Descriptive statistics of phenotypic data.

<p>Descriptive statistics of phenotypic data.</p

SNPs surpassing the suggestive significance level for muscle fat content and abdominal fat traits.

<p>SNPs surpassing the suggestive significance level for muscle fat content and abdominal fat traits.</p

Additional file 1: Table S1. of QTL variations for growth-related traits in eight distinct families of common carp (Cyprinus carpio)

Phenotypic correlations between growth-related traits in eight common. Table S2. List of suggestive (P < 0.05) and significant (P < 0.01) QTLs for body weight (BW) in eight common carp families based on half-sib analysis. Table S3. List of suggestive (P < 0.05) and significant (P < 0.01) QTLs for total length (TL) in eight common carp families based on half-sib analysis. Table S4. List of suggestive (P < 0.05) and significant (P < 0.01) QTLs for body thickness (BT) in eight common carp families based on half-sib analysis. (DOCX 123 kb

Genome-Wide Association Study for Muscle Fat Content and Abdominal Fat Traits in Common Carp (<i>Cyprinus carpio</i>)

<div><p>Muscle fat content is an important phenotypic trait in fish, as it affects the nutritional, technical and sensory qualities of flesh. To identify loci and candidate genes associated with muscle fat content and abdominal fat traits, we performed a genome-wide association study (GWAS) using the common carp 250 K SNP assay in a common carp F₂ resource population. A total of 18 loci surpassing the genome-wide suggestive significance level were detected for 4 traits: fat content in dorsal muscle (MFdo), fat content in abdominal muscle (MFab), abdominal fat weight (AbFW), and AbFW as a percentage of eviscerated weight (AbFP). Among them, one SNP (carp089419) affecting both AbFW and AbFP reached the genome-wide significance level. Ten of those loci were harbored in or near known genes. Furthermore, relative expressions of 5 genes related to MFdo were compared using dorsal muscle samples with high and low phenotypic values. The results showed that 4 genes were differentially expressed between the high and low phenotypic groups. These genes are, therefore, prospective candidate genes for muscle fat content: ankyrin repeat domain 10a (<i>ankrd10a</i>), tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2 (<i>tanc2</i>), and four jointed box 1 (<i>fjx1</i>) and choline kinase alpha (<i>chka</i>). These results offer valuable insights into the complex genetic basis of fat metabolism and deposition.</p></div

Relative mRNA abundance in the high and low dorsal muscle fat content groups.

<p>Relative expression levels were obtained by the 2^-ΔΔCT method; <i>18S</i> was used as normalizing controls. High group (n = 10) consisting of samples from common carp with the highest trait values and Low group (n = 10) with the lowest trait values; *, <i>P</i> < 0.05; ** <i>P</i> < 0.001.</p