Table 3 Most significant markers associated with fruit shape index in each F₂ population and their effect on other fruit morphological attributes

Population	Marker	Ch.	Attribute	P-value	% R²	F value	YP	N	Het	N	T1693	N	D/A
F₂ T1693 × YP	11EP11	10	Fruit shape index.1	<0.0001	32	20.84	1.42	27	1.34	46	1.24	20	0.11
			Obovoid	<0.0001	51	47.26	0.30		0.21		0.14		−0.13
			Width widest position	<0.0001	48	41.70	0.62		0.57		0.53		−0.11
			Fruit weight	0.0087	10	5.01	29.09		30.77		34.42		0.37
	12EP178	11	Fruit shape index.1	<0.0001	26	15.84	1.42	20	1.36	46	1.27	27	0.20
			Width widest position	0.0010	14	7.49	0.60		0.58		0.55		0.20
			Fruit weight	<0.0001	20	11.42	26.60		31.18		34.11		−0.22
							GBL		Het		YP
F₂ GBL × YP	11EP16	10	Fruit shape index.1	<0.0001	28	17.13	1.12	21	1.20	55	1.35	17	0.30
			Obovoid	<0.0001	38	28.07	0.03		0.08		0.17		0.29
			Width widest position	<0.0001	35	23.17	0.49		0.50		0.56		0.71
			Fruit weight	0.6487	1	0.43	31.31		31.43		30.21		NC
	12EP186	11	Fruit shape index.1	<0.0001	37	25.37	1.07	23	1.24	50	1.30	18	−0.48
			Width widest position	0.0001	18	9.90	0.48		0.52		0.53		−0.60
			Fruit weight	<0.0001	50	44.26	34.93		31.70		24.94		0.35
							SM		Het		GBL
F₂ SM × GBL	12EP178	11	Fruit shape index.1	<0.0001	34	22.31	1.20	24	1.13	43	1.04	22	0.12
			Width widest position	0.0001	19	10.14	0.48		0.47		0.46		0.00
			Fruit weight	0.0253	8	3.84	65.14		61.20		59.95		−0.52

Abbreviations: ANOVA, analysis of variance; Ch, chromosome; D/A, degree of dominance; GBL, mean value for the homozygous Gold Ball Livingston allele; Het, mean value for the heterozygous; N, number of plants per genotypic class; NC, no calculated; % of R², variance explained by the associated marker; SM, mean value for the homozygous San Marzano allele; T1693, mean value for the homozygous T1693 allele; YP, mean value for the homozygous Yellow Pear allele.
Data were analyzed by a single-point one-way ANOVA.

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