Table 2 A list of publications on genome editing in horticultural crops

From: Genome editing for horticultural crop improvement

Species Crop type Genome editing tool Targeted gene Gene function or phenotype Classification of targeted gene Reference
Solanum lycopersicum Vegetable CRISPR SlALS1 Enhanced herbicide resistance Stress response 103
Solanum lycopersicum Vegetable CRISPR SlJAZ2 Resistance to bacterial speck Stress response 104
Solanum lycopersicum Vegetable CRISPR APETALA2a (AP2a), NON-RIPENING (NOR) and FRUITFULL (FUL1/TDR4 and FUL2/MBP7) Fruit development and ripening Development 105
Solanum lycopersicum Vegetable CRISPR Pectate lyase (PL), polygalacturonase 2a (PG2a), and beta-galactanase (TBG4) Cell wall gene, altered fruit color and firmness Development 106
Solanum lycopersicum Vegetable CRISPR SlNPR1 Reduced drought tolerance Stress response 107
Solanum lycopersicum Vegetable CRISPR SlALS1, SlALS2 Enhanced herbicide resistance Stress response 101
Solanum lycopersicum Vegetable CRISPR SlGAI Gibberellin response and dwarfism Development 108
Solanum lycopersicum Vegetable CRISPR SlEIN2, SlERFE1, SlARF2B, SlGRAS8, SlACS2, SlACS4 Ethylene response and fruit development Development 97
Solanum lycopersicum Vegetable CRISPR SBPase Leaf senescence (SBPase in primary metabolism) Metabolism 109
Solanum lycopersicum Vegetable CRISPR CBF1 Chilling tolerance Stress response 110
Solanum lycopersicum Vegetable CRISPR POLYGALACTURONASE (PG) and PECTATE LYASE (PL) Cell wall gene Development 111
Solanum lycopersicum Vegetable CRISPR NPTII N.A. Others 112
Solanum lycopersicum Vegetable CRISPR Psy1 and CrtR-b2 Carotenoid metabolism Metabolism 113
Solanum lycopersicum Vegetable CRISPR NADK2A, IAA9 NAD Kinase 2A; IAA9 Development 114
Solanum lycopersicum Vegetable CRISPR DDM1a, b Decrease in DNA methylation Development 115
Solanum lycopersicum Vegetable CRISPR SlMAPK20 Aborted pollen development Development 116
Solanum lycopersicum Vegetable CRISPR Carotenoid isomerase and Psy1 Carotenoid metabolism Metabolism 117
Solanum lycopersicum Vegetable CRISPR Solyc08g075770 Fusarium wilt susceptibility Stress response 118
Solanum lycopersicum Vegetable CRISPR TypeII GRX 14, 15, 16, 17 Redox regulation Metabolism 119
Solanum lycopersicum Vegetable CRISPR lncRNA1459 Repressed fruit ripening, lycopene, ethylene and carotenoid biosynthesis Metabolism 120
Solanum lycopersicum Vegetable CRISPR SGR1, Blc, LCY-E, LCY-B1, LCY-B2 Increased lycopene content Metabolism 121
Solanum lycopersicum Vegetable CRISPR PDS Albino phenotype Reporter 122
Solanum lycopersicum Vegetable CRISPR SlDML2 DNA methylation and fruit ripening Reporter 66
Solanum lycopersicum Vegetable CRISPR PDS and GABA-TP1, GABA-TP2, GABA-TP3, CAT9 and SSADH γ-aminobutyric acid metabolism Metabolism 123
Solanum lycopersicum Vegetable CRISPR SlMYB12 Pink tomato fruit color Metabolism 124
Solanum lycopersicum Vegetable CRISPR Coat protein, Replicase from TYLCV Obtained resistance to tomato yellow leaf curl virus Stress response 125
Solanum lycopersicum Vegetable CRISPR RIN Ethylene production and fruit ripening Metabolism 126
Solanum pimpinellifolium Vegetable CRISPR SP, MULT, FAS, CyCb, OVUTE and FW2.2 Plant and inflorescence architecture, fruit shape and lycopene biosynthesis Development, metabolism 69
Solanum pimpinellifolium Vegetable CRISPR SP, SP5, CLV3 and WUS, GGP1 plant architecture, day-length insensitivity, enlarged fruit size and vitamin C Development, metabolism 70
Solanum lycopersicum Vegetable CRISPR RIN Ethylene production and fruit ripening Development 68
Solanum lycopersicum Vegetable CRISPR SlORRM4 RNA editing and fruit ripening Development 67
Solanum lycopersicum Vegetable CRISPR ALC Shelf life Metabolism 127
Solanum lycopersicum Vegetable CRISPR CLAVATA-WUSCHEL Altered locule number Development 65
Solanum lycopersicum Vegetable CRISPR SlMAPK3 Drought stress Stress response 128
Solanum lycopersicum Vegetable CRISPR Glutamate decarboxylase (GAD) γ-aminobutyric acid metabolism Metabolism 129
Solanum lycopersicum Vegetable CRISPR Solyc12g038510 Jointless mutant, abscission Development 130
Solanum lycopersicum Vegetable CRISPR Multiple genes Generate a pool of mutants Others 131
Solanum lycopersicum Vegetable CRISPR PSY Fruit color Development 132
Solanum lycopersicum Vegetable CRISPR Solyc12g038510 Jointless and branching Development 133
Solanum lycopersicum Vegetable CRISPR L1L4 Involved in fruit metabolism during ripening Metabolism 134
Solanum lycopersicum Vegetable CRISPR DELLA and ETR Hormone response Development 135
Solanum lycopersicum Vegetable CRISPR SlMlo1 Powdery mildew resistance Stress response 136
Solanum lycopersicum Vegetable CRISPR SlIAA9 Parthenocarpic tomato plants Development 137
Solanum lycopersicum Vegetable CRISPR SP5G More rapid flowering Development 64
Solanum lycopersicum Vegetable CRISPR Genes involved tomato domestication Development and plant architecture Development 138
Solanum lycopersicum Vegetable CRISPR SlAGL6 Production of parthenocarpic fruit under high temperature Development 139
Solanum lycopersicum Vegetable CRISPR N.A N.A Others 140
Solanum lycopersicum Vegetable CRISPR SlBOP Inflorescence structure Development 63
Solanum lycopersicum Vegetable ZFN L1L4 Heterochronic phenotype, plant architecture Development 141
Solanum lycopersicum Vegetable CRISPR PDS and PIF Albino phenotype Reporter 142
Solanum lycopersicum Vegetable CRISPR N.A. N.A. Others 143
Solanum lycopersicum Vegetable TALEN, CRISPR ANT1 Anthocyanin biosynthesis Metabolism 144
Solanum lycopersicum Vegetable CRISPR RIN Fruit ripening Development 145
Solanum lycopersicum Vegetable TALEN PROCERA GA response and taller plant Development 146
Solanum lycopersicum Vegetable CRISPR AGO7 Leaf morphology Development 147
Solanum tuberosum Vegetable CRISPR St16DOX Steroidal glycoalkaloids metabolism Metabolism 148
Solanum tuberosum Vegetable CRISPR GBSS genes Starch biosynthesis Metabolism 149
Solanum tuberosum Vegetable CRISPR S-RNase Self-incompatibility Development 150
Solanum tuberosum Vegetable CRISPR Coilin gene Enhanced resistance to biotic and abiotic agents Stress response 151
Solanum tuberosum Vegetable CRISPR StALS1, StALS2 Enhanced herbicide resistance Stress response 101
Solanum tuberosum Vegetable CRISPR GBSS1 Starch biosynthesis Metabolism 152
Solanum tuberosum Vegetable CRISPR S-Rnase Self-incompatibility Development 72
Solanum tuberosum Vegetable CRISPR Coilin gene Enhanced resistance to biotic and abiotic agents Stress response 153
Solanum tuberosum Vegetable TALEN SBE1 and StvacINV22 Sugar metabolism Metabolism 154
Solanum tuberosum Vegetable CRISPR StMYB44 Phosphorus homeostasis Stress response 155
Solanum tuberosum Vegetable CRISPR GBSS Starch metabolism and tuber quality Metabolism 156
Solanum tuberosum Vegetable TALEN StALS1 Enhanced herbicide resistance Stress response 157
Solanum tuberosum Vegetable TALEN StALS1 Enhanced herbicide resistance Stress response 158
Solanum tuberosum Vegetable TALEN vINV Postharvest cold storage and processing Metabolism 71
Solanum tuberosum Vegetable CRISPR StALS1 Enhanced herbicide resistance Metabolism 159
Solanum tuberosum Vegetable TALEN StALS1 Enhanced herbicide resistance Metabolism 160
Solanum tuberosum Vegetable CRISPR StIAA2 Aux/IAA protein, shoot morphogenesis Development 161
Brassica oleracea Vegetable CRISPR BolC.GA4.a GA response and dwarfism Development 162
Brassica oleracea Vegetable CRISPR BoPDS, BoSRK3, BoMS1 Albino phenotype, self-incompatibility, male sterility Development 163
Brassica napus Vegetable CRISPR LMI1 Leaf lobe development Development 164
Brassica oleracea, rapa Vegetable CRISPR PDS and FRI Albino phenotype and flowering Reporter, development 165
Brassica napus Vegetable CRISPR FAD2 Fatty acid metabolism Metabolism 76
Brassica carinata Vegetable CRISPR Fascilin-like arabinogalactan protein Regulation of root hairs under phosphorus stress Development, stress response 166
Brassica napus Vegetable CRISPR WRKY11 and WRKY70 Enhanced biotic resistance Stress response 167
Brassica napus Vegetable CRISPR SDG8 Histone lysine methyltransferase Development 168
Brassica napus Vegetable CRISPR CLV3 and CLV1, CLV2 Regulate multilocular seeds Development 169
Brassica rapa and napus Vegetable CRISPR AP2a, AP2b Sepal to carpal modification Development 170
Brassica napus Vegetable CRISPR BnaRGA, BnaDA1, BnaDA2, BnaFUL Multiple genes involved in plant development Development 171
Brassica carinata Vegetable CRISPR Fascilin-like arabinogalactan protein Root hair development Development 172
Brassica napus Vegetable CRISPR ALC Valve margin development, seed shattering Development 173
Brassica oleracea Vegetable TALEN FRIGIDA Early flowering phenotype Development 62
Dendrobium officinale Flower CRISPR C3H, C4H, 4CL, CCR, and IRX Lignocellulose biosynthesis Metabolism 174
Lettuce sativa Vegetable CRISPR LsBIN2 Impaired brassinosteroid response Development 83
Lettuce sativa Vegetable CRISPR LsNCED4 Thermo-inhibition of seed germination Development 175
Cucumis sativus Vegetable CRISPR eIF4E Enhanced viral resistance Stress response 176
Cucumis sativus Vegetable CRISPR CmWIP1 Gynoecious phenotype Development 177
Musa balbisiana Fruit CRISPR eBSV Control of virus pathogenesis Stress response 178
Musa acuminata Fruit CRISPR PDS Albino phenotype Reporter 179
Musa acuminata Fruit CRISPR PDS Albino phenotype Reporter 180
Actinidia deliciosa Fruit CRISPR PDS Albino phenotype Reporter 181
Vitis vinifera Fruit CRISPR VvPDS Albino phenotype Reporter 182
Vitis vinifera Fruit CRISPR IdnDH Biosynthesis of tartaric acid Metabolism 183
Vitis vinifera Fruit CRISPR VvWRKY52 Increased the resistance to Botrytis cinerea Stress response 75
Vitis vinifera Fruit CRISPR VvPDS Albino phenotype Reporter 184
Vitis vinifera Fruit CRISPR MLO-7 Powdery mildew resistance Stress response 185
Vitis vinifera Fruit CRISPR IdnDH Biosynthesis of tartaric acid Metabolism 186
Citrus sinensis Fruit CRISPR DMR6 Huanglongbin resistance Stress response 187
Citrus sinensis Fruit CRISPR PDS Albino phenotype Reporter 188
Citrus paradisi Fruit CRISPR CsPDS, Cs2g12470 and Cs7g03360 Albino phenotype Reporter 189
Citrus sinensis Fruit CRISPR PDS Albino phenotype Reporter 190
Citrus sinensis Fruit CRISPR CsLOB1 Canker resistance Stress response 73
Citrus paradisi Fruit CRISPR CsLOB1 Canker resistance Stress response 74
Citrus sinensis Fruit CRISPR CsPDS Albino phenotype Reporter 191
Chrysanthemum morifolium Flower CRISPR CpYGFP Targeted editing of the YGFP reporter gene Others 192
Ipomoea nil Flower CRISPR InDFR-B Anthocyanin biosynthesis and white flowers Metabolism 193
Ipomoea nil Flower CRISPR InCCD4 Altered petal color Development 194
Petunia inflata Flower CRISPR PiSSK1 Self-incompatibility Development 195
Petunia hybrid Flower CRISPR PDS Albino phenotype Reporter 196
Citrullus lanatus Fruit CRISPR ALS Increased herbicide resistance Stress response 197
Citrullus lanatus Fruit CRISPR PDS Albino phenotype Reporter 198
Salvia miltiorrhiza Medicinal plant CRISPR SmCPS1 Tanshinone biosynthesis Metabolism 199
Camelina sativa Vegetable CRISPR FAE1 Reduced long-chain fatty acids Metabolism 77
Camelina sativa Vegetable CRISPR CsDGAT1 or CsPDAT1 Altered fatty acid composition and reduced oil content Metabolism 200
Camelina sativa Vegetable CRISPR FAD2 Reduced levels of polyunsaturated fatty acids Metabolism 78
Camelina sativa Vegetable CRISPR FAD2 Decreased polyunsaturated fatty acids Metabolism 79
Malus pumila Fruit CRISPR PDS, TFL1.1 Albino phenotype, early flowering Development 201
Malus pumila Fruit CRISPR PDS Albino phenotype Reporter 183
Malus pumila Fruit CRISPR PDS Albino phenotype Reporter 202
Malus pumila Fruit CRISPR DIPM Blight resistance Stress response 185
Malus pumila Fruit ZFN udiA Edited reporter gene Others 203
Pyrus communis Fruit CRISPR TFL1.1 Early flowering Development 201
Daucus carota Vegetable CRISPR PDS, MYB113-like Albino phenotype Reporter 204
Daucus carota Vegetable CRISPR F3H Altered anthocyanin biosynthesis Metabolism 205
Torenia fournieri Flower CRISPR F3H Altered flower pigmentation Metabolism 206
Fragaria vesca Fruit CRISPR FveTAA1, FveARF8 Auxin signaling, plant development Development 207
Fragaria vesca, Fragaria x Ananassa Fruit CRISPR FvMYB10, FvCHS Anthocyanin biosynthesis Metabolism 208
Fragaria x Ananassa Fruit CRISPR FaTM6 Anther development Development 209
Fragaria vesca, Fragaria x Ananassa Fruit CRISPR PDS Albino phenotype Reporter 210, 211