Identification of candidate genes and enriched biological functions for feed efficiency traits by integrating plasma metabolites and imputed whole genome sequence variants in beef cattle

Table 2 A summary of significant SNPs, the number of QTLs, and the number of candidate genes for metabolites associated with feed efficiency traits in a multibreed population of beef cattle

Metabolite¹	P-value range²	β range³	V_SNP/V_P range (%)⁴	V_SNP/V_P mean (%)⁵	No. of QTLs⁶	No. of genes⁷
citric acid	1.47E-06 – 9.75E-06	-29.80 – 37.62	3.57 – 4.95	4.05	15	15
choline	4.94E-07 – 9.90E-06	-89.13 – 84.25	3.85 – 5.43	4.61	13	23
glycine	3.17E-06 – 9.54E-06	68.80 – 75.32	3.97 – 4.65	4.31	9	10
L-tyrosine	2.75E-06 – 9.40E-06	-4.20 – 7.73	3.96 – 4.49	4.11	5	2
L-isoleucine	4.21E-06 – 8.94E-06	-8.88 – 9.75	4.04 – 4.35	4.14	3	3
lysine	9.11E-09 – 9.80E-06	-17.77 – 20.56	3.88 – 7.13	4.82	15	20
L-lactic acid	2.24E-07 – 9.43E-06	-1076.62 – 1261.24	3.74 – 5.95	4.58	16	21
L-glutamine	7.37E-07 – 9.90E-06	-11.76 – 11.53	4.06 – 5.30	4.66	13	13
L-leucine	1.03E-06 – 9.30E-06	-18.12 – 17.33	3.99 – 5.04	4.40	9	12
L-valine	3.64E-06 – 9.78E-06	-25.43 – 24.38	3.73 – 4.46	4.03	8	4
dimethyl sulfone	9.44E-07 – 9.53E-06	-8.46 – 7.52	3.90 – 5.04	4.45	4	2

¹The unit of metabolite concentration is µM
²The P-value range (minimum to maximum) of significant SNPs, the significance level is P-value < 1 × 10⁻⁵
³β range the range of allele substitution effect of each significant SNP
⁴V_SNP/V_P range the range of metabolite phenotypic variance explained by each significant SNP (%)
⁵V_SNP/V_P mean the average of metabolite phenotypic variance explained by each significant SNP (%)
⁶No. of QTLs the number of QTLs identified for each metabolite
⁷No. of genes the number of candidate genes identified for each metabolite

ISSN: 1471-2164