Marker-based linkage map of Andean common bean (Phaseolus vulgarisL.) and mapping of QTLs underlying popping ability traits

Yuste-Lisbona, Fernando J; Santalla, Marta; Capel, Carmen; García-Alcázar, Manuel; De La Fuente, María; Capel, Juan; De Ron, Antonio M; Lozano, Rafael

doi:10.1186/1471-2229-12-136

Table 5 Single-locus QTLs detected for popping traits using multiple-QTL model mapping for individual environment analysis

From: Marker-based linkage map of Andean common bean (Phaseolus vulgarisL.) and mapping of QTLs underlying popping ability traits

Trait Environment	QTL (position)^a	Linkage group	Closest marker (position)^b	LOD score^c	LOD threshold^d	R²^e	A^f
Popping dimension index (PDI)
LD09	PDI3^PP (68.1-74.5)	3	IAC24 (71.0)	2.7	2.6	7.5	1.92
	PDI5^PP (32.8-38.4)	5	BMc321 (37.8)	4.3		13.4	2.61
SD09	PDI1^PP (55.6-59.3)	1b	E32M60-147 (58.2)	3.0	2.8	7.7	1.57
	PDI3^PP (62.8-66.3)	3	BMd1 (63.7)	4.4		12.6	1.97
LD10	PDI3^PP (58.7-65.8)	3	PVEST042 (60.0)	3.1	2.6	8.2	1.93
	PDI7^PP (33.4-37.8)	7	BMc294 (36.6)	4.7		12.9	−2.44
SD10	PDI3^PP (62.1-65.9)	3	BMd1 (63.7)	4.7	2.7	9.2	1.46
	PDI6^PP (1.8-5.5)	6	E40M60-91 (5.0)	8.9		18.7	2.15
LD11	PDI5^PP (35.9-40.4)	5	BM138 (39.8)	3.0	2.8	7.7	2.07
	PDI7^PP (22.9-37.6)	7	BMc294 (36.6)	5.1		13.3	−2.72
Expansion coefficient (EC)
LD09	EC5^PP (41.3-46.1)	5	BM175 (46.1)	3.6	2.6	9.8	6.18
	EC7^PP (30.1-37.7)	7	BMc294 (36.6)	2.7		7.3	−5.25
SD09	Not significant				2.1
LD10	EC7^PP (30.5-37.9)	7	BMc294 (36.6)	3.5	2.4	10.7	−6.62
SD10	EC3^PP (67.2-76.8)	3	IAC24 (71.0)	5.9	2.6	12.0	5.69
	EC6^PP (1.2-5.4)	6	E40M60-91 (5.0)	7.6		15.9	6.75
LD11	EC5^PP (39.1-43.3)	5	BM138 (39.8)	4.2	2.8	9.8	6.82
	EC7^PP (32.7-41.6)	7	BMc294 (36.6)	5.9		14.2	−8.18
Percentage of unpopped seeds (PUS)
LD09	PUS5^PP (38.3-46.1)	5	BM175 (46.1)	3.9	2.9	12.3	−9.14
SD09	PUS3^PP (66.9-74.6)	3	PvM152a (67.6)	3.3	2.9	8.9	−9.11
	PUS9^PP (42.3-46.1)	9	E31M51-59 (27.5)	3.4		10.1	9.78
LD10	PUS6^PP (3.1-6.4)	6	E40M60-91 (5.0)	3.2	2.9	9.7	−8.63
	PUS7^PP (22.7-38.4)	7	BM185 (24.2)	3.0		8.9	7.81
SD10	PUS3^PP (67.1-70.6)	3	PvM152a (67.6)	4.5	2.8	8.8	−8.26
	PUS6^PP (1.6-6.2)	6	BMc238 (2.3)	7.7		16.5	−11.36
LD11	PUS1.2 ^PP (35.9-39.1)	1b	E43M38-138 (36.4)	3.3	2.8	6.3	−7.23
	PUS5^PP (38.1-40.2)	5	BM138 (39.8)	4.6		8.7	−8.33
	PUS7^PP (26.9-39.3)	7	BMc294 (36.6)	5.2		9.9	9.29
	PUS10^PP (6.2-7.1)	10	BMb414 (7.0)	3.4		6.3	−6.79

Those QTLs identified in 2 or more environments are marked in bold.
^a QTL name (according to Miklas and Porch 2010) and its estimated map position (in Kosambi cM).
^b Nearest marker to peak of the detected QTL and its map position (in Kosambi cM).
^c LOD score detected for the nearest marker.
^d LOD thresholds score determined by permutation test for each trait in each environment (P = 0.05).
^e Percentage of the total phenotypic variation explained by the QTL.
^f Estimated additive effect. Positive values indicate allele arising from PHA1037 and negative values indicate allele arising from PMB0225.

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ISSN: 1471-2229

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