Mapping and validation of major quantitative trait loci for kernel length in wild barley (Hordeum vulgare ssp. spontaneum)

Table 2 Quantitative trait loci (QTLs) for LEN identified in the Baudin/Awcs276 recombinant inbred line (RIL) population

QTL^a	Chr.	Linkage	Environment	Left Marker	Right Marker	Range (cM)	LOD	% Expl.
15LEN-2H	2H	LG3	15WJ	3254852\|F\|0–65:C > A	6270031\|F\|0–48:C > G-48:C > G	16.326–17.508	3.11	10.4
			Combined	3254852\|F\|0–65:C > A	6270031\|F\|0–48:C > G-48:C > G	16.326-17.508	3.35	11.2
LEN-3H	3H	LG4	13WJ	6255968	3258624\|F\|0–41:C > A-41:C > A	23.405–25.611	5.07	29.1
			14WJ	3931871	3258624\|F\|0–41:C > A-41:C > A	20.731–25.611	7.12	22.3
			Combined	6249147	3258624\|F\|0–41:C > A-41:C > A	21.375–25.611	6.02	19.2
LEN-4H	4H	LG6	14WJ	5249122\|F\|0–25:G > A-25:G > A	3263178\|F\|0–25:C > A-25:C > A	68.431–69.947	3.17	10.6
			15WJ	3910814	5249122\|F\|0–25:G > A-25:G > A	62.983–68.431	5.06	16.4
			Combined	3396110	4007032\|F\|0–46:C > A-46:C > A	59.535-69.392	5.31	17.2
14LEN-6H	6H	LG9	14WJ	4594605\|F\|0–25:A > G-25:A > G	3259546\|F\|0–62:A > T-62:A > T	56.031–59.463	5.47	17.6
14LEN-6H	6H	LG9	Combined	4594605\|F\|0–25:A > G-25:A > G	3259546\|F\|0–62:A > T-62:A > T	56.031–59.463	3.92	13
14LEN-7H	7H	LG11	14WJ	3429688\|F\|0–38:T > C	3256863\|F\|0–29:G > A-29:G > A	19.095–22.504	5.31	17.2

Chr chromosome, LG linkage group, cM centimorgan, Combined combined data over the three years of study, % Expl the percentage of variance explained by QTL
^aQTLs were identified by Interval Mapping (IM) using MAPQTL6.0, and a test of 1,000 permutations was used to identify the LOD threshold, corresponding to a genome-wide false discovery rate of 5 % (P < 0.05)

ISSN: 2730-6844