Molecular Characterization of Inbred Lines and Populations in Maize
New Delhi, India
1-3 April 2007

This workshop was hosted by the Indian Agriculture Research Institute (IARI), coordinated by Dr. B. M. Prasanna, and sponsored by the Generation Challenge Programme as part of the competitive grant project entitled ?Characterization of genetic diversity of maize populations: Documenting global maize migration from the center of origin?. There were 19 participants from 10 countries in Asia and Africa. Participants learned the use of SSR markers for characterizing crop germplasm, with particular emphasis on heterogeneous populations, particularly maize. Sessions included: DNA extraction for the bulked method; PCR, electrophoresis on an automatic DNA sequencer; reading gels and generating specialized data files of allele frequencies from bulks; analyzing population diversity statistics and comparisons between populations. The bulked method will allow participants to analyze the relationships between and diversity levels within populations plants, which in the case of maize, would include breeding populations, improved Open Pollinated Varieties, and traditional maize landraces.

List of participants

Lecture Write-ups

Practicals

Presentations

Software

Suggested Readings - Contact authors below for full texts

  • "Association Mapping" -- Edward Buckler

  • "Genetic Diversity Determined within and among CIMMYT Maize Populations of Tropical, Subtropical, and Temperate Germplasm by SSR Markers" -- J. C. Reif, X. C. Xia, A. E. Melchinger, M. L. Warburton, D. A. Hoisington, D. Beck, M. Bohn, and M. Frisch

  • "More on the Introduction of Temperate Maize into Europe: Large-scale Bulk SSR Genotyping and New Historical Elements" -- P. Dubreuil, M. Warburton, M. Chastanet, D. Hoisington, A. Charcosset

  • "Sampling Strategies for Conserving Maize Diversity When Forming Core Subsets Using Genetic Markers" -- Jorge Franco, Jose Crossa, Marilyn L. Warburton, and Suketoshi Taba

  • "An Analysis of Genetic Diversity Across the Maize Genome Using Microsatellites" -- Yves Vigouroux, Sharon Mitchell, Yoshihiro Matsuoka, Martha Hamblin, Stephen Kresovich, J. Stephen C. Smith, Jennifer Jaqueth, Oscar S. Smith, and John Doebley

  • "Analysis of Genetic Diversity in Crop Plants?Salient Statistical Tools and Considerations" -- S. A. Mohammadi and B. M. Prasanna

  • "Genetic Structure and Diversity in Oryza sativa L." -- Amanda J. Garris, Thomas H. Tai, Jason Coburn, Steve Kresovich, and Susan McCouch

  • "Quantification of genetic diversity at allozyme loci" -- Edward E. Berg and J.L. Hamrick

  • "Genetical and Mathematical Properties of Similarity and Dissimilarity Coefficients Applied in Plant Breeding and Seed Bank Management" -- J. C. Reif, A. E. Melchinger, and M. Frisch

  • "Seed Banks and Molecular Maps: Unlocking Genetic Potential from the Wild" -- Steven D. Tanksley and Susan R. McCouch

  • "Inference of Population Structure Using Multilocus Genotype Data: Linked Loci and Correlated Allele Frequencies" -- Daniel Falush, Matthew Stephens, and Jonathan K. Pritchard

  • "Inference of Population Structure Using Multilocus Genotype Data" -- Jonathan K. Pritchard, Matthew Stephens, and Peter Donnelly

  • "Wheat Genetic Diversity Trends During Domestication and Breeding" -- J. C. Reif, P. Zhang, S. Dreisigacker, M. L. Warburton, M. van Ginkel, D. Hoisington, M. Bohn, A. E. Melchinger

  • "Bringing Wild Relatives Back into the Family: Recovering genetic diversity in CIMMYT improved wheat germplasm" -- M.L. Warburton, J. Crossa, J. Franco, M. Kazi, R. Trethowan, S. Rajaram, W. Pfeiffer, P. Zhang, S. Dreisigacker, and M. van Ginkel