Genomic architecture of potato resistance to Synchytrium endobioticum disentangled using SSR markers and the 8.3k SolCAP SNP genotyping array

Obidiegwu, Jude Eijkeme; Sanetomo, Rena; Flath, Kerstin; Tacke, Eckhard; Hofferbert, Hans-Reinhard; Hofmann, Andrea; Walkemeier, Birgit; Gebhardt, Christiane

doi:10.1186/s12863-015-0195-y

Table 5 Genetic models for markers linked with wart resistance, expected segregation ratios and observed genotypes (n = nulliplex, s = simplex, d = duplex, t = triplex, q = quadruplex)

From: Genomic architecture of potato resistance to Synchytrium endobioticum disentangled using SSR markers and the 8.3k SolCAP SNP genotyping array

Marker allele	Chr.	Family	Model	Expected genotypes and ratios	Observed genotype numbers	χ ²
Solcap_c2_2505_A	I	BNA2	simplex x triplex	1 s : 2 d : 1 t	4n, 23s, 55d, 43t, 5q^a	7.6*^b
Solcap_c2_2505_G	I	SaKa1	simplex x nulliplex	1 s : 1 n	49s, 68n, 2d^a	3.1 ns^b
Solcap_c2_2505_G	I	BNA1	simplex x nulliplex	1 s : 1 n	59s, 76n, 2d^a	2.1 ns
Solcap_c2_35942_A	IV	BNA2	simplex x nulliplex	1 s : 1 n	65s, 67n	0.0 ns
Solcap_c2_1106_G	X	BNA2	simplex x nulliplex	1 s : 1 n	58s, 73n	1.7 ns
Y1delATT_1	XI	BNA2	simplex x nulliplex	1 s : 1 n	57s, 75n	2.4 ns
Y1delATT_1	XI	SaKa1	simplex x nulliplex	1 s : 1 n	62s, 57n	0.2 ns
Solcap_c1_4319_A	XI	BNA2	simplex x simplex	1 n : 2 s : 1 d	34n, 50s, 46d, 1t^a	9.1**
Solcap_c1_4319_2_G	XI	SaKa1	simplex x simplex	1 n : 2 s : 1 d	36n, 61s, 21d, 1t^a	3.9 ns
Solcap_c1_4319_2_G	XI	BNA1	simplex x duplex	1 n : 5 s : 5 d : 1 t	6n, 66s, 57d, 10t	4.1 ns
Solcap_c1_4319_3_T	XI	SaKa1	simplex x nulliplex	1 s : 1 n	63s, 56n	0.4 ns
Solcap_c1_4319_3_T	XI	BNA1	simplex x nulliplex	1 s : 1 n	72s, 68n	0.1 ns
Solcap_c1_4322_T	XI	BNA2	simplex x simplex	1 n : 2 s : 1 d	34n, 53s, 45d	6.9*
GP259_snp7_G	XI	BNA2	simplex x simplex	1 n : 2 s : 1 d	22n, 39s, 27d	1.7 ns
St_At5g16710_snp3_C	XI	BNA2	simplex x duplex	1 n : 5 s : 5 d : 1 t	5n, 38s, 36d, 8t	0.8 ns
St_At5g16710_snp11_T	XI	BNA2	simplex x duplex	1 n : 5 s : 5 d : 1 t	2n, 36s, 46d, 3t	8.9*
Solcap_c1_7770_C	XII	BNA2	simplex x duplex	1 n : 5 s : 5 d : 1 t	20n, 60s, 40d, 12t	12.0**
Solcap_c1_7770_C	XII	SaKa1	nulliplex x duplex	1 n : 4 s : 1 d	20n, 67s, 26d	3.7 ns
Solcap_c2_33630_C	XII	BNA2	duplex x duplex	1 n : 8 s : 18 d : 8 t : 1 q	4n, 19s, 104d, 0t, 3q	53.4***
Solcap_c2_33630_2_A	XII	BNA2	duplex x duplex	1 n : 8 s : 18 d : 8 t : 1 q	39n, 52s, 28d, 9t, 4q	392,6***
Solcap_c2_33630_2_A ( Solcap_c2_33630_1_G)	XII	SaKa1	simplex x nulliplex	1 s : 1 n	46s, 52n, 19d^a	0.4 ns

^aExceptional genotypes present in the progeny were not considered in the goodness of fit test.
^bns: p > 0.05, *0.05 > p > 0.01, **0.01 > p > 0.001, ***p < 0.001.

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