Fig. 4

Co-localization of SNP/InDel candidates for berry size and DE genes between large and small berry segregants in V. vinifera chromosomes. Thirty-eight candidate polymorphisms for berry weight were identified using a search of structural variants based on a transcriptome experiment [20]. SNPs and InDels are represented in blue and red, respectively. A subset of candidate genes associated with berry weight was also co-localized. Significantly correlated DE genes with PCA-1 are represented in the plot. DE genes up-regulated in SB segregants are represented in orange; DE genes up-regulated in LB segregants are in cyan. DE genes are Vitvi03g00306: F-box protein At2g16365; Vitvi03g01483: AMP-activated protein kinase gamma regulatory subunit putative; Vitvi03g00124: pathogenesis-related protein 5; Vitvi03g01597: secretory protein putative; Vitvi06g00679: GCN5-related N-acetyltransferase (GNAT) family protein; Vitvi06g01917: lichenase; Vitvi08g01801: putative mitochondrial 2-oxoglutarate/malate carrier protein; Vitvi09g01229: anthranilate N-benzoyltransferase protein 2; Vitvi09g00045: 18.6 kDa class III heat shock protein; Vitvi14g00270: copper chaperone; Vitvi14g02028: probable galacturonosyltransferase 13; Vitvi15g00960: O-acyltransferase WSD1; Vitvi17g01557: DEAD-box ATP-dependent RNA helicase 30; Vitvi17g00658: C2H2-type zinc finger transcription factor; Vitvi17g00643: LON peptidase N-terminal domain and RING finger protein 1; Vitvi17g01451: germin-like protein subfamily T member 1; Vitvi17g00070: protein RUPTURED POLLEN GRAIN 1; Vitvi17g01183: probable metal-nicotianamine transporter YSL7; Vitvi17g01251: expansin-A15; Vitvi19g00111: epidermis-specific secreted glycoprotein EP1; Vitvi19g00252: 5′-AMP-activated protein kinase gamma subunit