Genome-wide analysis of porcine backfat and intramuscular fat fatty acid composition using high-density genotyping and expression data.
Genome-wide analysis of porcine backfat and intramuscular fat fatty acid composition using high-density genotyping and expression data.
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DOI：
10.1186/1471-2164-14-845
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发表时间：
2013-12-02
期刊：
影响因子：
4.4
通讯作者：
Fernández AI
中科院分区：
文献类型：
--
作者：
Muñoz M;Rodríguez MC;Alves E;Folch JM;Ibañez-Escriche N;Silió L;Fernández AI
脂肪酸组成是影响猪肉品质和营养价值的关键因素。在不同的脂肪组织中已经报道了几个脂肪酸组成的QTL。到目前为止获得的结果似乎指出了不同的遗传控制的脂肪酸组成的脂肪沉积物的条件。这些研究使用简单的方法进行，其中大多数集中在一个单一的组织。本研究的第一个目的是确定组织特异性和组织一致性的QTL的脂肪酸组成的背膘和肌内脂肪，结合连锁作图和GWAS方法和单性状和多性状模型下进行。第二个目标是确定这些组织一致的QTL的强大的候选基因，使用微阵列基因表达数据和有针对性的遗传基因组学方法。单一模型分析，连锁和GWAS，揭示了超过30和20个染色体区域，其中24个是首次在这里确定的，特别是与BF和IMF中不同脂肪酸的含量，分别。多性状模型的分析允许确定第一次与正式的统计方法7个不同的地区与多效性的影响，特别是在两个脂肪沉积的脂肪酸。通过连锁和GWAS方法检测到，在SSC 8上发现C16：0和C16：1（n-7）脂肪酸的最相关性。其他检测到的多效性区域包括C16：0在SSC 1上的一个，C16：0和C18：2在SSC 4上的两个，C20：3在SSC 11上的一个，以及C16：0在SSC 17上的最后一个。最后，利用最长肌和脂肪基因表达数据，对显示组织一致效应的区域进行靶向eQTL扫描。其中，PBX1、RGS4、TRIB3和一个与转录调控元件TLV6基因相近的转录调控元件有待进一步研究。互补基因组扫描已经证实了先前与背膘和肌内脂肪中脂肪酸组成相关的几个染色体区域，但更多的是，以确定新的区域。虽然大多数检测到的区域是组织特异性的，支持这一假设，即影响脂肪酸组成的基因的主要部分不同的组织，7个染色体区域显示组织一致的影响。额外的基因表达分析揭示了强大的靶区域携带负责多效性效应的突变。本文的在线版本（doi：10.1186/1471 - 2164 - 14 - 845）包含补充材料，可供授权用户使用。
Porcine fatty acid composition is a key factor for quality and nutritive value of pork. Several QTLs for fatty acid composition have been reported in diverse fat tissues. The results obtained so far seem to point out different genetic control of fatty acid composition conditional on the fat deposits. Those studies have been conducted using simple approaches and most of them focused on one single tissue. The first objective of the present study was to identify tissue-specific and tissue-consistent QTLs for fatty acid composition in backfat and intramuscular fat, combining linkage mapping and GWAS approaches and conducted under single and multitrait models. A second aim was to identify powerful candidate genes for these tissue-consistent QTLs, using microarray gene expression data and following a targeted genetical genomics approach. The single model analyses, linkage and GWAS, revealed over 30 and 20 chromosomal regions, 24 of them identified here for the first time, specifically associated to the content of diverse fatty acids in BF and IMF, respectively. The analyses with multitrait models allowed identifying for the first time with a formal statistical approach seven different regions with pleiotropic effects on particular fatty acids in both fat deposits. The most relevant were found on SSC8 for C16:0 and C16:1(n-7) fatty acids, detected by both linkage and GWAS approaches. Other detected pleiotropic regions included one on SSC1 for C16:0, two on SSC4 for C16:0 and C18:2, one on SSC11 for C20:3 and the last one on SSC17 for C16:0. Finally, a targeted eQTL scan focused on regions showing tissue-consistent effects was conducted with Longissimus and fat gene expression data. Some powerful candidate genes and regions were identified such as the PBX1, RGS4, TRIB3 and a transcription regulatory element close to ELOVL6 gene to be further studied. Complementary genome scans have confirmed several chromosome regions previously associated to fatty acid composition in backfat and intramuscular fat, but even more, to identify new ones. Although most of the detected regions were tissue-specific, supporting the hypothesis that the major part of genes affecting fatty acid composition differs among tissues, seven chromosomal regions showed tissue-consistent effects. Additional gene expression analyses have revealed powerful target regions to carry the mutation responsible for the pleiotropic effects. The online version of this article (doi:10.1186/1471-2164-14-845) contains supplementary material, which is available to authorized users.
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