We studied the serum IgG recognition pattern in patients with TB and used as a paradigm a 'high content chip' peptide microarray with 61 MTB proteins as linear peptide stretches.
With increasing tuber sugar content, the chip color changes from light yellow to brown or even black.
Unfortunately, neither QTL linkage mapping down to single-gene resolution [ 28] nor high-resolution association mapping using thousands of individuals for complex traits such as tuber starch content and chip color is practicable in the cultivated potato.
Linkage and association studies have identified quantitative trait loci (QTL) for tuber sugar content and chip quality that colocalize with three independent potato invertase loci, which together encode five invertase genes.
Within this region, 68 SNPs were genotyped as a part of the HapMap Project (http://www.hapmap.org), and 16 SNPs are included on the Illumina HumanHap610 fixed-content GWAS chip.
Association mapping in populations of tetraploid potato varieties and breeding clones has revealed 'single-strand conformation polymorphisms' (SSCPs) [ 24] in invertase genes at all three loci, which were associated with tuber starch content, and/or chip color [ 25, 26].
For example, PHO1b on the distal end of chromosome V is hardly expressed in tubers (Albrecht et al. 2001; Nader Nieto 2011), which makes it difficult to explain a direct effect of PHO1b allelic variation on tuber starch content and chip quality during tuber cold storage.
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Protein content of chips increased significantly with the addition of soy flour.
Indirect LD mapping of disease variants is an inherent characteristic of genome-wide association scans using currently available defined-content SNP chips.
Consequently, the selected group of genes will exhibit trends in the functions of genes, resulting in a bias in the population of chip contents.
