单磷酸肌苷(IMP)是评价肉类风味的重要指标之一,长链非编码RNA(lncRNAs)在其转录和转录后调控中起着重要作用。目前,关于lncRNA如何调节鸡肌肉中IMP的特异性沉积的信息很少。在这项研究中,我们使用转录组测序来分析靖远鸡的乳房和腿部肌肉的lncRNAs,并鉴定出总共357个差异表达的lncRNAs(DELs),其中上调158例,下调199例。lncRNAs有2,203和7,377个顺式和反式调节的靶基因,分别,我们确定了参与NGF信号通路的lncRNA靶基因,糖酵解/葡萄糖生成和氨基酸途径的生物合成。同时,621对lncRNA-miRNA-mRNA相互作用网络与嘌呤代谢相关的靶基因构建,脂肪酸代谢,和氨基酸的生物合成。接下来,三个相互作用的中观网络gga-miR-1603-LNC_000324-PGM1,gga-miR-1768-LNC_000324-PGM1和gga-miR-21-LNC_011339-AMPD1被鉴定为与IMP特异性沉积密切相关。两种差异表达基因(DEGs)PGM1和AMPD1在IMP合成和代谢相关通路中显著富集,并以有机质合成和能量代谢的形式参与了IMP的合成代谢过程。本研究通过转录组分析获得了影响靖远鸡IMP特异性沉积的lncRNAs和靶基因,这加深了我们对lncRNAs在鸡肉品质中的作用的认识。
Inosine monphosphate (IMP) is one of the important indicators for evaluating meat flavor, and long noncoding RNAs (lncRNAs) play an important role in its transcription and post-transcriptional regulation. Currently, there is little information about how lncRNA regulates the specific deposition of IMP in chicken muscle. In this study, we used transcriptome sequencing to analyze the lncRNAs of the breast and leg muscles of the Jingyuan chicken and identified a total of 357 differentially expressed lncRNAs (DELs), of which 158 were up-regulated and 199 were down-regulated. There were 2,203 and 7,377 cis- and trans-regulated target genes of lncRNAs, respectively, and we identified the lncRNA target genes that are involved in NEGF signaling pathway, glycolysis/glucoseogenesis, and biosynthesis of amino acids pathways. Meanwhile, 621 pairs of lncRNA-miRNA-mRNA interaction networks were constructed with target genes involved in purine metabolism, fatty acid metabolism, and biosynthesis of amino acids. Next, three interacting meso-networks gga-miR-1603-LNC_000324-PGM1, gga-miR-1768-LNC_000324-PGM1, and gga-miR-21-LNC_011339-AMPD1 were identified as closely associated with IMP-specific deposition. Both differentially expressed genes (DEGs) PGM1 and AMPD1 were significantly enriched in IMP synthesis and metabolism-related pathways, and participated in the anabolic process of IMP in the form of organic matter synthesis and energy metabolism. This study obtained lncRNAs and target genes affecting IMP-specific deposition in Jingyuan chickens based on transcriptome analysis, which deepened our insight into the role of lncRNAs in chicken meat quality.
Jingyuan chicken is an excellent local chicken breed listed in the Catalogue of Livestock and Poultry Genetic Resources of China. Its unique growing environment has enabled Jingyuan chicken to develop the characteristics of compact meat, unique flavor, and high nutritional value, which makes it the first choice for chicken food. Inosine monophosphate (IMP) is widely recognized as an important indicator for evaluating the flavor of livestock and poultry meat. To mine potential long noncoding RNAs (lncRNAs) and their regulatory IMP-specific deposition interaction networks, we used transcriptome sequencing to identify 357 lncRNAs that were differentially expressed in breast and leg muscles of 180-d-old Jingyuan hens. We screened the key lncRNAs affecting IMP and three lncRNA-miRNA-mRNA regulatory networks by bioinformatics methods. This provides a new approach to studying IMP-specific deposition, improvement of chicken meat flavor, and breed improvement in Jingyuan chickens.