Table 3.
Compiled source of information used for designing a proposed carotenoid biosynthesis pathway diagram for cassava storage root
| Enzyme codea | Common name enzyme symble | Predicted reactionb | cDNA code for microarray spots registered at NCBIc | Gene code at NCBId | Gene code at cassava genomee | Referencesf |
|---|---|---|---|---|---|---|
| EC 2.5.1.32 | CasPSY2/partial | 2 2-cis,6-trans,10-trans-geranylgeranyl diphosphate < = > 15-cis-phytoene + 2 diphosphate | CV03029A1H10.f1 | ADN65331.1 | cassava4.1_008121m | This article |
| EC 2.5.1.32 | PSYa | prephytoene diphosphate → 15-cis-phytoene + diphosphate | CV03071B1B02.f1S | cassava4.1_008056m | This article | |
| EC 2.5.1.32 | PSY2 | 2 2-cis,6-trans,10-trans-geranylgeranyl diphosphate < = > 15-cis-phytoene + 2 diphosphate | CV03029A1H10.f1 | ACY42665.1 | cassava4.1_033101m | Planta 232 (5), 1251–1262 (2010) |
| EC 1.3.99.29 | PDS/partial | 15-cis-phytoene + an oxidized electron acceptor < = > all-trans phytofluene + a reduced electron acceptor | CV03049A2F07.f1 | ABV01926.1 | cassava4.1_004359m | This article |
| EC 5.2.1.12 | CRTISOa | 9,15,9′-tri-cis-ζ-carotene < = > 9,9′-di-cis-ζ-carotene | CV03063A1A06.f1 | cassava4.1_009948m | This article | |
| EC 5.2.1.13 | CasCRTISO/partial | prolycopene < = > all-trans-lycopene | ACI12955.1 | cassava4.1_003897m | This article | |
| EC 5.2.1.13 | CRTISO | prolycopene < = > all-trans-lycopene | CV01018A2H03.f1 | cassava4.1_004361m | This article | |
| EC 1.14.99.30 | ZDS | all-trans-ζ-carotene + an oxidized electron acceptor < = > all-trans neurosporene + a reduced electron acceptor | CV03051B1A05.f1 | cassava4.1_004265m | This article | |
| EC 5.5.1.18 | LCYe | a carotenoid ψ-end group < = > a carotenoid ε-end group | CV03088A2B02.f1 | cassava4.1_005406m | This article | |
| EC 5.5.1.19 | LYCb | a carotenoid ψ-end group < = > a carotenoid β-end group | CV03029A1E07.f1 | cassava4.1_004296m | This article | |
| EC 5.5.1.19 | CasLYCb/partial | all-trans neurosporene < = > β-zeacarotene | ABV01928.1 | cassava4.1_006006m | This article | |
| 1.14.13.129 | BCH1 | all-trans-β-carotene + 2 NADH + 2 H+ + 2 oxygen < = > zeaxanthin + 2 NAD+ + 2 H2O | CV03027B1B06.f1 | cassava4.1_028637m | This article | |
| EC 1.14.13.129 | BCH3 | β-cryptoxanthin + NADH + oxygen + H+ < = > zeaxanthin + NAD+ + H2O | CV03027B1B06.f1 | cassava4.1_012536m | This article | |
| EC 1.14.13.129 | BCH2 | all-trans-β-carotene + NADH + oxygen + H+ < = > β-cryptoxanthin + NAD+ + H2O | ABV01927.1 | cassava4.1_012554m | This article | |
| EC 1.14.99.45 | LUT1 | α-carotene + a reduced electron acceptor + oxygen < = > α-cryptoxanthin + an oxidized electron acceptor + H2O | CV03014A2F11.f1 | cassava4.1_009189m | Planta 232 (5), 1251–1262 (2010) | |
| EC 1.14.13.90 | ZEP1 | zeaxanthin + NAD(P)H + H+ + oxygen < = > antheraxanthin + NAD(P)+ + H2O | CV01016B2C04.f1 | cassava4.1_015824m | This article | |
| EC 1.10.99.3 | VDEP1 | antheraxanthin + L-ascorbate + H+ < = > zeaxanthin + L-dehydro-ascorbate + H2O | CV03056B1A12.f1 | cassava4.1_034146m | This article | |
| EC 1.14.13.90 | ZEP2 | antheraxanthin + NAD(P)H + H+ + oxygen < = > violaxanthin + NAD(P)+ + H2O | CV03123B2F01.f1 | cassava4.1_003132m | Planta 232 (5), 1251–1262 (2010) | |
| EC 1.10.99.3 | VDEP2 | violaxanthin + L-ascorbate + H+ < = > antheraxanthin + L-dehydro-ascorbate + H2O | CV03056B1A12.f1 | cassava4.1_008263m | This article | |
| EC 1.13.11.51 | csZCD | zeaxanthin + 2 oxygen < = > crocetin dialdehyde + 2 (3S)-3-hydroxycyclocitral | CV03025A2B11.f1 | cassava4.1_003867m | This article | |
| EC 5.3.99.9 | CasNXS | violaxanthin < = > trans-neoxanthin | CV01028B2D03.f1 | ABV01925.1 | cassava4.1_027255m | This article |
| EC 1.13.11.51 | NCED | 9-cis-violaxanthin + oxygen < = > 2-cis,4-trans-xanthoxin + (3S,5R,6S)-5,6-epoxy-3-hydroxy-5,6-dihydro-12′-apo-β-caroten-12′-al | CV03025A2B11.f1 | cassava4.1_025279m | This article |
Data and information were collected using different public databases including
aRefers to Enzyme Commission number (EC number)
bSelected possible predicted reaction from PMN http://pmn.plantcyc.org/CASSAVA/NEW-IMAGE?object=CAROTENOID-SYN
cRefers to cDNA sequence for microarray elements registered at NCBI http://www.ncbi.nlm.nih.gov/nucest/76606106?report=fasta
dRefers to protein sequence registered at NCBI http://www.ncbi.nlm.nih.gov/protein/ACY42665.1
eRefers to gene code for protein sequence annotated to cassava proteome data base https://phytozome.jgi.doe.gov/jbrowse/index.html?data=genomes%2FMesculenta&loc=Chromosome08%3A3912601..4149200&tracks=UserBlastResults%2CTranscripts%2CBlatx_Plant_protein&highlight=
fRefers to source for information retrieved