A Genome-Wide mRNA Screen and Functional Analysis Reveal FOXO3 as a Candidate Gene for Chicken Growth.
A Genome-Wide mRNA Screen and Functional Analysis Reveal FOXO3 as a Candidate Gene for Chicken Growth.
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全基因组 mRNA 筛选和功能分析显示 FOXO3 是鸡生长的候选基因
DOI：
10.1371/journal.pone.0137087
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Zhang X
中科院分区：
文献类型：
--
作者：
Chen B;Xu J;He X;Xu H;Li G;Du H;Nie Q;Zhang X
鸡的生长表现为养禽业提供了直接的经济效益。然而，潜在的遗传机制尚不清楚。本研究的目的是寻找与鸡生长相关的候选基因，并探讨其可能的作用机制。利用RNA-Seq技术对隐性白岩鸡(WRRh，WRR1)和兴化鸡(XHh，Xh1)的高、低尾胸肌转录组进行了研究。在WRRh与WRR1、XHh与XH1、WRRh与XHh和WRR1与XH1中分别检测到60、23、153和359个差异表达基因。GO、KEGG途径和基因网络分析表明，CEBPB、FBXO32、FOXO3和MYOD1在生长中起关键作用。验证了FBXO32和FOX03的功能。FBXO32主要在腿部肌肉、心脏和胸肌表达。FBXO32表达下调后，生长相关基因PDK4、IGF2R和IGF2BP3表达显著下调(P<；0.05)。FBXO32与屠体和肉质性状显著相关(P<；0.05)，但与生长性状无显著相关。FOXO_3主要在胸肌和腿部肌肉中表达。在这两种组织中，XH鸡FOXO_3基因表达水平均显著高于WRR鸡(P<；0.05)。在DF-1细胞中，FOXO_3的siRNA抑制MYOD表达，显著上调生长相关基因CEBPB、FBXO32、GH、GHR、IGF1R、IGF2R、IGF2BP1、IGF2BP3、INSR、PDK1和PDK4的表达(P<；0.01或P<；0.05)。此外，在FOXO_3中还发现了18个SNP。G66716193A与生长性状显著相关(P<；0.05)。C66716002T、C66716195T和A66716179G与生长性状或屠体性状显著相关(P<；0.05)。这些结果表明FOXO_3是影响鸡生长发育的候选基因。我们的观察为理解鸡生长的分子基础提供了新的线索。
Chicken growth performance provides direct economic benefits to the poultry industry. However, the underlying genetic mechanisms are unclear. The objective of this study was to identify candidate genes associated with chicken growth and investigate their potential mechanisms. We used RNA-Seq to study the breast muscle transcriptome in high and low tails of Recessive White Rock (WRRh, WRRl) and Xinghua chickens (XHh, XHl). A total of 60, 23, 153 and 359 differentially expressed genes were detected in WRRh vs. WRRl, XHh vs. XHl, WRRh vs. XHh and WRRl vs. XHl, respectively. GO, KEGG pathway and gene network analyses showed that CEBPB, FBXO32, FOXO3 and MYOD1 played key roles in growth. The functions of FBXO32 and FOXO3 were validated. FBXO32 was predominantly expressed in leg muscle, heart and breast muscle. After decreased FBXO32 expression, growth-related genes such as PDK4, IGF2R and IGF2BP3 were significantly down-regulated (P < 0.05). FBXO32 was significantly (P < 0.05) associated with carcass and meat quality traits, but not growth traits. FOXO3 was predominantly expressed in breast and leg muscle. In both of these tissues, the FOXO3 mRNA level in XH was significantly higher than that in WRR chickens with normal body weight (P < 0.05). In DF-1 cells, siRNA knockdown of FOXO3 significantly (P < 0.01) inhibited the MYOD expression and significantly up-regulated (P < 0.01 or P < 0.05) the expression of growth-related genes including CEBPB, FBXO32, GH, GHR, IGF1R, IGF2R, IGF2BP1, IGF2BP3, INSR, PDK1 and PDK4. Moreover, 18 SNPs were identified in FOXO3. G66716193A was significantly (P < 0.05) associated with growth traits. The sites C66716002T, C66716195T and A66716179G were significantly (P < 0.05) associated with growth or carcass traits. These results demonstrated that FOXO3 is a candidate gene influencing chicken growth. Our observations provide new clues to understand the molecular basis of chicken growth.