoffman, Jinna, Masterson, Patrick, Clark, Karen, Martin, Fergal, Howe, Kevin, Flicek, Paul, Walenz, Brian P, Kwak, Woori, Clawson, Hiram, Diekhans, Mark, Nassar, Luis, Paten, Benedict, Kraus, Robert HS, Crawford, Andrew J, Gilbert, M Thomas P, Zhang, Guojie, Venkatesh, Byrappa, Murphy, Robert W, Koepfli, Klaus-Peter, Shapiro, Beth, Johnson, Warren E, Di Palma, Federica, Marques-Bonet, Tomas, Teeling, Emma C, Warnow, Tandy, Graves, Jennifer Marshall, Ryder, Oliver A, Haussler, David, O'Brien, Stephen J, Korlach, Jonas, Lewin, Harris A, Howe, Kerstin, Myers, Eugene W, Durbin, Richard, Phillippy, Adam M, Jarvis, Erich D

High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are available for only a few non-microbial species1-4. To address this

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::0fdf6dfed41b0ddc54b1979f1e3c46fe

Towards complete and error-free genome assemblies of all vertebrate species.

Autor: Rhie A; Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA., McCarthy SA; Department of Genetics, University of Cambridge, Cambridge, UK.; Wellcome Sanger Institute, Cambridge, UK., Fedrigo O; Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA., Damas J; The Genome Center, University of California Davis, Davis, CA, USA., Formenti G; Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA.; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA., Koren S; Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA., Uliano-Silva M; Leibniz Institute for Zoo and Wildlife Research, Department of Evolutionary Genetics, Berlin, Germany.; Berlin Center for Genomics in Biodiversity Research, Berlin, Germany., Chow W; Wellcome Sanger Institute, Cambridge, UK., Fungtammasan A; DNAnexus Inc., Mountain View, CA, USA., Kim J; Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul, Republic of Korea., Lee C; Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul, Republic of Korea., Ko BJ; Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, Republic of Korea., Chaisson M; University of Southern California, Los Angeles, CA, USA., Gedman GL; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA., Cantin LJ; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA., Thibaud-Nissen F; National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD, USA., Haggerty L; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Bista I; Department of Genetics, University of Cambridge, Cambridge, UK.; Wellcome Sanger Institute, Cambridge, UK., Smith M; Wellcome Sanger Institute, Cambridge, UK., Haase B; Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA., Mountcastle J; Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA., Winkler S; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.; DRESDEN-concept Genome Center, Dresden, Germany., Paez S; Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA.; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA., Howard J; Novogene, Durham, NC, USA., Vernes SC; Neurogenetics of Vocal Communication Group, Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands.; Donders Institute for Brain, Cognition and Behaviour, Nijmegen, The Netherlands.; School of Biology, University of St Andrews, St Andrews, UK., Lama TM; University of Massachusetts Cooperative Fish and Wildlife Research Unit, Amherst, MA, USA., Grutzner F; School of Biological Science, The Environment Institute, University of Adelaide, Adelaide, South Australia, Australia., Warren WC; Bond Life Sciences Center, University of Missouri, Columbia, MO, USA., Balakrishnan CN; Department of Biology, East Carolina University, Greenville, NC, USA., Burt D; UQ Genomics, University of Queensland, Brisbane, Queensland, Australia., George JM; Department of Biological Sciences, Clemson University, Clemson, SC, USA., Biegler MT; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA., Iorns D; The Genetic Rescue Foundation, Wellington, New Zealand., Digby A; Kākāpō Recovery, Department of Conservation, Invercargill, New Zealand., Eason D; Kākāpō Recovery, Department of Conservation, Invercargill, New Zealand., Robertson B; Department of Zoology, University of Otago, Dunedin, New Zealand., Edwards T; University of Arizona Genetics Core, Tucson, AZ, USA., Wilkinson M; Department of Life Sciences, Natural History Museum, London, UK., Turner G; School of Natural Sciences, Bangor University, Gwynedd, UK., Meyer A; Department of Biology, University of Konstanz, Konstanz, Germany., Kautt AF; Department of Biology, University of Konstanz, Konstanz, Germany.; Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA., Franchini P; Department of Biology, University of Konstanz, Konstanz, Germany., Detrich HW 3rd; Department of Marine and Environmental Sciences, Northeastern University Marine Science Center, Nahant, MA, USA., Svardal H; Department of Biology, University of Antwerp, Antwerp, Belgium.; Naturalis Biodiversity Center, Leiden, The Netherlands., Wagner M; Institute of Biology, Karl-Franzens University of Graz, Graz, Austria., Naylor GJP; Florida Museum of Natural History, University of Florida, Gainesville, FL, USA., Pippel M; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.; Center for Systems Biology, Dresden, Germany., Malinsky M; Wellcome Sanger Institute, Cambridge, UK.; Zoological Institute, University of Basel, Basel, Switzerland., Mooney M; Tag.bio, San Francisco, CA, USA., Simbirsky M; DNAnexus Inc., Mountain View, CA, USA., Hannigan BT; DNAnexus Inc., Mountain View, CA, USA., Pesout T; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Houck M; San Diego Zoo Global, Escondido, CA, USA., Misuraca A; San Diego Zoo Global, Escondido, CA, USA., Kingan SB; Pacific Biosciences, Menlo Park, CA, USA., Hall R; Pacific Biosciences, Menlo Park, CA, USA., Kronenberg Z; Pacific Biosciences, Menlo Park, CA, USA., Sović I; Pacific Biosciences, Menlo Park, CA, USA.; Digital BioLogic, Ivanić-Grad, Croatia., Dunn C; Pacific Biosciences, Menlo Park, CA, USA., Ning Z; Wellcome Sanger Institute, Cambridge, UK., Hastie A; Bionano Genomics, San Diego, CA, USA., Lee J; Bionano Genomics, San Diego, CA, USA., Selvaraj S; Arima Genomics, San Diego, CA, USA., Green RE; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA.; Dovetail Genomics, Santa Cruz, CA, USA., Putnam NH; Independent Researcher, Santa Cruz, CA, USA., Gut I; CNAG-CRG, Centre for Genomic Regulation, Barcelona Institute of Science and Technology, Barcelona, Spain.; Universitat Pompeu Fabra, Barcelona, Spain., Ghurye J; Dovetail Genomics, Santa Cruz, CA, USA.; Department of Computer Science, University of Maryland College Park, College Park, MD, USA., Garrison E; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Sims Y; Wellcome Sanger Institute, Cambridge, UK., Collins J; Wellcome Sanger Institute, Cambridge, UK., Pelan S; Wellcome Sanger Institute, Cambridge, UK., Torrance J; Wellcome Sanger Institute, Cambridge, UK., Tracey A; Wellcome Sanger Institute, Cambridge, UK., Wood J; Wellcome Sanger Institute, Cambridge, UK., Dagnew RE; University of Southern California, Los Angeles, CA, USA., Guan D; Department of Genetics, University of Cambridge, Cambridge, UK.; School of Computer Science and Technology, Center for Bioinformatics, Harbin Institute of Technology, Harbin, China., London SE; Department of Psychology, Institute for Mind and Biology, University of Chicago, Chicago, IL, USA., Clayton DF; Department of Genetics and Biochemistry, Clemson University, Clemson, SC, USA., Mello CV; Department of Behavioral Neuroscience, Oregon Health and Science University, Portland, OR, USA., Friedrich SR; Department of Behavioral Neuroscience, Oregon Health and Science University, Portland, OR, USA., Lovell PV; Department of Behavioral Neuroscience, Oregon Health and Science University, Portland, OR, USA., Osipova E; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.; Center for Systems Biology, Dresden, Germany.; Max Planck Institute for the Physics of Complex Systems, Dresden, Germany., Al-Ajli FO; Monash University Malaysia Genomics Facility, School of Science, Selangor Darul Ehsan, Malaysia.; Tropical Medicine and Biology Multidisciplinary Platform, Monash University Malaysia, Selangor Darul Ehsan, Malaysia.; Qatar Falcon Genome Project, Doha, Qatar., Secomandi S; Department of Biosciences, University of Milan, Milan, Italy., Kim H; Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul, Republic of Korea.; Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, Republic of Korea.; eGnome, Inc., Seoul, Republic of Korea., Theofanopoulou C; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA., Hiller M; LOEWE Centre for Translational Biodiversity Genomics, Frankfurt, Germany.; Senckenberg Research Institute, Frankfurt, Germany.; Goethe-University, Faculty of Biosciences, Frankfurt, Germany., Zhou Y; BGI-Shenzhen, Shenzhen, China., Harris RS; Department of Biology, Pennsylvania State University, University Park, PA, USA., Makova KD; Department of Biology, Pennsylvania State University, University Park, PA, USA.; Center for Medical Genomics, Pennsylvania State University, University Park, PA, USA.; Center for Computational Biology and Bioinformatics, Pennsylvania State University, University Park, PA, USA., Medvedev P; Center for Medical Genomics, Pennsylvania State University, University Park, PA, USA.; Center for Computational Biology and Bioinformatics, Pennsylvania State University, University Park, PA, USA.; Department of Computer Science and Engineering, Pennsylvania State University, University Park, PA, USA.; Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA., Hoffman J; National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD, USA., Masterson P; National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD, USA., Clark K; National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD, USA., Martin F; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Howe K; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Flicek P; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Walenz BP; Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA., Kwak W; eGnome, Inc., Seoul, Republic of Korea.; Hoonygen, Seoul, Korea., Clawson H; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Diekhans M; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Nassar L; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Paten B; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Kraus RHS; Department of Biology, University of Konstanz, Konstanz, Germany.; Department of Migration, Max Planck Institute of Animal Behavior, Radolfzell, Germany., Crawford AJ; Department of Biological Sciences, Universidad de los Andes, Bogotá, Colombia., Gilbert MTP; Center for Evolutionary Hologenomics, The GLOBE Institute, University of Copenhagen, Copenhagen, Denmark.; University Museum, NTNU, Trondheim, Norway., Zhang G; China National Genebank, BGI-Shenzhen, Shenzhen, China.; Villum Center for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark.; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.; Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, China., Venkatesh B; Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore, Singapore., Murphy RW; Centre for Biodiversity, Royal Ontario Museum, Toronto, Ontario, Canada., Koepfli KP; Smithsonian Conservation Biology Institute, Center for Species Survival, National Zoological Park, Washington, DC, USA., Shapiro B; Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, USA.; Howard Hughes Medical Institute, Chevy Chase, MD, USA., Johnson WE; Smithsonian Conservation Biology Institute, Center for Species Survival, National Zoological Park, Washington, DC, USA.; The Walter Reed Biosystematics Unit, Museum Support Center MRC-534, Smithsonian Institution, Suitland, MD, USA.; Walter Reed Army Institute of Research, Silver Spring, MD, USA., Di Palma F; Department of Biological Sciences, Earlham Institute, University of East Anglia, Norwich, UK., Marques-Bonet T; Institute of Evolutionary Biology (UPF-CSIC), PRBB, Barcelona, Spain.; Catalan Institution of Research and Advanced Studies (ICREA), Barcelona, Spain.; Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST), Barcelona, Spain.; Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona, Barcelona, Spain., Teeling EC; School of Biology and Environmental Science, University College Dublin, Dublin, Ireland., Warnow T; Department of Computer Science, The University of Illinois at Urbana-Champaign, Urbana, IL, USA., Graves JM; School of Life Science, La Trobe University, Melbourne, Victoria, Australia., Ryder OA; San Diego Zoo Global, Escondido, CA, USA.; Department of Evolution, Behavior, and Ecology, University of California San Diego, La Jolla, CA, USA., Haussler D; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA.; Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, USA., O'Brien SJ; Laboratory of Genomics Diversity-Center for Computer Technologies, ITMO University, St. Petersburg, Russian Federation.; Guy Harvey Oceanographic Center, Halmos College of Natural Sciences and Oceanography, Nova Southeastern University, Fort Lauderdale, FL, USA., Korlach J; Pacific Biosciences, Menlo Park, CA, USA., Lewin HA; The Genome Center, University of California Davis, Davis, CA, USA.; Department of Evolution and Ecology, University of California Davis, Davis, CA, USA.; John Muir Institute for the Environment, University of California Davis, Davis, CA, USA., Howe K; Wellcome Sanger Institute, Cambridge, UK. kj2@sanger.ac.uk., Myers EW; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany. gene@mpi-cbg.de.; Center for Systems Biology, Dresden, Germany. gene@mpi-cbg.de.; Faculty of Computer Science, Technical University Dresden, Dresden, Germany. gene@mpi-cbg.de., Durbin R; Department of Genetics, University of Cambridge, Cambridge, UK. rd109@cam.ac.uk.; Wellcome Sanger Institute, Cambridge, UK. rd109@cam.ac.uk., Phillippy AM; Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA. adam.phillippy@nih.gov., Jarvis ED; Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA. ejarvis@rockefeller.edu.; Laboratory of Neurogenetics of Language, The Rockefeller University, New York, NY, USA. ejarvis@rockefeller.edu.; Howard Hughes Medical Institute, Chevy Chase, MD, USA. ejarvis@rockefeller.edu.

Publikováno v: Nature [Nature] 2021 Apr; Vol. 592 (7856), pp. 737-746. Date of Electronic Publication: 2021 Apr 28.