全基因组mRNA筛选与功能分析揭示FOXO3为鸡生长的候选基因。
A Genome-Wide mRNA Screen and Functional Analysis Reveal FOXO3 as a Candidate Gene for Chicken Growth.
作者信息
Chen Biao, Xu Jiguo, He Xiaomei, Xu Haiping, Li Guihuan, Du Hongli, Nie Qinghua, Zhang Xiquan
机构信息
Department of Animal Genetics, Breeding and Reproduction, College of Animal Science, South China Agricultural University, Guangzhou, 510642, Guangdong, China; Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding and Key Lab of Chicken Genetics, Breeding and Reproduction, Ministry of Agriculture, Guangzhou, 510642, Guangdong, China.
School of Bioscience and Bioengineering, South China University of Technology, Guangzhou, 510006, China.
出版信息
PLoS One. 2015 Sep 14;10(9):e0137087. doi: 10.1371/journal.pone.0137087. eCollection 2015.
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.
鸡的生长性能为家禽业带来直接经济效益。然而，其潜在的遗传机制尚不清楚。本研究的目的是鉴定与鸡生长相关的候选基因，并研究其潜在机制。我们利用RNA测序技术研究了隐性白洛克鸡（WRRh、WRRl）和杏花鸡（XHh、XHl）高低尾群体胸肌转录组。在WRRh与WRRl、XHh与XHl、WRRh与XHh以及WRRl与XHl的比较中，分别检测到60、23、153和359个差异表达基因。基因本体（GO）、京都基因与基因组百科全书（KEGG）通路及基因网络分析表明，CEBPB、FBXO32、FOXO3和MYOD1在生长过程中发挥关键作用。验证了FBXO32和FOXO3的功能。FBXO32主要在腿部肌肉、心脏和胸肌中表达。FBXO32表达降低后，与生长相关的基因如PDK4、IGF2R和IGF2BP3显著下调（P<0.05）。FBXO32与胴体和肉质性状显著相关（P<0.05），但与生长性状无关。FOXO3主要在胸肌和腿部肌肉中表达。在这两种组织中，杏花鸡的FOXO3 mRNA水平均显著高于体重正常的隐性白洛克鸡（P<0.05）。在DF-1细胞中，敲低FOXO3的小干扰RNA（siRNA）显著抑制了MYOD的表达（P<0.01），并显著上调了包括CEBPB、FBXO32、GH、GHR、IGF1R、IGF2R、IGF2BP1、IGF2BP3、INSR、PDK1和PDK4在内的生长相关基因的表达（P<0.01或P<0.05）。此外，在FOXO3中鉴定出18个单核苷酸多态性（SNP）。G66716193A与生长性状显著相关（P<0.05）。位点C66716002T、C66,716195T和A66716179G与生长或胴体性状显著相关（P<0.05）。这些结果表明FOXO3是影响鸡生长的一个候选基因。我们的观察结果为理解鸡生长的分子基础提供了新线索。
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