We want to discover SNPs in our breeding materials. Cooperation of KASPar and Fluidigm is succesful to identify SNPs, but if we dont know SNPs how we can discover through Kaspar system? Sequencing? What else more?
KASP or Fluidigm are SNP assaying/genotyping systems and in the present form will not help for SNP discovery. You will need to undertake a SNP discovery project before developing KASP/Fluidigm assays. If you have sequence information available in public domain, you may just use this for SNP discovery, if you are not particular about genomic region. Otherwise sequencing (Sanger/NGS) is the only option. Unless you have any innovative solution for employing SNP genotyping systems for SNP discovery....
KASP or Fluidigm are SNP assaying/genotyping systems and in the present form will not help for SNP discovery. You will need to undertake a SNP discovery project before developing KASP/Fluidigm assays. If you have sequence information available in public domain, you may just use this for SNP discovery, if you are not particular about genomic region. Otherwise sequencing (Sanger/NGS) is the only option. Unless you have any innovative solution for employing SNP genotyping systems for SNP discovery....
Thanks for the answer. Beside sequencing, there is no better solution as i see. After sequencing, it would be beneficial to use kaspar/fluidigm.
Hi,
You may also see the feasibility of approaches such as TILLING, however it may work out to be low throughput and more intensive...
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