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Table 2 Genes related to mevalonic acid (MVA), 2-C-methyl- d -erythritol-4-phosphate (MEP), carotenoid biosynthetic and catabolic pathways

From: Comparative genomics reveals candidate carotenoid pathway regulators of ripening watermelon fruit

  Description Gene ID e-value* FDR
MVA pathway ACAT2 (Acetyl-CoA acetyltransferase2) Cla015696 4e-172 0.0568
Cla010997 7e-169 0.0050
HMGS (Hydroxymethylglutaryl-CoA synthase) Cla001148 4e-211 0.0594
HMGR1 (3-Hydroxy-3-methylglutaryl-CoA reductase 1) Cla001204 1e-251 0.1373
Cla021910 2e-255 0.1581
MVK (Mevalonate kinase) Cla005305 4e-079 0.2429
Cla019880 9e-112 0.2853
PMK (Phosphomevalonate kinase) Cla016251 2e-019 0.4039
PMD (Diphosphomevalonate decarboxylase) Cla020496 3e-084 0.2037
IDI1 (Isopentenyl-diphosphate δ-isomerase1) Cla009550 3e-110 0.0906
IDI2 (Isopentenyl-diphosphate δ-isomerase2) Cla007929 1e-113 0.7446
GPS (Geranyl-diphosphate synthase) Cla016321 2e-016 0.0124
FPS1 (Farnesyl diphosphate synthase 1) Cla011017 7e-169 0.0683
Cla003330 7e-167 0.0076
MEP pathway DXS (1-Deoxy-d-xylulose-5-phosphate synthase) Cla009346 9e-053 0.0243
Cla009347 8e-153 0.0027
Cla009348 7e-072 0.0017
Cla022299 2e-220 0.1203
DXR (1-Deoxy-d-xylulose-5-phosphate reductoisomerase) Cla019193 7e-227 0.2373
MCT (2-C-Methyl-d-erythritol 4-phosphate cytidyltransferase) Cla004566 6e-014 0.0036
CMK ( 4-Diphosphocytidyl-2-C-methyl-d-erythritol kinase) Cla011088 1e-134 0.0718
MDS (2-C-Methyl-d-erythritol 2,4-cyclodiphosphate synthase) Cla014654 5e-085 0.0442
HDS (4-Hydroxy-3-methylbut-2-en-1-yl diphosphate synthase) Cla005033 3e-120 0.0016
HDR (4-Hydroxy-3-methylbut-2-enyl diphosphate reductase) Cla010297 4e-121 0.0320
Cla015963 2e-149 0.0028
GGPS (Geranylgeranyl diphosphate synthase) Cla020121 2e-125 0.0360
Carotenoid biosynthetic pathway PSY (Phytoene synthase) Cla009122 2e-228 0.0008
Cla005425 3e-125 0.0324
PDS (Phytoene desaturase) Cla010898 1e-174 0.0046
CRTISO (Carotene isomerase) Cla017593 6e-256 0.0264
ZDS (ζ-carotene desaturase) Cla003751 3e-224 0.0077
LCYB (Lycopene β-cyclase) Cla005011 1e-207 0.1722
LCYE (Lycopene ϵ-cyclase) Cla016840 2e-214 0.0976
CHYB (β-carotene hydroxylase) Cla011420 6e-020 0.0025
Cla006149 5e-019 0.0152
ZEP (Zeaxanthin epoxidase) Cla020214 8e-275 0.0033
VDE (Violaxanthin de-epoxidase) Cla000667 7e-102 0.0525
Carotenoid catabolism NCED1 (9-cis-epoxycarotenoid dioxygenase 1) Cla005404 1e-249 0.0016
Cla009779 8e-213 0.0187
CCD1 (Carotenoid 9,10(9',10')-cleavage dioxygenase 1) Cla015245 4e-207 0.0030
  1. Genes were identified through Illumina Sequencing Technology in watermelon fruit using two biological replicas. In bold are indicated the genes differentially expressed during watermelon ripening with a FDR (False Discovery Rate) ≤ 0.05.
  2. *according to Swiss-Prot database.