Table 1. Name of variety and number of samples
Breed
|
Sample/N
|
Breed
|
Sample/N
|
F2
|
798
|
XC
|
260
|
AA
|
636
|
GS
|
174
|
308
|
238
|
CS
|
144
|
HBD
|
282
|
LS
|
202
|
CB
|
193
|
YY
|
44
|
RW
|
187
|
WH
|
216
|
817
|
83
|
GF
|
18
|
HB
|
456
|
GC
|
88
|
LB
|
60
|
|
|
Note: F2 , AA , 308 , HBD , CB , RW , 817 , HL , LM , XC , GS , CS , LS , YY , WH , GF , GC indicate F2 resource population , Arbor Acres broiler , Ross308 , Hubbard breeder s, Cobb broilers , Recessive white chicken , 817 broiler , Hyline brown hen , Lohmann brown laying hen , Xichuan chicken , Gushi chicken , Changshun chicken , Lushi chicken , Yunyang chicken , Wuhei chicken , Guifei chicken , and Henan gamecock , respectively
Table 2.Genotypic and allelic frequencies and related genetic parameters for the chicken SH3RF2 gene
Breed /N
|
Genotypic and allelic frequencies
|
He
|
Ne
|
PIC
|
DD
|
ID
|
II
|
D
|
I
|
F2/798
|
0.06
|
0.34
|
0.60
|
0.23
|
0.77
|
0.35
|
1.55
|
0.29
|
AA/636
|
0.31
|
0.28
|
0.41
|
0.45
|
0.55
|
0.49
|
1.98
|
0.37
|
308/238
|
0.01
|
0.33
|
0.32
|
0.13
|
0.87
|
0.22
|
1.40
|
0.25
|
CB/193
|
0.01
|
0.16
|
0.83
|
0.17
|
0.91
|
0.09
|
1.10
|
0.15
|
HBD/282
|
0
|
0.08
|
0.92
|
0.04
|
0.96
|
0.08
|
1.08
|
0.07
|
817/83
|
0
|
0.30
|
0.70
|
0.15
|
0.85
|
0.26
|
1.34
|
0.22
|
RW/187
XC/260
|
0
0
|
0
0
|
1
1
|
0
0
|
1
1
|
0
0
|
1
1
|
0
0
|
GS/174
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
CS/144
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
GF /18
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
YY /44
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
LS/202
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
WH/216
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
GC/88
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
HB/456
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
LB/60
|
0
|
0
|
1
|
0
|
1
|
0
|
1
|
0
|
Note: F2 , AA , 308 , HBD , CB , RW , 817 , HL , LM , XC , GS , CS , LS , YY , WH , GF , GC indicate F2 resource population , Arbor Acres broiler , Ross308 , Hubbard breeders , Cobb broilers , Recessive white chicken , 817 broiler , Hyline brown hen , Lohmann brown laying hen , Xichuan chicken , Gushi chicken , Changshun chicken , Lushi chicken , Yunyang chicken , Wuhei chicken , Guifei chicken , and Henan gamecock , respectively .
Table 3.Association analysis between SH3RF2 gene mutation and growth traits in the F2 resource population
Traits
|
Mean ± SE
|
P-value
|
II(n=478)
|
ID(n=272)
|
DD(n=47)
|
BW2(g)
|
115.985±2.855ab
|
122.347±1.162a
|
123.847±0.861a
|
0.026
|
BW4(g)
|
308.965±6.814
|
322.282±2.814
|
324.787±2.115
|
0.081
|
BW6(g)
|
536.205±12.649ab
|
563.207±5.306a
|
569.033±3.984a
|
0.042
|
BW8(g)
|
762.844±19.211b
|
817.485±7.894a
|
826.332±5.989a
|
0.007
|
BW10(g)
|
1055.384±23.335ab
|
1113.946±9.888a
|
1123.156±7.358a
|
0.021
|
BW12(g)
|
1287.379±27.936ab
|
1358.504±11.755a
|
1361.616±8.84a
|
0.039
|
SL8(cm)
|
7.713±0.094
|
7.923±0.039
|
7.947±0.029
|
0.061
|
CW8(cm)
|
5.548±0.082
|
5.689±0.034
|
5.698±0.025
|
0.215
|
SG8(cm)
|
3.377±0.033
|
3.411±0.014
|
3.439±0.01
|
0.079
|
BBL4(cm)
|
6.061±0.074ab
|
6.193±0.031a
|
6.267±0.023a
|
0.010
|
BBL8(cm)
|
8.722±0.097ab
|
8.908±0.04a
|
8.964±0.03a
|
0.045
|
BSL4(cm)
|
11.154±0.118ab
|
11.347±0.048a
|
11.475±0.036a
|
0.008
|
Note: BW0 , 2 , 4 , 6 , 8 , 10 , and 12 at 0 days , 2 , 4 , 6 , 8 , 10 and 12 weeks , BW: body weight , SL: Shank length , CW: Chest width , SG: Shank circumference , BBL: Breastbone length , BSL: Body slanting length . The same shoulder letters on the same line indicate no significant difference (P > 0.05); the different letters indicate significant differences (P < 0.05).
Table 4. Association analysis between SH3RF2 gene mutation and carcass traits in the F2 resource population
Traits
|
Mean ± SE
|
P-value
|
II(n=478)
|
ID(n=272)
|
DD(n=47)
|
EW(g)
|
870.526±20.885ab
|
922.81±8.717a
|
928.011±6.63a
|
0.032
|
GW(g)
|
25.955±0.674b
|
27.568±0.284b
|
28.450±0.214ab
|
0.000
|
CW(g)
|
1134.15±24.818ab
|
1190.264±10.44a
|
1198.651±7.936a
|
0.045
|
MW(g)
|
63.095±2.21b
|
71.055±0.918a
|
71.3±0.695a
|
0.002
|
SEW(g)
|
1046.01±24.113ab
|
1104.431±10.102a
|
1109.572±7.62a
|
0.042
|
LMW(g)
|
141.966±3.465ab
|
149.74±1.464a
|
151.338±1.103a
|
0.033
|
EP(%)
|
67.374±0.288ab
|
67.829±0.121a
|
68.109±0.092a
|
0.019
|
SEP(%)
|
81.075±0.288a
|
81.109±0.122ab
|
81.54±0.092a
|
0.011
|
GWR(%)
|
2.016±0.045a
|
2.053±0.019ab
|
2.113±0.015a
|
0.012
|
HWP(%)
|
3.311±0.048
|
3.186±0.02
|
3.208±0.016
|
0.059
|
LWR(%)
|
2.246±0.045a
|
2.125±0.019ab
|
2.145±0.015a
|
0.048
|
BMWR(%)
|
14.383±0.267b
|
15.346±0.11a
|
15.233±0.085a
|
0.004
|
BWLP(%)
|
22.687±0.745
|
23.738±0.313
|
24.342±0.238
|
0.053
|
Note: EW: evisceration weight,GW: gizzard weight,CW: carcass weight,MW: breast muscle weight,SEW: semievisceration weight,LMW: leg muscle weight,EP: evisceration percentage, SEP: semievisceration weight rate,GWR: gizzard weight rate,HWP: head weight percentage, LWR: liver weight rate,BMWR: breast muscle weight rate, BWLP: breast muscle water loss rate. The same shoulder letters on the same line indicate no significant difference (P > 0.05); the different letters indicate significant differences (P < 0.05).