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Maize genotyping library

A set of over 1200 KASP™ SNP genotyping assays for maize has been developed for CIMMYT’s Global Maize Program and the Generation Challenge Programme. The assays have been applied to over 500 projects with CIMMYT and CGIAR globally. Through LGC, these assays are now available to the maize breeding community to accelerate development of improved varieties by marker-assisted selection (MAS).
 
The maize genotyping library utilises our accurate and robust PCR-based KASP genotyping chemistry. Bespoke sets of assays can be conveniently selected with the Assay Search Tool.

 
Unlike chip-based systems with fixed marker sets, our maize genotyping library allows flexible selection of informative markers, and easy adaptation to changing germplasm collections in individual breeding programmes. Furthermore, KASP genotyping assays are highly cost-effective, thus providing an economical option to use the same SNP assays throughout the course of a breeding programme.
 
LGC’s complete genomics solution also encompasses plant sample collection kits, DNA extraction and genotyping services, enabling breeders even in remote locations to apply MAS.
 

Development of the maize genotyping library

The Zea mays SNP markers were developed from the mapping data against the B73 reference genome (Jones et al., 2009) and a SNP mining study from EST sequences (Batley et al., 2003). The SNPs were mapped against 284 maize recombinant inbred line populations – IBM (B736Mo17) and LHRF (F26F252), 24 proprietary Pioneer varieties and 60 Elite varieties, including North American and European lines, and 3 tropical lines.


Advantages

  • Library includes over 1200 functionally validated SNP markers
  • Cost-effective and robust KASP genotyping technology
  • Flexible - pick and choose the assays that are relevant to your project based on genome and chromosome location
  • Convenient – use informative markers directly on breeding populations or novel cultivars
  • No minimum order – order any number of assays from the library
  • KASP assays are easy to run in your own laboratory or can be used in a genotyping service project


Ordering

The Maize KASP Assays can be provided as part of our genotyping service or as reagents to run KASP genotyping in your own laboratory.

With our Assay Search Tool, you can search for specific assays, export your selection, pick the required amount of KASP Master mix, and request a quote. To place an order straightaway for all assays in your cart, please use the “export assay cart” function and forward the exported Excel file together with your purchase order to orders.uk@lgcgroup.com
 
The assays are available in 2 pack sizes:
Cat. No Product Pack size
KBS-1023-032 Maize KASP Assay Mix 2500 x 10 μL reactions
KBS-1023-033 Maize KASP Assay Mix 6000 x 10 μL reactions
For enquiries about a genotyping service project, please request a quotation or contact our customer services team.



References

International Maize and Wheat Improvement Center (CIMMYT):
http://www.cimmyt.org/en
 
Integrated Breeding Platform (IBP):
https://www.integratedbreeding.net
 
Development of single nucleotide polymorphism (SNP) markers for use in commercial maize (Zea mays L.) germplasm.
Jones, E., Chu, W. C., Ayele, M., Ho, J., Bruggeman, E., Yourstone, K., ... & Smith, S. (2009). Molecular Breeding, 24(2), 165-176.
 
Mining for single nucleotide polymorphisms and insertions/deletions in maize expressed sequence tag data.
Batley, J., Barker, G., O’Sullivan, H., Edwards, K. J., & Edwards, D. (2003).
Plant Physiology, 132(1), 84-91.
 
Genetic gains in grain yield through genomic selection in eight bi-parental maize populations under drought stress.
Beyene, Y., Semagn, K., Mugo, S., Tarekegne, A., Babu, R., Meisel, B., ... & Crossa, J. (2015). Crop Science, 55(1), 154-163.
 
QTL mapping and molecular breeding for developing stress resilient maize for sub-Saharan Africa. Semagn, K., Beyene, Y., Babu, R., Nair, S., Gowda, M., Das, B., ... & Warburton, M. L. (2015). Crop Science, 55(1), 1-11.

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Related downloads

file
Maize genotyping library 209KB

Fact sheet

file
DNA requirements 559KB

Fact sheet