Table 2.

List of genes controlling fruit weight and shape variation in tomato.

Locus/QTL	Underlying gene ID	Putative cellular/molecular function and length of the protein	Timing of the impact on morphology	Most likely cause of allelic variation	References
fw2.2	Cell number regulator (CNR) Solyc02g090730	Increased expression is associated with reduced cell division. May permit transport across membranes. Protein may be located at the plasmamembrane and contains a PLAC8 domain including two putative transmembrane motifs. 163 aa	Phase 1 or 2 (Figures 2A,B)	SNP in the promoter of the gene	Frary et al., 2000; Guo et al., 2010
fw3.2	KLUH Solyc03g114940	A cytochrome P450 of the 78A class and the likely ortholog of AtKLUH. Hypothesized to synthesize a mobile signal. Substrate unknown. 516 aa	Phase 5, (Figure 2G)	SNP in the promoter of the gene	Anastasiou et al., 2007; Chakrabarti et al., 2013
lc	WUSCHEL Solyc02g083950	Homeobox domain protein. Required to maintain stem cell identity in meristems. 73 aa	Phase 1, (Figure 2A)	Two SNP located downstream of WUSCHEL	Mayer et al., 1998; Munos et al., 2011
fasciated	YABBY2 Solyc11g071810	Transcription factor involved in organ polarity and meristem organization. 177 aa	Phase 1 or 2, (Figures 2A,B)	Gene knock out by a 294 kb inversion with a breakpoint in the first intron of YAB2	Cong et al., 2008; Huang and Van Der Knaap, 2011; Huang et al., 2013
ovate	OVATE Solyc02g085500	Increased expression is associated with shorter plants and plant organs. May be a repressor of transcription. Contains the OFP domain. 352 aa	Phase 3, (Figures 2B,C)	Premature stop codon in an exon associated with a mutant phenotype	Liu et al., 2002; Hackbusch et al., 2005; Huang et al., 2013
sun	SUN Solyc10g079240	Increased expression is associated with elongated fruit. Positive regulator of growth. Contains the IQ67 motif that binds calmodulin. 421 aa	Phase 3 and 6, (Figures 2B,C,G)	Interchromosomal gene duplication mediated by the transposon Rider	Abel et al., 2005; Xiao et al., 2008; Huang et al., 2013