Table 3 Trait-associated genes in ROHs of Hanwoo, Black Angus, and Holstein
From: Whole-genome resequencing of Hanwoo (Korean cattle) and insight into regions of homozygosity
Breed | ROH_ID | Chr. | Gene no. | Trait_ID | Trait-associated genes |
|---|---|---|---|---|---|
Hanwoo | HW_ROH_1 | 2 | 118 | MT1 | PDK1, HAT1, TTN, CHRNA1 |
HW_ROH_2 | 2 | 152 | MT, DR2 | DBI, CTLA4, CD28, IDH1, ALS2, MYL1, ACADL | |
HW_ROH_3 | 2 | 63 | MT, DR | PRKAG3, DES, SLC11A1 | |
HW_ROH_4 | 5 | 98 | MT | SP1, RARG, SOCS2 | |
HW_ROH_9 | 13 | 150 | MT, DR | COL9A3, SIRPA, ATRN | |
HW_ROH_10 | 14 | 5 | MT | FABP4, FABP5 | |
HW_ROH_13 | 21 | 21 | MT, DR | MEF2A, IGF1R | |
Black Angus | BA_ROH_1 | 1 | 19 | DR | IFNAR1, IL10RB |
BA_ROH_3 | 1 | 21 | DR | CD80 | |
BA_ROH_5 | 2 | 64 | MT, DR | CTLA4, CD28, ALS2 | |
BA_ROH_8 | 3 | 26 | MT | RORC | |
BA_ROH_9 | 3 | 26 | MT | PRKAB2 | |
BA_ROH_10 | 3 | 8 | MT | NOTCH2 | |
BA_ROH_14 | 3 | 93 | MT | CPT2, DIO1 | |
BA_ROH_15 | 3 | 26 | DR | PSMB2 | |
BA_ROH_22 | 5 | 169 | MT | SREBF2, FGF6, MCHR1 | |
BA_ROH_25 | 7 | 30 | MT, DR | ADRA1B, IL12B | |
BA_ROH_26 | 7 | 6 | MT | COX7C | |
BA_ROH_31 | 9 | 12 | DR | ESR1 | |
BA_ROH_32 | 9 | 25 | MT, DR | IGF2R, SOD2 | |
BA_ROH_35 | 10 | 20 | MT | ACTN1, SLC8A3 | |
BA_ROH_45 | 13 | 18 | MT, DR, MK3 | LBP, TGM2 | |
BA_ROH_52 | 16 | 5 | MT | CAPN2 | |
BA_ROH_53 | 16 | 40 | MT | PLOD1 | |
BA_ROH_54 | 16 | 58 | MT | SLC2A5 | |
BA_ROH_60 | 19 | 55 | MT, DR | CCL3, ACACA, CCL5 | |
BA_ROH_61 | 19 | 20 | MT | VTN | |
BA_ROH_62 | 20 | 14 | MT | FST | |
BA_ROH_63 | 20 | 33 | MT, DR | PRLR | |
BA_ROH_66 | 21 | 48 | MT, DR | CYP1A1, CTSG, GZMH, GZMB, LOXL1 | |
BA_ROH_67 | 22 | 5 | FE4 | OXTR | |
BA_ROH_69 | 22 | 28 | MT | PDHB | |
BA_ROH_70 | 23 | 56 | MT | PPARD, COX5B | |
BA_ROH_71 | 25 | 9 | DR | IL4R | |
BA_ROH_77 | 29 | 20 | MT | CTSC, ME3 | |
Holstein | HO_ROH_3 | 2 | 35 | MT, DR | IGFBP2, PRKAG3, SLC11A1, IGFBP5 |
HO_ROH_4 | 3 | 60 | MT | COL8A2, COL9A2 | |
HO_ROH_6 | 4 | 27 | MT | PRKAG2 | |
HO_ROH_7 | 5 | 5 | MT | MYF5, MYF6 | |
HO_ROH_8 | 5 | 292 | MT, DR | PRKAG1, WNT1, SLC16A7, IFNG, PFKM, GPD1 | |
HO_ROH_9 | 5 | 137 | MT, DR | CSF2RB, IGF1, MB, PMCH, PVALB, CACNG2 | |
HO_ROH_12 | 7 | 23 | MT | CAST, PCSK1 | |
HO_ROH_15 | 8 | 22 | MT | CTSB, FDFT1 | |
HO_ROH_16 | 8 | 160 | MT, DR | ANXA1, VLDLR, CD72, TPM2, SMARCA2, ALDH1A1 | |
HO_ROH_21 | 11 | 289 | MT, DR | PSMB7, CRAT, NOTCH1, ENG | |
HO_ROH_23 | 12 | 199 | MT | SGCG | |
HO_ROH_28 | 13 | 100 | MT | ITGB1, NEBL, PHYH | |
HO_ROH_29 | 15 | 11 | DR | CASP4, CASP1 | |
HO_ROH_34 | 18 | 132 | MT, DR, MK | MC1R, CYBA, CDH15, FOXC2 | |
HO_ROH_35 | 18 | 26 | MT, FE | HP, CALB2 | |
HO_ROH_39 | 21 | 156 | MT, FE | SERPINA1, PSMA6, CFL2, SERPINA14 | |
HO_ROH_43 | 24 | 13 | MT, DR | MC2R, MC5R | |
HO_ROH_44 | 24 | 54 | MT, DR | MC4R, BCL2 | |
HO_ROH_46 | 25 | 87 | MT | ELN, HSPB1, PLOD3, GPC2, MDH2, SERPINE1 | |
HO_ROH_48 | 27 | 134 | MT, DR | ADRB3, CASP3, FGFR1 | |
HO_ROH_49 | 28 | 52 | MT, MK | MTR, ACTN2 | |
HO_ROH_51 | 29 | 21 | MT | CTSC, ME3 |