Table 2.

Biometrical Parameters of QTLs Affecting Productivity and Physiological Traits of Cotton

Trait		Chromosome or Linkage group		Nearest marker		P(f) at nearest marker		LOD scores		QTL effects in relevant dataset		Mode of action
Trait		Chromosome or Linkage group		Nearest marker		M	*Y^M**		*I^M**		All	Mode of action		Year 1	Year 2	Dry	Wet	Dry/Wet	Var.%	a	d
Dry	Chr02	pAR451a	^**					0.58	0.95	0.58	2	1.08	3.48	10.4	−0.097	0.156	R
matter	Chr09	pAR288	^*			^*	+	1.84	0.21	2.25	3.25	0.26	0.89	4.9	0.030	0.061	D
Seed	Chr02	pAR390b	^*	^**			+	3.07	1.51	3.34	0.76	3.21	1.27	4.1	−0.042	0.073	R
cotton	Chr06	pAR936	^***			^*	+	3.05	1.45	2.13	4.33	0.34	1.66	5.6	−0.078	−0.007	AD
yield	Chr14	A1222	^***	^**	+		+	4.01	0.77	4.44	4.22	0.96	2.09	5.8	−0.074	0.022	AR
	Chr18	pAR4-13	^**	^**	+		+	2.84	0.97	3.88	3.42	0.79	2.91	5.4	−0.047	0.105	R
	Chr25	pGH309		^*	+			3.35	0.91	4.06	2.93	0.9	0.53	16.2	0.092	0.251
	LGA03	pAR570a	^***	^*	+			5.64	0.98	5.27	2.2	3.76	0.28	16.1	−0.114	0.134	R
	LGD07	pGH286	^**	^***	+	^*	+	3.8	0.72	4.98	4.54	2.48	1.31	7.5	−0.062	0.087	R
Osmotic	Chr06	pAR3-32a		^***	+			1.39	1.26	4.02	1.28	1.18	1.16	5.1	0.048	−0.035	RA
potential	Chr25	PXP1-47	^**		+		+	3.39	0.75	5.28	3.74	0.72	1.15	8.4	−0.042	−0.089	D
Carbon	Chr15	A1109	^**					1.74	1.01	1.7	1.97	2.7	3.16	13.6	0.717	−2.045
isotope ratio	Chr22 (124–244)	pAR243	^***				+	5.19	3.49	1.92	3.72	1.69	0.34	4.9	0.095	0.269	D
	LGD04	A1163b	^***				+	3.84	1.45	2.68	3.50	0.91	0.65	11.3	0.001	0.454	D
	LGD05	A1220	^***				+	7.64	3.23	4.59	5.60	2.90	0.14	9	−0.317	0.024	A

↵Asterisks (*, **, and ***) indicate significantF values at the 0.05, 0.01, and 0.001 levels, respectively; (+) indicates a significant interaction based on LOD difference >2 between the two years or between the two irrigation regimes.
↵LOD score of the relevant data set is underlined.
↵“Relevant dataset” indicates the treatment for which quantitative parameters (% variance explained, additive [a], dominance [d], and mode of gene action) are shown. In cases for which the marker locus showed significant interaction (as defined in text) with treatments (years or irrigation regimes), the treatment with the highest LOD score was considered the relevant dataset, excluding the pooled dataset “All”, because it is rendered invalid by the interaction. In cases for which the marker locus showed no interaction with treatments, the treatment (including the pooled dataset “All”) with the highest LOD score was considered the relevant data set. In cases where both Y*M and I*M interactions were significant, the effect of a specific irrigation regime is presented as a relevant dataset.
↵Log transformation was used for QTL analyses of dry matter, seed cotton yield, and harvest index.
Boll weight, boll number, canopy temperature, Chlorophyll a, and Chlorophyll b were assessed only in Year 2.
Only the first page of this table is shown. The complete table is available on-line at http://www.genome.org.

Genomic Dissection of Genotype × Environment Interactions Conferring Adaptation of Cotton to Arid Conditions