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Evolving Molecular Marker Technologies in Plants: From RFLPs to GBS

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Diagnostics in Plant Breeding

Abstract

Molecular markers have proven to be useful tools for genetics and molecular breeding of crop plants, starting with low-throughput RFLPs (restriction fragment length polymorphisms) in 1980 and culminating in ultra high-throughput SNPs at present. Molecular marker technology has continuously evolved from hybridization-based RFLPs to PCR-based RAPDs, AFLPs, and SSRs, and finally high-throughput SNPs. More recently, ultra high-throughput genotyping by sequencing (GBS) has been established. Among these molecular markers, SSRs were considered the markers of choice for several plant breeding applications because of their various desirable attributes, and are still considered inexpensive for simply inherited traits. However, more recently, SNP markers have become markers of choice due to their abundance, uniform distribution throughout genomes and high resolution as well as their amenability to high-throughput approaches. With the advent of next-generation sequencing (NGS) technologies, new sequencing tools have been found to be valuable for the discovery, validation, and application of genetic markers. These ultra high-throughput markers will not only prove useful for preparation of high-density genetic maps and identification of QTLs for their deployment in plant breeding but will also facilitate genome-wide selection (GWS) and genome-wide association studies (GWAS).

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Acknowledgements

Authors are thankful to Theme Leader Discretionary Grant of CGIAR-Generation Challenge Programme (GCP) and Centre of Excellence (CoE) grant from Department of Biotechnology (DBT) for funding the research of authors.

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Authors and Affiliations

  1. Centre of Excellence in Genomics (CEG), International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, Hyderabad, 502 324, India

    Reyazul Rouf Mir, Pavana J. Hiremath, Oscar Riera-Lizarazu & Rajeev K. Varshney

  2. Division of Plant Breeding & Genetics, Shere-Kashmir University of Agricultural Sciences & Technology of Jammu (SKUAST-J), Chatha, Jammu, 180 009, India

    Reyazul Rouf Mir

  3. CGIAR-Generation Challenge Programme (GCP), c/o CIMMYT, Int APDO Postal 6-641, 06600, Mexico City, DF, Mexico

    Rajeev K. Varshney

  4. School of Plant Biology (M084), The University of Western Australia, 35 Stirling Highway, Crawley, WA, 6009, Australia

    Rajeev K. Varshney

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  4. Rajeev K. Varshney
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Correspondence to Rajeev K. Varshney .

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  1. Dept. Agronomy, Iowa State University, Agronomy Hall 1204, Ames, 50011, Iowa, USA

    Thomas Lübberstedt

  2. ICRISAT, Centre of Excellence in Genomics (CEG), Patancheru, 502 324, Andra Pradesh, India

    Rajeev K. Varshney

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© 2013 Springer Science+Business Media Dordrecht

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Mir, R.R., Hiremath, P.J., Riera-Lizarazu, O., Varshney, R.K. (2013). Evolving Molecular Marker Technologies in Plants: From RFLPs to GBS. In: Lübberstedt, T., Varshney, R. (eds) Diagnostics in Plant Breeding. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-5687-8_11

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