Table 1.
Details of identified genes for simply inherited traits in cucumber (as of July 2019).
| # | Category | Sub-category | Gene and mutantsa | Candidate gene (Gy14 V2.0) | Gy14 V2.0 Location | Variants/pleiotropy | Predicted functions |
|---|---|---|---|---|---|---|---|
| 1 | Abiotic stress tolerance | Waterlogging | qARN6.1 (Adventitious roots number) | CsARN6.1 (CsGy6G030800.1) | Chr6: 28825007 | AAA ATPase domain-containing protein | |
| 2 | Disease resistance | Bacterial resistance | psl (Resistance to P. syringae pv. lachrymans) | CsSGR (CsGy5G003280.1) | Chr5: 2149251 | Staygreen (Mg dechelatase) | |
| 3 | Disease resistance | Fungal resistance | cla (Resistance to Colletotrichum lagenarium) | CsSGR (CsGy5G003280.1) | Chr5: 2149251 | Staygreen (Mg dechelatase) | |
| 4 | Disease resistance | Fungal resistance | pm5.1 (Resistance to Podosphaera fusca) | CsMLO1 (CsGy5G026660.1) | Chr5: 30524541 | Three haplotypes | Cell membrane protein of mildew locus O (MLO) |
| 5 | Disease resistance | Fungal resistance | cca-3 (Resistance to Corynespora cassiicola) | cca-3 (CsGy6G019440.1) | Chr6: 19877323 | CC-NB-ARC type resistance homolog | |
| 6 | Disease resistance | Oomycete resistance | dm1 (Resistance to Pseudoperonospora cubensis) | CsSGR (CsGy5G003280.1) | Chr5: 2149251 | Staygreen (Mg dechelatase) | |
| 7 | Disease resistance | Virus resistance | zym (Resistance to Zucchini Yellow Mosaic Virus) | CsVPS4 (CsGy6G012710.1) | Chr6: 10962805 | zymA192-18, zymDina, zymTMG1 | Vacuolar protein sorting-associated protein 4 (VPS4)-like |
| 8 | Vegetative organs | Hypocotyl | sh1 (Short hypocotyl1) | CsSH1 (CsGy3G012350.1) | Chr3: 9318259 | Human SMARCA3 chromatin remodeler | |
| 9 | Vegetative organs | Leaf | vyl (Virescent yellow leaf) | CsVYL (CsGy4G021760.1) | Chr4: 28387102 | DnaJ-like zinc finger protein | |
| 10 | Vegetative organs | Leaf | v-1 (Virescent leaf 1) | CsCNGCs (CsGy6G011700.1) | Chr6: 10205338 | Cyclic-nucleotide-gated ion channel protein | |
| 11 | Vegetative organs | Leaf | yp (Yellow plant; golden leaf) | CsChlI (CsGy6G034680.1) | Chr6: 30831621 | CHLI subunit of Mg-chelatase | |
| 12 | Vegetative organs | Leaf | rl-1 (Round leaf1) | CsPID (CsGy1G024130.1) | Chr1: 22923411 | rl, rl-2 | Serine/threonine kinase |
| 13 | Vegetative organs | Leaf | cul-1 (Curly leaf1) | CsPHB (CsGy6G036200.1) | Chr6: 31806239 | cul-2 | HD-ZIP III transcription factor |
| 14 | Vegetative organs | Leaf | ll (Littleleaf) | CsSAP (CsGy6G009260.1) | Chr6: 7716895 | WD40 repeat domain-containing protein | |
| 15 | Vegetative organs | Leaf | scl-1 (Small and cordate leaf) | CsSCL1 (CsGy7G005090.1) | Chr7: 3797553 | Nucleoside bisphosphate phosphatase | |
| 16 | Vegetative organs | Leaf | Psm (Paternal sorting of mitochondria) | CsPPR336 (CsGy3G036250.1) | Chr3: 34459723 | pentatricopeptide repeat (PPR) protein | |
| 17 | Vegetative organs | Tendril | ten (Tendril-less) | CsTEN (CsGy5G029420.1) | Chr5: 32763879 | TCP transcription factor | |
| 18 | Vegetative organs | Architecture | cp (compact) | CsCullin1 (CsGy6G014690.1) | Chr6: 12880366 | Cullin-1 protein | |
| 19 | Vegetative organs | Architecture | si (short internode) | CsVFB1 (CsGy4G022710.1) | Chr4: 29079919 | F-box protein, VIER F-BOX PROTEIN subfamily | |
| 20 | Vegetative organs | Architecture | scp-1 (Super compact1) | CsCYP85A1 (CsGy5G028960.1) | Chr5: 32438112 | BR-C6-oxidase | |
| 21 | Vegetative organs | Architecture | scp-2 (Super compact2) | CsDET2 (CsGy3G029480.1) | Chr3: 29959460 | steroid 5-alpha-reductase | |
| 22 | Vegetative organs | Trichome | gl1 (Glabrous1) | CsGL1 (CsGy3G031820.1) | Chr3: 31245240 | mict (Micro-trichome) | HD-ZIP I protein |
| 23 | Vegetative organs | Trichome | gl3 (Glabrous3) | CsGL3 (CsGy6G033240.1) | Chr6: 30057625 | tril (Trichome-less) | HD-ZIP IV protein |
| 24 | Flower | Flowering time | qEf1.1 (Early flowering time) (move to QTL) | CsFT (CsGy1G030960.1) | Chr1: 29537849 | Arabidopsis FLOWERING LOCUS T (FT) homolog | |
| 25 | Flower | Male sterility | ms-3 (Male sterility) | ms-3 (CsGy3G001080.1) | Chr3: 804179 | Homeodomain (PHD) finger protein | |
| 26 | Flower | Flower structure | els (Extra long sepal) | CsSEP2 (CsGy4G009560.1) | Chr4:8004182 | SEPALLATA2 (SEP2) | |
| 27 | Flower | Sex expression | F (Femaleness) | CsACS1G (CsGy6G028780.1) | Chr6: 27588957 | 1-aminocyclopropane-1-carboxylic acid synthase (ACS) | |
| 28 | Flower | Sex expression | A (Androecious) | CsACS11 (CsGy2G018140.1) | Chr2: 27954918 | 1-aminocyclopropane-1-carboxylic acid synthase (ACS) | |
| 29 | Flower | Sex expression | a-1 (Androecious-1) | CsACO2 (CsGy6G032740.1) | Chr6: 29787615 | 1-aminocyclopropane-1-carboxylate (ACC) oxidase (ACO) | |
| 30 | Flower | Sex expression | m (Andromonoecious) | CsACS2 (CsGy1G027100.1) | Chr1: 25520318 | m-1 | 1-aminocyclopropane-1-carboxylic acid synthase (ACS) |
| 31 | Fruit | Size and shape | cn (Carpel number) | CsCLV3 (CsGy1G014910.1) | Chr1: 10816556 | CLAVATA3 | |
| 32 | Fruit | Size and shape | mf (Mango fruit) | CsWOX1 (CsGy1G007020.1) | Chr1: 4488841 | WOX1 (WUSCHEL-related homeobox1) | |
| 33 | Fruit | Size and shape | FS1.2 (Fruit size1.2) | CsSUN2 (CsGy1G026840.1) | Chr1: 25331715 | Tomato SUN homolog | |
| 34 | Fruit | Size and shape | FS2.1 (Fruit size2.1) | CsTRM4 (CsGy2G011350.1) | Chr2: 11224424 | AtTRM5/SlTRM5 (TON1 RECRUIT MOTIF) homolog | |
| 35 | Fruit | Size and shape | ful (Fruitful) | CsFUL1 (CsGy1G006040.1) | Chr1:3947246 | MADS-box gene | |
| 36 | Fruit | Size and shape | sf2 (Short fruit 2) | CsSF2 (CsGy2G010390.1) | Chr2: 10113710 | putative RING-type E3 ligase | |
| 37 | Fruit | Peduncle direction | up (upward-pedicel) | CsUP (CsGy1G024010.1) | Chr1: 22736083 | Auxilin-like protein with DnaJ-domain | |
| 38 | Fruit | Epidermal feature | lgp (Light green peel) | CsARC5 (CsGy7G004650.1) | Chr7: 3474053 | Accumulation and Replication of Chloroplasts 5(ARC5) | |
| 39 | Fruit | Epidermal feature | lgf (Light green fruit) | CsYcf54 (CsGy6G010900.1) | Chr6: 9382904 | Ycf54-like protein | |
| 40 | Fruit | Epidermal feature | w (White skin color) | CsAPRR2 (CsGy3G044470.1) | Chr3: 41175650 | two-component response regulator-like APRR2 | |
| 41 | Fruit | Epidermal feature | B (Black spine) | CsMYB60 (CsGy4G001040.1) | Chr4: 635650 | Pleiotropic to R | R2R3-MYB transcription factor |
| 42 | Fruit | Epidermal feature | fs1 (few spines) | CsGL3 (CsGy6G033240) | Chr6: 30057625 | fsd6.2 | HD-ZIP IV protein |
| 43 | Fruit | Epidermal feature | ns (Numerous spines) | CsLAX3 (CsGy2G013240.1) | Chr2: 13010523 | Auxin transporter-like protein 3 | |
| 44 | Fruit | Epidermal feature | tsp (tender spines) | CsTspn (CsGy1G010080.1) | Chr1: 6251039 | gl4 | C-type lectin receptor-like kinase |
| 45 | Fruit | Epidermal feature | Ts1 (Tubercle size) | CsTbs1 (CsGy5G017890.1) | Chr5: 24119025 | Arabidopsis thaliana oleosin homolog | |
| 46 | Fruit | Epidermal feature | Tu (Warty) | CsTu (CsGy5G019590.1) | Chr5: 25945387 | C2H2 zinc finger domain-containing transcription factor | |
| 47 | Fruit | Flesh color | ore (Orange flesh) | CsBCH1 (CsGy3G017310.1) | Chr3: 13300278 | β-carotene hydroxylase | |
| 48 | MISC | Bitterness | bi (bitterfree) | CsBi (CsGy6G007190.1) | Chr6: 6147641 | Cucurbitadienol synthase | |
| 49 | MISC | Bitterness | bl (bitter leaf) | CsBl (CsGy5G003320.1) | Chr5: 2175005 | Basic helix-loop-helix (bHLH) transcription factor | |
| 50 | MISC | Bitterness | bt (bitter fruit) | CsBt (CsGy5G003340.1) | Chr5: 2198903 | Basic helix-loop-helix (bHLH) transcription factor | |
| 51 | MISC | Fragrance | fgr (Fragrance) | CsBADH (CsGy1G001790.1) | Chr1: 1165392 | Betainealdehyde dehydrogenase 2 |