Table 3.
Candidate genes and their putative function of associated SNPs for late blight and PCN.
| Trait | Marker | Candidate gene(s) | Putative role/function |
|---|---|---|---|
| AUDPC18 | chr11_5176739 | Soltu.DM.11G005070.1 | “Protein of unknown function DUF455” |
| Soltu.DM.11G005070.2 | “Protein of unknown function DUF455” | ||
| Soltu.DM.11G005080.1 | “S-adenosyl-L-methionine-dependent methyltransferases superfamily protein” | ||
| Soltu.DM.11G005080.2 | “S-adenosyl-L-methionine-dependent methyltransferases superfamily protein” | ||
| chr08_1111466 | Soltu.DM.08G000610.1 | “Polynucleotidyl transferase, ribonuclease H-like superfamily protein” | |
| Soltu.DM.08G000600.1 | “RGPR-related” | ||
| chr03_2054715 | Soltu.DM.03G002130.1 | “P-loop containing nucleoside triphosphate hydrolases superfamily protein” | |
| AUDPC19 | chr11_45392300 | Soltu.DM.11G025400.1 | “Response regulator” |
| Soltu.DM.11G025400.2 | “Response regulator” | ||
| Soltu.DM.11G025400.3 | “Response regulator” | ||
| Soltu.DM.11G025410.1 | “RNA-binding (RRM/RBD/RNP motifs) family protein” | ||
| Soltu.DM.11G025390.1 | “Hypothetical protein” | ||
| chr04_5755401 | Soltu.DM.04G005260.1 | “Dentin sialophosphoprotein-related” | |
| Soltu.DM.04G005260.2 | “Dentin sialophosphoprotein-related” | ||
| Soltu.DM.04G005260.3 | “Dentin sialophosphoprotein-related” | ||
| Soltu.DM.04G005260.4 | “Dentin sialophosphoprotein-related” | ||
| chr05_13326227 | Soltu.DM.05G011500.1 | “Plant U-box” | |
| Soltu.DM.05G011490.1 | “P-loop containing nucleoside triphosphate hydrolases superfamily protein” | ||
| AUDPC20 | chr11_44083171 | Soltu.DM.11G023910.1 | “ENTH/VHS/GAT family protein” |
| GP20 | chr03_30051088 | intergenic region (MODIFIER) | “Intergenic region” |
| chr01_62889722 | Soltu.DM.01G023890.1 | “Ribosomal protein L34e superfamily protein” | |
| chr10_29996650 | intergenic region (MODIFIER) | “Intergenic region” | |
| GP21 | chr01_79870255 | Soltu.DM.11G005070.1 | “Protein of unknown function DUF455” |
| Soltu.DM.01G041380.1 | “Suppressor of auxin resistance1” | ||
| Soltu.DM.01G041380.2 | “Suppressor of auxin resistance1” | ||
| Soltu.DM.01G041380.3 | “Suppressor of auxin resistance1” | ||
| chr05_39730271 | intergenic region (MODIFIER) | “Intergenic region” | |
| chr10_29357976 | intergenic region (MODIFIER) | “Intergenic region” | |
| chr10_45333027 | Soltu.DM.10G016060.1 | “Hypothetical protein” | |
| chr10_29358030 | intergenic region (MODIFIER) | “Intergenic region” | |
| chr11_43021827 | Soltu.DM.11G022980.1 | “SIT4 phosphatase-associated family protein” | |
| Soltu.DM.11G022980.2 | “SIT4 phosphatase-associated family protein” | ||
| Soltu.DM.11G022980.3 | “SIT4 phosphatase-associated family protein” | ||
| Soltu.DM.11G022980.4 | “SIT4 phosphatase-associated family protein” | ||
| Soltu.DM.11G022970.1 | “Auxin response factor” | ||
| Soltu.DM.11G022970.2 | “Auxin response factor” | ||
| Soltu.DM.11G022970.3 | “Auxin response factor” | ||
| Soltu.DM.11G022970.4 | “Auxin response factor” | ||
| GR20 | chr01_48615182 | Soltu.DM.01G018520.1 | “Ubiquitin protein ligase” |
| chr03_27049362 | Soltu.DM.03G010020.1 | “Response regulator” | |
| chr05_52055419 | Soltu.DM.05G023650.1 | “Cellulose synthase-like D1” | |
| Soltu.DM.05G023660.1 | “Methionine–tRNA ligase, putative/methionyl-tRNA synthetase, putative/MetRS, putative | ||
| Soltu.DM.05G023640.1 | cellulose synthase-like D1” | ||
| chr12_53396900 | Soltu.DM.12G023490.1 | “NB-ARC domain-containing disease resistance protein” | |
| Soltu.DM.12G023500.1 | “NB-ARC domain-containing disease resistance protein” | ||
| Soltu.DM.12G023500.2 | “NB-ARC domain-containing disease resistance protein” | ||
| chr12_619482 | Soltu.DM.12G000550.1 | “Phosphate transporter 4;6” | |
| Soltu.DM.12G000560.1 | “Putative glycosyl hydrolase of unknown function (DUF1680)” | ||
| Soltu.DM.12G000560.2 | “Putative glycosyl hydrolase of unknown function (DUF1680)” | ||
| Soltu.DM.12G000560.3 | “Putative glycosyl hydrolase of unknown function (DUF1680)” | ||
| Soltu.DM.12G000560.4 | “Putative glycosyl hydrolase of unknown function (DUF1680)” | ||
| chr01_14013398 | intergenic region (MODIFIER) | “Intergenic region” | |
| chr02_43988105 | Soltu.DM.02G032090.1 | “Phosphoglycerate mutase-like family protein” | |
| Soltu.DM.02G032090.2 | “Phosphoglycerate mutase-like family protein” | ||
| chr05_47262811 | Soltu.DM.05G019450.1 | “Myb domain protein” | |
| Soltu.DM.05G019440.1 | “Remorin family protein” | ||
| GR21 | chr04_43994066 | intergenic region (MODIFIER) | “Intergenic region” |
| chr10_11705153 | intergenic region (MODIFIER) | “Intergenic region” | |
| chr10_29388315 | intergenic region (MODIFIER) | “Intergenic region” | |
| chr03_23982469 | intergenic region (MODIFIER) | “Intergenic region” |
AUDPC18, Late Blight 2018; AUDPC19, Late Blight 2019; AUDPC20, Late Blight 2020; GP20, Globodera pallida 2020; GP21, Globodera pallida 21; GR20, Globodera rostochiensis 20; GR21, Globodera rostochiensis 21.