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Fig. 5 | Rice

Fig. 5

From: Large-scale deployment of a rice 6 K SNP array for genetics and breeding applications

Fig. 5

Tracking QTL introgressions on chromosomes 6 and 9 of rice using the C6AIR. a QTL for Sub1 was previously mapped to chromosome 9 at 6,388,840–6,658,011 bp (MSUv7), (Xu et al. 2006; Septiningsih et al. 2009). Two C6AIR markers that localize close to Sub1 (~1.5 cM region) can be used to track the presence or absence of the QTL for development of Sub1 introgression lines (blue box = Sub1, gray boxes = nearby markers). b Table shows genotypes of Xa7 and Sub1 predictive markers in popular rice varieties (control) and their derived introgression lines that carry Xa7 and Sub1. c C6AIR genotype calls around the Sub1 QTL region (~1.8 Mb) Sub1 donors, Sub1-introgression lines and wild-type recurrent parents. Introgression size of varieties carrying a functional SUB1A gene vary, i.e. BR11-Sub1 and Sambha-Mahsuri-Sub1 have the smallest introgressed regions among the SUB1 varieties (blue box = Sub1 genotype, white box = wild type genotype, gray boxes = missing data). d QTL for Xa7 is located on chromosome 6 at MSU7 position 27,963,796–28,082,632 bp (Chen et al. 2008). Five C6AIR markers localize close to Xa7 and one SNP is within the Xa7 region. These markers can be used to track the presence or absence of the QTL for development of Xa7 introgression lines (purple box = Xa7, gray boxes = nearby markers)

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