Mapping main, epistatic and sex-specific QTL for body composition in a chicken population divergently selected for low or high growth rate

Ankra-Badu, Georgina A.; Shriner, Daniel; Bihan-Duval, Élisabeth Le; Mignon-Grasteau, Sandrine; Pitel, Frédérique; Beaumont, Catherine; Duclos, M. J.; Simon, Jean; Porter, Tom E.; Vignal, Alain; Cogburn, Larry A.; Allison, David B.; Yi, Nengjun; Aggrey, Samuel E.

doi:10.1186/1471-2164-11-107

Cited by 38 publications

(36 citation statements)

References 41 publications

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“…In addition, apoer2 was also related to AbFP. The gene ankrd10a has been detected as a candidate gene for abdominal fat yield on GGA3 in chicken [47]. The gene iffo2 has been associated with residual body weight gain in cattle [48].…”

Section: Discussionmentioning

confidence: 99%

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

Zheng

Kuang

et al. 2016

PLoS ONE

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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 (ankrd10a), tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2 (tanc2), and four jointed box 1 (fjx1) and choline kinase alpha (chka). These results offer valuable insights into the complex genetic basis of fat metabolism and deposition.

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Section: Discussionmentioning

confidence: 99%

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

Zheng

Kuang

et al. 2016

PLoS ONE

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“…However, some epistatic QTLs have been reported in chickens (Carlborg et al, , 2006Cheng et al, 2007;Wahlberg et al, 2009;Ankra-Badu et al, 2010;Tuiskula-Haavisto et al, 2010, Goto et al, 2011. These epistatic loci have substantial effect on phenotypic variance .…”

Section: Discussionmentioning

confidence: 99%

Quantitative Trait Loci Mapping for External Egg Traits in F<sub>2</sub> Chickens

et al. 2014

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Quantitative trait locus (QTL) mapping of external egg traits in chickens was carried out with 143 microsatellite markers using 388 F 2 hens obtained from an intercross of a Japanese Large Game (Oh-Shamo) male and three White Leghorn females. External egg traits, such as the weight and length of eggs and the weight, thickness, strength, and color of eggshells were measured at three different stages of egg production, i.e. early, middle, and late stages. QTL analyses revealed 10 significant and three suggestive QTLs with main effects on external egg traits on chromosomes 1, 2, 4, 5, 8, 10, 11, 12, 17, and Z. The QTL alleles derived from Oh-Shamo, one of the indigenous Japanese breeds, uniquely increased most external egg traits, whereas some QTL alleles had opposite effects on phenotypic differences between Oh-Shamo and White Leghorn. The QTLs detected accounted for 3.09-15.39% of the phenotypic variances. Although the QTLs on chromosomes 5, 8, and Z were found throughout all three stages, the others were identified at only one or two stages. Epistatic QTLs for external egg traits were not detected in the present study. The age-related changes of our main-effect QTLs illustrate one aspect of the complex genetic basis of external egg traits.

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“…Previous studies have shown that these genes make important contributions during stages of embryogenesis, cell differentiation, and proliferation in chickens (Marie et al, 2002;Gibby et al, 2009). Ankra-Badu et al (2010), studying an F 2 chicken population, identified QTL for body weight, leg length (LL), and leg diameter (LD) in GGA2, 4, and 26. Mapped QTL for body weight at 5-9 weeks of age, LL and LD, are located on chromosome 4 between markers MCW0240-LEI0073 (198-220 cM) and are associated with muscle development and bone growth.…”

Section: Associations Of Fgfbp1 and Fgfbp2 Polymorphisms In Chickensmentioning

confidence: 99%

“…Associations of FGFBP1 and FGFBP2 polymorphisms in chickens Ankra-Badu et al (2010) and Nassar et al (2012). These traits are of paramount importance to the poultry industry, since selection for rapid poultry growth is related to meat quality.…”

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confidence: 99%

Polymorphisms in FGFBP1 and FGFBP2 genes associated with carcass and meat quality traits in chickens

Felício¹,

Boschiero²,

Balieiro³

et al. 2013

Genet. Mol. Res.

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ABSTRACT. In the past, the focus of broiler breeding programs on yield and carcass traits improvement led to problems related to meat quality. Awareness of public concern for quality resulted in inclusion of meat quality traits in the evaluation process. Nevertheless, few genes associated with meat quality attributes are known. Previous studies mapped quantitative trait loci for weight at 35 and 42 days in a region of GGA4 flanked by the microsatellite markers, MCW0240 and LEI0063. In this region, there are 2 fibroblast growth factor binding protein (FGFBP) genes that play an important role in embryogenesis, cellular Associations of FGFBP1 and FGFBP2 polymorphisms in chickens differentiation, and proliferation in chickens. The objective of this study was to identify and associate single nucleotide polymorphisms (SNPs) in FGFBP1 and FGFBP2 with performance, carcass, and meat quality in experimental and commercial chicken populations. In the commercial population, SNP g.2014G>A in FGFBP1 was associated with decreased carcass weight (P < 0.05), and SNP g.651G>A in FGFBP2 was associated with thawing loss and meat redness content (P < 0.05). Four haplotypes were constructed based on 2 SNPs and were associated with breast weight, thawing loss, and meat redness content. The diplotypes were associated with thawing loss, lightness, and redness content. The SNPs evaluated in the present study may be used as markers in poultry breeding programs to aid in improving growth and meat quality traits.

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Mapping main, epistatic and sex-specific QTL for body composition in a chicken population divergently selected for low or high growth rate

Cited by 38 publications

References 41 publications

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

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

Quantitative Trait Loci Mapping for External Egg Traits in F<sub>2</sub> Chickens

Polymorphisms in FGFBP1 and FGFBP2 genes associated with carcass and meat quality traits in chickens

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