Genome-wide association study confirm major QTL for backfat fatty acid composition on SSC14 in Duroc pigs.
Genome-wide association study confirm major QTL for backfat fatty acid composition on SSC14 in Duroc pigs.
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DOI：
10.1186/s12864-017-3752-0
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发表时间：
2017-05-11
期刊：
影响因子：
4.4
通讯作者：
Grindflek E
中科院分区：
文献类型：
--
作者：
van Son M;Enger EG;Grove H;Ros-Freixedes R;Kent MP;Lien S;Grindflek E
脂肪酸组成对肉质有重要影响，对肉的营养价值至关重要。鉴定脂肪酸水平的遗传因素可用于培育肉质更健康的猪。本研究的目的是进行全基因组关联研究 (GWAS)，以确定影响杜洛克和长白猪背膘脂肪酸组成的 QTL 区域。使用 Axiom 猪 660 K 阵列的数据，我们对 454 头杜洛克公猪和 659 头长白公猪进行了 GWAS，通过近红外光谱 (NIRS) 技术测量脂肪酸表型（C16:0、C16:1n-7、C18:0、C18:1n-9、C18:2n-6、C18:3n-3、总饱和脂肪酸、单不饱和脂肪酸和多不饱和脂肪酸）。在杜洛克中鉴定出 SSC4 和 SSC14 上的两个 QTL 区域用于从头合成脂肪酸性状，而在长白品种中检测到 SSC8 上的一个 QTL 区域用于 C16:1n-7。 SSC14 上的 QTL 区域已在之前的研究中报道过，并且在 SCD 基因的启动子区域中已经提出了假定的致病突变。全基因组重测序数据用于基因型插补并精细绘制挪威杜洛克的 SSC14 QTL 区域。这项工作证实了该染色体上 QTL 的位置，并提出了该区域中其他假定的候选基因。位于 SSC14 上最显着的单核苷酸多态性 (SNP) 解释了挪威杜洛克从头合成脂肪酸性状的 55% 至 76% 的遗传变异和 27% 至 54% 的表型变异。对于长白品种 SSC8 上的 QTL 区域，最显着的 SNP 解释了 C16:1n-7 19% 的遗传变异和 5% 的表型变异。本研究证实了杜洛克SSC14上存在一个影响脂肪酸组成的主要QTL，该QTL可用于遗传选择以提高脂肪酸去饱和水平。 SSC14 QTL 在长白种群中并未分离，但影响 C16:1n-7 的 SSC8 上的另一个 QTL 已被识别，并可用于提高该品种肉制品的去饱和度。本文的在线版本 (doi:10.1186/s12864-017-3752-0) 包含补充材料，可供授权用户使用。
Fatty acid composition contributes importantly to meat quality and is essential to the nutritional value of the meat. Identification of genetic factors underlying levels of fatty acids can be used to breed for pigs with healthier meat. The aim of this study was to conduct genome-wide association studies (GWAS) to identify QTL regions affecting fatty acid composition in backfat from the pig breeds Duroc and Landrace. Using data from the Axiom porcine 660 K array, we performed GWAS on 454 Duroc and 659 Landrace boars for fatty acid phenotypes measured by near-infrared spectroscopy (NIRS) technology (C16:0, C16:1n-7, C18:0, C18:1n-9, C18:2n-6, C18:3n-3, total saturated fatty acids, monounsaturated fatty acids and polyunsaturated fatty acids). Two QTL regions on SSC4 and SSC14 were identified in Duroc for the de novo synthesized fatty acids traits, whereas one QTL on SSC8 was detected in Landrace for C16:1n-7. The QTL region on SSC14 has been reported in previous studies and a putative causative mutation has been suggested in the promoter region of the SCD gene. Whole genome re-sequencing data was used for genotype imputation and to fine map the SSC14 QTL region in Norwegian Duroc. This effort confirms the location of the QTL on this chromosome as well as suggesting other putative candidate genes in the region. The most significant single nucleotide polymorphisms (SNPs) located on SSC14 explain between 55 and 76% of the genetic variance and between 27 and 54% of the phenotypic variance for the de novo synthesized fatty acid traits in Norwegian Duroc. For the QTL region on SSC8 in Landrace, the most significant SNP explained 19% of the genetic variance and 5% of the phenotypic variance for C16:1n-7. This study confirms a major QTL affecting fatty acid composition on SSC14 in Duroc, which can be used in genetic selection to increase the level of fatty acid desaturation. The SSC14 QTL was not segregating in the Landrace population, but another QTL on SSC8 affecting C16:1n-7 was identified and might be used to increase the level of desaturation in meat products from this breed. The online version of this article (doi:10.1186/s12864-017-3752-0) contains supplementary material, which is available to authorized users.