Molecular Mapping of Genes and QTL: Progress to Date and Development of New Population Resources for NGS Genetics

McCallum, John; Baldwin, Samantha; Macknight, Richard; Khosa, Jiffinvir; Shaw, Martin

doi:10.1007/978-3-319-95825-5_13

Molecular Mapping of Genes and QTL: Progress to Date and Development of New Population Resources for NGS Genetics

John McCallum^5,6,
Samantha Baldwin⁶,
Richard Macknight^5,6,
Jiffinvir Khosa⁵ &
Martin Shaw⁶

Chapter
First Online: 18 September 2018

530 Accesses

Part of the Compendium of Plant Genomes book series (CPG)

Abstract

Ability to conduct molecular analyses in Allium species was previously limited by the power of available technologies to sample very large heterozygous genomes in a cost-effective manner. The emergence of third-generation long-read sequencing technologies, coupled with maturing strategies for population genomics in non-model systems provides exciting opportunities for Allium crops. Now that these technical advances have removed major barriers to progress, it is necessary to consider the horticultural resources to which we can apply such technologies. This will hasten delivery of genetics tools that will ultimately benefit breeders, farmers, and consumers of Allium vegetables. Here, we describe progress to date in Allium mapping, with an emphasis on onion, and review approaches used on other non-model systems that could be applied. We also present strategies we have developed over the past decade to establish genetic stocks for onion suited to modern population genomics analyses.

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Authors and Affiliations

Biochemistry Dept, University of Otago, Dunedin, New Zealand
John McCallum, Richard Macknight & Jiffinvir Khosa
New Zealand Institute for Plant and Food Research, Private Bag 4704, Christchurch, New Zealand
John McCallum, Samantha Baldwin, Richard Macknight & Martin Shaw

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John McCallum
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Samantha Baldwin
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Richard Macknight
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Jiffinvir Khosa
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Martin Shaw
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Correspondence to John McCallum .

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Editors and Affiliations

College of Agriculture, Graduate School of Sciences and Technology for Innovation, Yamaguchi University, Yamaguchi, Japan
Prof. Masayoshi Shigyo
Division of Vegetable Science, ICAR-Indian Agricultural Research Institute, New Delhi, India
Dr. Anil Khar
Laboratory of Molecular Breeding Arid Land Research Center, Tottori University, Tottori, Japan
Dr. Mostafa Abdelrahman

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McCallum, J., Baldwin, S., Macknight, R., Khosa, J., Shaw, M. (2018). Molecular Mapping of Genes and QTL: Progress to Date and Development of New Population Resources for NGS Genetics. In: Shigyo, M., Khar, A., Abdelrahman, M. (eds) The Allium Genomes. Compendium of Plant Genomes. Springer, Cham. https://doi.org/10.1007/978-3-319-95825-5_13

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DOI: https://doi.org/10.1007/978-3-319-95825-5_13
Published: 18 September 2018
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-95824-8
Online ISBN: 978-3-319-95825-5
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