Table 3.
Trait-associated genes in ROHs of Hanwoo, Black Angus, and Holstein
| 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 |
1MT meat traits.
2DR Disease-resistance traits.
3MK Milk traits.
4FE Fecundity traits.