Supplementary Table 1. Means and standard deviation of associated meat quality traits in Korean native pig ×Yorkshire crossed F2 animals.

Phenotypic trait / Mean / SD / N
Crude fat (intramuscular fat), % / 2.496 / 1.596 / 349
Crude protein, % / 22.188 / 1.596 / 349
Crude ash, % / 1.059 / 0.138 / 349
Moisture, % / 73.963 / 1.712 / 349
Water holding capacity, % / 58.037 / 6.347 / 349
Meat color (loin) (score) / 3.066 / 0.490 / 349
Marbling (loin) (score) / 2.399 / 1.016 / 349
24-h loin pH / 5.640 / 0.257 / 349
Drip loss (loin), % / 5.112 / 1.815 / 349
Cooking loss (loin), % / 32.261 / 3.538 / 349
Total cholesterol, mg/100g / 142.03 / 84.39 / 349
Sheer force (score) / 1732.46 / 434.47 / 349
Tenderness (score） / 3.069 / 0.300 / 349
Juiciness (score) / 3.065 / 1.344 / 349
Flavor (score) / 2.994 / 0.394 / 349

SupplementaryTable 2. Primer name, sequences, characteristics of amplified PCR products and enzyme for each polymorphism.

NCBI acc. No. / Primer name / Primer sequence (5’-3’) / Size (bp) / Amplify
region / Enzyme, mutation#
AY599894 / FABP3-UF / TGTTCGGACCCCAGGCTCGTG / 294 / 5’- UTR / HinfⅠ, 103TC
FABP3-UR / GTACGCCCCCGCTCCCGAAATAG
Y16180 / FABP3-IN2F / ATTGCTTCGGTGTGTTTGAG / 816 / Intron 2 / MspⅠ,1489CT
FABP3-IN2R / TCAGGAATGGGAGTTATTGG / HaeⅢ,1811GC
HinfⅠ*, 1970TC
AF092422 / LEPR-E8F / GCTGATGAGATCGTCTCAG / 145 / Exon8 / MspⅠ, 915CT
(Pro-Pro)
LEPR-E8R / CTTGTGTGGTAAAAGTAAAGG
LEPR-E20F / CCCTCTTCTTTTGGAGCCTGA / 886 / Exon20 / AvaⅡ, 2856CT
(Asp-Asp)
LEPR-E20R / GAGAAGCTTCTGGAATGAACTTAGACG

#The mutation site is according to the NCBI acc. No. sequence.

Supplementary Table 3. Real-time PCR primer sequences in experiments.

NCBI acc. No. / Gene name / Primer sequence (5’-3’) / TM (℃) / Product size (bp)
NM_001024587 / LEPR / GTGCCACCAACTACAGTCTCTCTACTCTTG
CATCCTCACGAGTTATCTCCATGCTCTCAG / 64 / 130
NM_001099931 / FABP3 / TGGACAGCAAGAATTTCGATGAC
CTTCGATGATTGTGGTAGGCTTG / 62 / 99
DQ845178 / TBP / AACAGTTCAGTAGTTATGAGCCAGA
AGATGTTCTCAAACGCTTCG / 61 / 153
AF017019 / GAPDH / AGGGCATCCTGGGCTACACT
TCCACCACCCTGTTGCTGTA / 58 / 166 (cDNA)
266 (gDNA)

Supplementary Table 4. Genotypic frequencies of FABP3 and LEPR polymorphisms in F0 and F2 animals.

Polymorphism / Genotype / F0 animals / F2 animals
(n=349)
KNP (n=16) / Yorkshire(n=8)
FABP3,
HinfⅠ / CC (hh)1 / 0.25 (4) / 0.13 (1) / 0.08 (28)
CT (Hh) / 0.31 (5) / 0.25 (2) / 0.40 (135)
TT (HH) / 0.44 (7) / 0.62 (5) / 0.52 (169)
FABP3,
MspⅠ / CC (AA)2 / 1 (16) / 1 (8)
CT (Aa) / 0 (0) / 0 (0)
TT (aa) / 0 (0) / 0 (0)
FABP3,
HaeⅢ / CC (DD)1 / 1 (16) / 0.50 (4) / 0.47 (158)
CG (Dd) / 0 (0) / 0.25 (2) / 0.47 (159)
GG (dd) / 0 (0) / 0.25 (2) / 0.06 (20)
FABP3,
HinfⅠ* / CC (bb)3 / 0 (0) / 0.25 (2) / 0.06 (21)
CT (Bb) / 0 (0) / 0.25 (2) / 0.46 (154)
TT (BB) / 1 (16) / 0.50 (4) / 0.48 (161)
LEPR,
MspⅠ / CC / 1 (16) / 1 (8)
CT / 0 (0) / 0 (0)
TT / 0 (0) / 0 (0)
LEPR,
AvaⅡ / TT / 0.31 (5) / 0.63 (5) / 0.47 (161)
CT / 0.64 (7) / 0.37 (3) / 0.40 (137)
CC / 0.25 (4) / 0 (0) / 0.13 (43)
ht1 / ht1/ht1 / 0.50 (8) / 0 (0) / 0.17 (54)
(-TCT-) / -/ht1 / 0.50 (8) / 0.13 (1) / 0.50 (158)
-/- / 0 (0) / 0.87 (7) / 0.33 (105)
ht2 / ht2/ht2 / 0 (0) / 0.63 (5) / 0.09 (27)
(-CCT-) / -/ht2 / 0.44 (7) / 0 (0) / 0.40 (128)
-/- / 0.56 (9) / 0.37 (3) / 0.51 (162)
ht3 / ht3/ht3 / 0 (0) / 0.25 (2) / 0.06 (19)
(-TGC-) / -/ht3 / 0.06 (1) / 0.13 (1) / 0.47 (148)
-/- / 0.94 (15) / 0.63 (5) / 0.47 (150)

1 Nomenclatures of FABP3HinfⅠand HaeⅢallele for genotypes were referred to Gerben et al. (1997); 2 FABP3MspⅠwas referred to Nechtelberger et al. (2001); 3 FABP3 HinfⅠ*was referred to Cao et al. (2002).