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Open Access
Peer-reviewed
Research Article
Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding
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Shubha Vij ,
* E-mail: shubha@tll.org.sg (SV); alan@sanbi.ac.za (AC); laszlo@tll.org.sg (LO)
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Heiner Kuhl,
Affiliation Max Planck Institute for Molecular Genetics, Berlin, Germany
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Inna S. Kuznetsova,
Affiliations Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore, Laboratory of Chromosome Structure and Function, Department of Cytology and Histology, Biological Faculty, Saint Petersburg State University, St. Petersburg, Russia
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Aleksey Komissarov,
Affiliation Theodosius Dobzhansky Center for Genome Bioinformatics, Saint Petersburg State University, St. Petersburg, Russia
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Andrey A. Yurchenko,
Affiliation Theodosius Dobzhansky Center for Genome Bioinformatics, Saint Petersburg State University, St. Petersburg, Russia
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Peter Van Heusden,
Affiliation South African MRC Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa
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Siddharth Singh,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Natascha M. Thevasagayam,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Sai Rama Sridatta Prakki,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Kathiresan Purushothaman,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Jolly M. Saju,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Junhui Jiang,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Stanley Kimbung Mbandi,
Affiliation South African MRC Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa
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Mario Jonas,
Affiliation South African MRC Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa
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Amy Hin Yan Tong,
Affiliation Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Canada
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Sarah Mwangi,
Affiliation South African MRC Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa
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Doreen Lau,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Si Yan Ngoh,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Woei Chang Liew,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Xueyan Shen,
Affiliation Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore
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Lawrence S. Hon,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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James P. Drake,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Matthew Boitano,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Richard Hall,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Chen-Shan Chin,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Ramkumar Lachumanan,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Jonas Korlach,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Vladimir Trifonov,
Affiliation Institute of Molecular and Cellular Biology, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russian Federation
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Marsel Kabilov,
Affiliation Genomics Core Facility, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia
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Alexey Tupikin,
Affiliation Genomics Core Facility, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia
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Darrell Green,
Affiliation Norwich Medical School, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
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Simon Moxon,
Affiliation The Genome Analysis Centre, Norwich, United Kingdom
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Tyler Garvin,
Affiliation Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, One Bungtown Road, Cold Spring Harbor, New York, United States of America
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Fritz J. Sedlazeck,
Affiliations Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, One Bungtown Road, Cold Spring Harbor, New York, United States of America, Department of Computer Science, Johns Hopkins University, Baltimore, Maryland, United States of America
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Gregory W. Vurture,
Affiliation Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, One Bungtown Road, Cold Spring Harbor, New York, United States of America
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Gopikrishna Gopalapillai,
Affiliation Nutrition, Genetics & Biotechnology Division, ICAR-Central Institute of Brackishwater Aquaculture, Tamil Nadu, India
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Vinaya Kumar Katneni,
Affiliation Nutrition, Genetics & Biotechnology Division, ICAR-Central Institute of Brackishwater Aquaculture, Tamil Nadu, India
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Tansyn H. Noble,
Affiliation College of Marine and Environmental Sciences and Center for Sustainable Tropical Fisheries and Aquaculture, James Cook University, Townsville, Queensland, Australia
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Vinod Scaria,
Affiliation CSIR-Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India
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Sridhar Sivasubbu,
Affiliation CSIR-Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India
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Dean R. Jerry,
Affiliation College of Marine and Environmental Sciences and Center for Sustainable Tropical Fisheries and Aquaculture, James Cook University, Townsville, Queensland, Australia
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Stephen J. O'Brien,
Affiliations Theodosius Dobzhansky Center for Genome Bioinformatics, Saint Petersburg State University, St. Petersburg, Russia, Oceanographic Center, Nova Southeastern University Ft. Lauderdale, Ft. Lauderdale, Florida, United States of America
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Michael C. Schatz,
Affiliations Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, One Bungtown Road, Cold Spring Harbor, New York, United States of America, Department of Computer Science, Johns Hopkins University, Baltimore, Maryland, United States of America
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Tamás Dalmay,
Affiliation School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
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Stephen W. Turner,
Affiliation Pacific Biosciences, Menlo Park, California, United States of America
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Si Lok,
Affiliation The Centre for Applied Genomics, The Hospital for Sick Children, Peter Gilgan Centre for Research and Learning, Toronto, Ontario, Canada
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Alan Christoffels ,
* E-mail: shubha@tll.org.sg (SV); alan@sanbi.ac.za (AC); laszlo@tll.org.sg (LO)
Affiliation South African MRC Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa
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László Orbán
* E-mail: shubha@tll.org.sg (SV); alan@sanbi.ac.za (AC); laszlo@tll.org.sg (LO)
Affiliations Reproductive Genomics Group, Temasek Life Sciences Laboratory, Singapore, Department of Animal Sciences and Animal Husbandry, Georgikon Faculty, University of Pannonia, Keszthely, Hungary, Centre for Comparative Genomics, Murdoch University, Murdoch, Australia
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Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding
- Shubha Vij,
- Heiner Kuhl,
- Inna S. Kuznetsova,
- Aleksey Komissarov,
- Andrey A. Yurchenko,
- Peter Van Heusden,
- Siddharth Singh,
- Natascha M. Thevasagayam,
- Sai Rama Sridatta Prakki,
- Kathiresan Purushothaman
- Published: April 15, 2016
- https://doi.org/10.1371/journal.pgen.1005954