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Whole Genome Sequence Analysis and Population Genomics of Group A Streptococci

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Group A Streptococcus

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2136))

Abstract

Whole-genome sequencing (WGS) is used to determine the genetic composition of an organism. This fast-moving field is continually evolving through technical advancements and the development of new bioinformatic tools for analyzing genomic data; however, the basic principles and processes for defining and processing high-quality genome sequence information remain unchanged. Here, we introduce some considerations and describe some commonly used bioinformatic steps for processing raw genome sequence data to generate genome assemblies through to understanding basic population genomics.

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Acknowledgments

This work was supported by NHMRC project grants (#1130455, #1165876 and #1098319). S.Y.C.T. is an Australian National Health and Medical Research Council (NHMRC) Career Development Fellow (#1145033). M.R.D is an University of Melbourne C.R. Roper Fellow.

Author information

Authors and Affiliations

  1. Doherty Department, The University of Melbourne, at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia

    Jake A. Lacey & Steven Y. C. Tong

  2. Department of Microbiology and Immunology, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia

    Taylah B. James & Mark R. Davies

  3. Division of Global and Tropical Health, Menzies School of Health Research, Division of Global and Tropical Health, Darwin, NT, Australia

    Steven Y. C. Tong

  4. Victorian Infectious Disease Service, The Royal Melbourne Hospital, The University of Melbourne, at the Peter Doherty Institute for Infection and Immunity, Melbourne, VIC, Australia

    Steven Y. C. Tong

Authors
  1. Jake A. Lacey
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  2. Taylah B. James
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  3. Steven Y. C. Tong
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  4. Mark R. Davies
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Corresponding author

Correspondence to Mark R. Davies .

Editor information

Editors and Affiliations

  1. School of Medical Sciences, The University of Auckland, Auckland, New Zealand

    Thomas Proft

  2. School of Medical Sciences, The University of Auckland, Auckland, New Zealand

    Jacelyn M. S. Loh

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Lacey, J.A., James, T.B., Tong, S.Y.C., Davies, M.R. (2020). Whole Genome Sequence Analysis and Population Genomics of Group A Streptococci. In: Proft, T., Loh, J. (eds) Group A Streptococcus. Methods in Molecular Biology, vol 2136. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-0467-0_7

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  • DOI: https://doi.org/10.1007/978-1-0716-0467-0_7

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-0466-3

  • Online ISBN: 978-1-0716-0467-0

  • eBook Packages: Springer Protocols

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