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. 2015 Jan 22;66(5):1511–1526. doi: 10.1093/jxb/eru516

Table 2.

Genes down-regulated in Luna Rossa cultivar (2-fold change) recognised by DAVID and reported in functional annotation chart (FACH) on number, percentage of gene included, P value, fold enrichment (F. E.), and statistical significance Bonferroni, Benjamini, and FDR

Category Down-regulated (63 recognised) % P value Fold enrichment Bonferroni Benjamini FDR
GOTERM_BP_FAT GO:0019748~secondary metabolic process:
(X55195) chalcone synthase
(X86452) lycopene beta-cyclase
(S36691) phytoene desaturase
(BT012712) phytoene synthetase
6.3 0.010 7.27 0.43 0.43 9.08
GOTERM_BP_FAT GO:0008610~lipid biosynthetic process:
(AJ242551) 12-oxophytodienoate reductase
(X86452) lycopene beta-cyclase
(S36691) phytoene desaturase
(BT012712) phytoene synthetase
6.3 0.021 5.59 0.71 0.46 18.9
GOTERM_BP_FAT GO:0016108~tetraterpenoid metabolic process; GO:0016116~carotenoid metabolic process; GO:0016109~tetraterpenoid biosynthetic process; GO:0016117~carotenoid biosynthetic process;
carotenoid biosynthesis:
(X86452) lycopene beta-cyclase
(S36691) phytoene desaturase
(BT012712) phytoene synthetase
4.8 0.021 10.90 0.71 0.34 19.3
UP_SEQ_FEATURE Active site: Proton donor
(AJ242551) 12-oxophytodienoate reductase
(AY046588) endo-beta-mannanase
(X74639) pectin esterase
(X04583) precursor polypeptide (AA -71 to 386)
6.3 0.030 5.07 0.67 0.67 23.8
GOTERM_BP_FAT GO:0046148~pigment biosynthetic process; GO:0042440~pigment metabolic process:
(X86452) lycopene beta-cyclase,
(BT012712) phytoene synthetase
(S36691) phytoene desaturase
4.8 0.031 9.08 0.84 0.37 27.0
GOTERM_BP_FAT GO:0008299~isoprenoid biosynthetic process; GO:0006721~terpenoid metabolic process GO:0006720~isoprenoid metabolic process GO:0016114~terpenoid biosynthetic process
(S36691) phytoene desaturase
(BT012712) phytoene synthetase
(X86452) lycopene beta-cyclase,
4.8 0.042 7.79 0.92 0.40 35.0