Supplementary Table S1. Composition of Clusters 1 to 5 resulting from analysis of cDNA arrays analysis:nucleotide Genbank accession number of Coffea EST, protein Genbank accession for the best match in protein databases (Blast X results), E values for the Blast and putative functional identification. Effect of the developmental stage on cDNA arrays data: ANOVA results (F and P) and corresponding q-valueaccording to Storey and Tibshirani (2003).
Cluster 1 / Best match Accession / E value / Putative functional identification / F 6,73 / P values / Q values / tested by PCREE199748 / AAA34072 / 4e-45 / Phosphoshikimate carboxyvinyltransferase / 44.4 / < 10-17 / < 10-17
EL610518 / AAN86822 / 7e-67 / Cysteine synthase / 4.29 / 9.25 10-4 / 4.65 10-4 /
AJ519839 / CAD58628 / 0 / SUI1 translation factor / 6.95 / 6.0310-07 / 5.40 10-07 /
EE195565 / AAL01888 / 7e-81 / Acyl-CoA oxidase / 10.57 / 2.0410-08 / 2.01 10-08 /
EE199918 / NP_568984 / 2e-37 / Lipid transfer protein / 8.34 / 6.8510-07 / 5.88 10-07 /
EE200432 / AAP59427 / 5e-77 / Glutathione peroxidase / 4.55 / 5.64 10-4 / 2.98 10-4 /
EE195613 / P11796 / 1e-100 / Superoxide dismutase [Mn] / 10.29 / 3.09 10-08 / 2.90 10-08 /
EE200223 / T31428 / 5e-78 / Fiber annexin / 20.21 / 8.93 10-14 / 2.04 10-13 /
EE195601 / AAL67991 / 1e-77 / Dehydration-induced RD22-like protein / 39.62 / < 10-17 / < 10-17 /
EE195879 / AAF35901 / 9e-99 / Expansin 2 / 15.82 / 1.49 10-11 / 2.56 10-11 /
EE199914 / CAB71135 / 1e-99 / Glycosyl hydrolase imbibition protein / 23.36 / 3.33 10-15 / 9.80 10-15 /
EE198061 / P09444 / 3e-41 / LEA D34 / 7.28 / 4.05 10-06 / 3.09 10-06
EE196661 / NP_199977 / 3e-90 / Leaf-senescence-related protein / 0.92 / 0.486 / 9.1810-2
DQ333960 / DQ333960 / 0 / Dehydrin dh3 / 7.14 / 5.20 10-06 / 3.83 10-06 /
EL610519 / AAK59278 / 3e-64 / Thaumatin-like protein / 43.62 / < 10-17 / < 10-17 /
EE200469 / AAL18931 / 3e-65 / Arabinosidase ARA-1 / 27.63 / 1.10 10-16 / 3.78 10-16 /
EE196692 / T07885 / 4e-69 / Endo-1,4-beta-glucanase / 4.56 / 5.54 10-4 / 2.98 10-4 /
EE198652 / NP_199747 / 7e-93 / Betaglucosidase - Xylosidase / 12.96 / 6.46 10-10 / 8.33 10-10 /
EE195513 / CAB77245 / 1e-58 / Seed imbibition protein / 3.06 / 9.98 10-3 / 4.4710-3
EE199551 / AAO18639 / 1e-46 / Galactose dehydrogenase / 34.88 / 1 10-17 / 4.12 10-17
EE199602 / S12402 / 7e-72 / Glucan endo-1,3-beta-D-glucosidase / 21.85 / 1.54 10-14 / 3.97 10-14 /
EE195889 / BAB59066 / 1e-103 / Pectate lyase / 15.05 / 3.99 10-11 / 5.88 10-11 /
EE198178 / CAA90904 / 7e-84 / Aminocyclopropane-1-carboxylate oxidase / 18.64 / 5.19 10-13 / 1.05 10-12 /
EE197233 / BAB11074 / 8e-65 / Laccase (diphenol oxidase) / 1.97 / 8.16 10-2 / 2.3010-2 /
EE199922 / CAC80883 / 7e-45 / P450 - geraniol 10-hydroxylase / 12.46 / 1.30 10-09 / 1.48 10-09 /
Cluster 2 / Accession / E value / Putative functional identification / F 6,73
EL610520 / Q42699 / 2e-76 / Methionine Synthase / 1.7 / 0.134 / 3.4910-02
AF454631 / AAN03726 / 0 / caffeic acid O-methyltransferase / 4.42 / 7.22 10-04 / 3.72 10-04 /
EE197326 / CAD22155 / 2e-94 / 1-deoxy-D-xylulose 5-phosphate synthase / 5.7 / 6.70 10-05 / 3.94 10-05 /
EE200308 / P28643 / 5e-57 / 3-oxoacyl-[acyl-carrier protein] reductase / 15.17 / 3.41 10-11 / 5.41 10-11 /
EE195803 / NP_175685 / 4e-79 / Esterase/lipase/thioesterase family / 2.71 / 1.95 10-02 / 7.5910-03 /
EE192865 / CAA87068 / 3e-53 / Ferredoxin2 (non photosynthetic) / 0.85 / 0.538 / 9.82 10-02 /
EH666267 / CAA67796 / 6e-72 / FNR / 1.36 / 0.242 / 5.4810-02
EH662407 / AAL83720 / 1e-106 / Catalase / 2.58 / 2.53 10-02 / 9.2010-03 /
EE195857 / P17598 / 1e-122 / Catalase / 7.11 / 5.50 10-06 / 3.91 10-06
EE197573 / AAO62410 / 2e-96 / Aconitase / 3.02 / 1.08 10-02 / 4.76 10-03 /
EH662410 / Q9SSV4 / 1e-84 / Inositol-3-phosphate synthase / 2.55 / 2.69 10-02 / 9.5810-03 /
EL610522 / AAK49438 / 4e-99 / Phytase / 1.41 / 0.221 / 5.1910-02
EH662414 / AAN71761 / 7e-28 / Cinnamoyl CoA reductase / 1.69 / 0.136 / 3.5110-02 /
EE195971 / P42495 / 2e-59 / Cinnamyl-alcohol dehydrogenase / 0.9 / 0.502 / 9.3310-02 /
EE198074 / S52632 / 8e-74 / Phenylalanine ammonia-lyase 2 / 2.46 / 3.21 10-02 / 1.1210-02 /
EE199806 / AAK62030 / 1e-103 / Phenylalanine ammonia-lyase 3 / 2.32 / 4.20 10-02 / 1.4210-02 /
EE200505 / T10248 / 1e-125 / HSP 70k / 1.35 / 0.244 / 5.4810-02
EE193134 / CAB71079 / 6e-96 / Polygalacturonase / 5.98 / 4.00 10-05 / 2.42 10-05 /
EH662411 / XP_450986 / 1e-69 / ABC transporter family protein / 3.57 / 3.70 10-03 / 1.73 10-03 /
EE197211 / BAC11804 / 2e-79 / Aquaporin / 6.59 / 1.34 10-05 / 8.65 10-06
EE196665 / T09794 / 3e-73 / Aquaporin 1 / 11.79 / 3.35 10-09 / 3.45 10-09 /
EE198544 / AAF71820 / 1e-61 / Aquaporin 2 / 7.08 / 5.74 10-06 / 3.94 10-06
EE199320 / T05707 / 2e-70 / Phosphate transporter / 0.47 / 0.827 / 0.135 /
EH666268 / ABD64997 / 1e-59 / Sodium-dicarboxylate cotransporter-like / 0.85 / 0.538 / 9.81 10-02
EE199490 / NP_850393 / 1e-61 / Sugar transporter family / 3.01 / 1.11 10-02 / 4.77 10-03 /
Cluster 3 / Accession / E value / Putative functional identification / F 6,73
EE197220 / AY841272 / 0 / Oleosin OLE-2 / 12.19 / 1.8810-09 / 2.04 10-09 /
EE195901 / AAF13743 / 2e-72 / Caleosin / 4.65 / 4.72 10-04 / 2.63 10-04 /
EE196074 / AY841276 / 0 / Steroleosin-B STO-1 / 3.59 / 3.59 10-03 / 1.72 10-03 /
EE199428 / NP_197105 / 8e-33 / Steroid 5-alpha-reductase / 2.31 / 4.27 10-02 / 1.4210-02 /
EL610521 / T03848 / 1e-77 / Sterol 24-C-methyltransferase / 0.69 / 0.658 / 0.112
EE199585 / AAF08792 / 1e-22 / Geranyl diphosphate synthase / 0.94 / 0.472 / 0.090 /
EE193726 / BAA34702 / 1e-48 / CDSP34-fibrillin / 2.96 / 1.20 10-02 / 5.0610-03 /
EE192102 / AAV74407 / 7e-70 / Aldolase / 1.71 / 0.132 / 3.4810-02
EE199778 / P42027 / 7e-72 / NADH dehydrogenase Complex I (subunit) / 36.12 / < 10-17 / < 10-17
EE198189 / BAB91077 / 1e-46 / Basic 7S globulin isoform / 13.6 / 2.69 10-10 / 3.70 10-10 /
EE200222 / S22379 / 6e-60 / Aspartate transaminase / 7.06 / 5.94 10-06 / 3.95 10-06 /
EE200251 / BAB11407 / 3e-53 / Lactate dehydrogenase / 0.83 / 0.549 / 9.83 10-02 /
EE199140 / P48522 / 9e-91 / Cinnamic acid 4-hydroxylase / 12.54 / 1.15 10-09 / 1.40 10-09 /
EH662413 / AAA99868 / 6e-56 / secretory peroxidase (cationic) / 16.41 / 7.19 10-12 / 1.35 10-11 /
Cluster 4 / Accession / E value / Putative functional identification / F 6,73
EE199889 / Q9LEC8 / 6e-94 / Glutamate dehydrogenase / 4.88 / 3.06 10-04 / 1.75 10-04 /
EE197846 / P42066 / 1e-106 / Phosphoenolpyruvate carboxykinase / 2.75 / 1.81 10-02 / 7.1810-03
EE198988 / AAG16981 / 4e-72 / Transaldolase / 1.04 / 0.405 / 7.94 10-02
EE196590 / P26300 / 1e-104 / Enolase / 0.71 / 0.639 / 0.110
EE196786 / NP_172813 / 9e-78 / Ethanolaminephosphotransferase / 1.36 / 0.243 / 5.4810-02
EH666266 / YP_567079 / 4e-58 / Plastidial NDH-J subunit / 2.21 / 5.17 10-02 / 1.67 10-02
EE197136 / P30733 / 5e-62 / Phytochrome A / 0.74 / 0.619 / 0.107
EH662406 / AAQ09365 / 3e-84 / PsbB photosystem II CP47 protein / 7.42 / 3.18 10-06 / 2.52 10-06 /
AJ419827 / CAD11991 / 0 / Rubisco (small subunit) / 2.41 / 3.52 10-02 / 1.2110-02 /
EE195946 / XP_329836 / 2e-70 / ADP/ATP Translocase / 2.75 / 1.81 10-02 / 7.1810-03
EE199426 / AAA86689 / 1e-89 / Ascorbate peroxidase / 2.11 / 6.22 10-02 / 1.89 10-02 /
EE200368 / NP_187317 / 1e-105 / ATP Citrate lyase / 2.12 / 6.16 10-02 / 1.89 10-02 /
EE199295 / CAD33243 / 4e-68 / Malate dehydrogenase / 0.76 / 0.601 / 0.106
EE199399 / AAG02288 / 1e-28 / Plastid terminal oxidase / 1.24 / 0.294 / 6.2910-02 /
EE196184 / AAG49032 / 3e-63 / Ripening regulated protein DDTFR18 / 0.3 / 0.933 / 0.148
EL610523 / CAA11226 / 4e-54 / Chalcone reductase / 1.57 / 0.169 / 4.2010-02 /
EE198985 / CAB85635 / 1e-48 / P450 - ripening-related / 1.29 / 0.274 / 6.0410-02 /
EE193656 / AAS57921 / 4e-81 / P-coumarate 3-hydroxylase / 0.84 / 0.544 / 9.83 10-02 /
EE199377 / CAC21424 / 7e-99 / 12-oxophytodienoate reductase 3 / 0.38 / 0.887 / 0.142
EE199671 / P24157 / 4e-84 / 1-aminocyclopropane-1-carboxylate oxidase / 2.58 / 2.54 10-02 / 9.2010-03 /
EE199348 / CAC80550 / 2e -63 / Cyclophylin / 1.11 / 0.364 / 7.4210-02 /
EE197132 / U11423 / 1e-82 / Metallothionein / 6.29 / 2.32 10-05 / 1.45 10-05 /
EE197767 / NP_187310 / 9e-78 / Galactokinase / 2.04 / 7.06 10-02 / 2.0810-02 /
EE199516 / AAF20002 / 6e-74 / Amino acid/peptide transporter / 0.64 / 0.698 / 0.116 /
EE195851 / CAC84547 / 4e-89 / Dicarboxylate/tricarboxylate carrier / 0.45 / 0.844 / 0.136 /
EE195647 / BAB19760 / 1e-60 / Nitrate transporter NRT1-5 / 0.64 / 0.701 / 0.117
EL610517 / NP_197500 / 1e-108 / 26S proteasome subunit RPT6a / 1.88 / 0.114 / 3.0810-02
EE199621 / AAL09741 / 9e-87 / Polyubiquitin 10 / 1.48 / 0.184 / 4.5110-02 /
Cluster 5 / Accession / E value / Putative functional identification / F 6,73
EE198986 / CAA75386 / 1e-119 / 2-dehydro-3-deoxyphosphoheptonate aldolase / 0.19 / 0.979 / 0.154
EE192447 / Q42679 / 9e-55 / S-adenosylmethionine decarboxylase / 1.61 / 0.156 / 3.93 10-02 /
EE193702 / CAC10208 / 1e-104 / Malate dehydrogenase / 0.76 / 0.606 / 0.106
EE193797 / AAL90928 / 1e-102 / Phosphofructokinase / 1.67 / 0.140 / 3.57 10-02
EE199454 / AAZ86534 / 2e-74 / Pyruvate kinase / 2.21 / 5.1410-02 / 1.67 10-02 /
EE193281 / CAC80371 / 3e-95 / Acyl-ACP thioesterase / 1.94 / 8.64 10-02 / 2.41 10-02 /
EE194658 / AAC04692 / 1e-105 / Beta-ketoacyl-ACP synthase II / 0.82 / 0.559 / 9.93 10-02 /
EE196983 / AAS19533 / 1e-82 / Omega-6 fatty acid desaturase / 1.05 / 0.402 / 7.94 10-02 /
EL610524 / ABE91390 / 1e-49 / Phospholipid/glycerol acyltransferase / 1.21 / 0.312 / 6.50 10-02
EE191863 / BAA07681 / 8e-73 / Stearoyl ACP desaturase / 1.48 / 0.198 / 4.68 10-02
DV699921 / AAO18666 / 1e-53 / Wax synthase isoform 3 / 0.67 / 0.672 / 0.114
EE195896 / P32980 / 5e-56 / ATP synthase delta chain / 0.44 / 0.848 / 0.136
EE199954 / AAD01605 / 1e-73 / Superoxide dismutase [Cu/Zn] / 2.68 / 2.0910-02 / 7.99 10-03 /
EE196734 / Q8H1T3 / 3e-60 / Ferritin 2 / 2.17 / 5.60 10-02 / 1.77 10-02
EE192360 / BAD27393 / 2e-79 / Glutathione reductase / 1.15 / 0.340 / 7.01 10-02
EE192051 / CAE22480 / 5e-59 / Superoxide dismutase [Fe] / 2.07 / 6.73 10-02 / 2.01 10-02 /
EE192510 / AAT09809 / 3e-46 / Tocopherol cyclase / 2.16 / 5.70 10-02 / 1.78 10-02 /
EE193323 / CAA65735 / 1e-112 / Aconitase / 2.04 / 7.1610-02 / 2.08 10-02
EE192292 / AAB39248 / 1e-106 / Isocitrate dehydrogenase (NADP) / 1.23 / 0.299 / 6.29 10-02
EE199022 / CAB52796 / 2e-40 / NADH dehydrogenase II / 0.99 / 0.441 / 8.57 10-02
EE197116 / NP_759468 / 2e-35 / Cell-wall associated hydrolase / 4.08 / 1.4010-02 / 6.86 10-04
EE195736 / AAF75749 / 2e-40 / Dehydration-induced protein ERD15 / 1.08 / 0.381 / 7.69 10-02
AB015599 / O82147 / 3e-56 / Spermidine synthase / 1.49 / 0.194 / 4.64 10-02
EE199971 / AAM61303 / 1e-55 / Chalcone isomerase / 1.36 / 0.244 / 5.48 10-02 /
EE199401 / BAA84939 / 1e-82 / Dihydroflavonol 4-reductase / 1.24 / 0.298 / 6.29 10-02
AM116757 / CAJ40778 / 0 / Hydroxycinnamoyl transferase hct1 / 1.71 / 0.129 / 3.45 10-02 /
EE200494 / NP_189967 / 7e-80 / Calmodulin / 1.84 / 0.103 / 2.84 10-02
EE193293 / AAP83137 / 1e-116 / Lipoxygenase / 3.38 / 5.3410-03 / 2.44 10-03 /
EE196065 / T00787 / 9e-73 / Beta-galactosidase / 0.58 / 0.746 / 0.123 /
EE197899 / AAF87216 / 1e-103 / Glucose-6-phosphate dehydrogenase / 1.5 / 0.189 / 4.59 10-02
EE200220 / S37592 / 1e-103 / Vacuolar invertase / 1.07 / 0.389 / 7.78 10-02 /
EE196059 / ABA70761 / 1e-77 / Sorbitol dehydrogenase / 0.95 / 0.464 / 8.93 10-02 /
EE196011 / CAD31704 / 6e-67 / Stachyose synthase / 1.26 / 0.286 / 6.21 10-02 /
EE192973 / AM087674 / 0 / Sucrose synthase sus1 / 7.64 / 2.20 10-06 / 1.82 10-06 /
EE196432 / AAO33160 / 1e-68 / Sucrose-phosphatase / 1.28 / 0.275 / 6.04 10-02 /
DV703194 / T01494 / 9e-75 / Trehalose-6-phosphate synthase / 2.64 / 2.2410-02 / 8.38 10-03
EE195881 / S31431 / 3e-66 / UTP-glucose-1-phosphate uridylyltransferase / 0.9 / 0.499 / 9.33 10-02
EE197714 / AAK84080 / 1e-70 / Actin / 2.75 / 1.2910-02 / 5.32 10-03
EE198651 / O22582 / 2e-43 / Histone H2B / 1.9 / 8.0810-02 / 2.30 10-02