绒山羊肌内脂肪细胞成熟前后比较转录组分析

doi:10.11843/j.issn.0366-6964.2014.05.006

畜牧兽医学报 ›› 2014, Vol. 45 ›› Issue (5): 714-721.doi: 10.11843/j.issn.0366-6964.2014.05.006

绒山羊肌内脂肪细胞成熟前后比较转录组分析

杜琛¹，付绍印¹，高鸿雁²，郑竹清¹，孟宪然¹，阿娜¹，萨仁²，张文广^1*，李金泉^1*

（1.内蒙古农业大学动物科学学院,动物育种与繁殖自治区重点实验室，呼和浩特 010018；2.赤峰市克什克腾旗农牧业局改良站，赤峰 025350）

收稿日期:2013-11-11 出版日期:2014-05-23 发布日期:2014-05-15
通讯作者: 张文广，E-mail：actgnmbi@yahoo.com.cn；李金泉，E-mail:lijinquan_nd@126.com
作者简介:杜琛（1986-），女，内蒙古呼和浩特人，博士生，主要从事动物遗传育种与繁殖研究，E-mail：duchen198607@126.com
基金资助:
国家自然科学基金（30960246）；内蒙古自然科学基金（2010Zd11）；国家绒毛用羊现代农业产业技术体系(CARS-40-05)；国家公益性行业（农业）科研专项 (201003019)

Transcriptome Analysis of Intramuscular Preadipocytes and Matureadipocyte in Cashmere Goats

DU Chen¹, FU Shao-yin¹, GAO Hong-yan², ZHENG Zhu-qing ¹ ， MENG Xian-ran¹ ，A Na¹， SA Ren², ZHANG Wen-guang^1*, LI Jin-quan^1*

(1.Key Laboratory of Animal Genetics，Breeding and Reproduction of the Inner Mongolia Autonomous Region，College of Animal Science，Inner Mongolia Agricultural University，Hohhot 010018， China； 2.Agriculture and Animal Husbandry Bureau of Chifeng City Keshiketengqi Improvement Station，Chifeng 025350， China)

Received:2013-11-11 Online:2014-05-23 Published:2014-05-15

摘要/Abstract

摘要：

为了研究绒山羊肌内脂肪细胞在成熟前后差异表达的基因和主要信号转导通路，从而进一步筛选出与脂肪沉积相关的基因。本研究通过利用Illumina MiSeq对绒山羊肌内脂肪细胞在成熟前后转录组进行高通量测序，并用测序评估，基因功能注释，鉴定基因的可变剪接等生物信息学方法进行分析。组装后共获得93 930个contigs，N50为1 586 nt，通过CLCGenomicsworkbench6软件找到差异基因78个（Fold Change＞4，FDR＜0.01）。这些差异基因基于GO 功能注释可分为骨骼肌发育、胞外区、胰岛素样生长因子结合等46个分支，利用KEGG数据库作为参考，这些基因主要参与吞噬体、I型糖尿病、风湿性关节炎等通路中。本研究中分析绒山羊肌内脂肪细胞中4种主要可变剪接类型，为A3SS(Alternative 3′splice site)、A5SS(Alternative 5′splice site)、 SE(Exon skipping)和RI((Intron retention)，其中A3SS最为普遍。高通量RNA-seq提供了全部转录本信息，获得了在肌内脂肪细胞增殖分化过程中有重要功能的基因，其中上调基因在与胰岛素样生长因子结合和糖尿病的代谢通路中有着重要的作用，为人们进一步研究绒山羊脂肪沉积的功能基因组学及优化山羊肉品质奠定基础。

关键词: 绒山羊, 肌内脂肪细胞, 高通量测序, 可变剪接

Abstract:

The purpose of this study was to discover differentially expressed genes between before and after the intramuscular fat cell maturation of Cashmere goats，and find out major signal transduction pathways.Then，the genes associated with fat deposition were screened.The high-throughput sequencing for transcriptome before and after intramuscular fat cell maturation in Cashmere goats was performed by using MiSeq (Illumina).Other bioinformatics methods were also taken，such as sequencing assess，gene function annotation and alternative splicing of the genes identified.A total of 93 930 contigs were obtained by assembling.The value of N50 was 1 586 nt.The 78 differential expression genes are found（Fold Change＞4， FDR＜0.01）by CLCGenomicsworkbench6 software.According to the GO function annotation，these genes could be divided into 46 branches，including skeletal muscle development，extracellular region，insulin-like growth factor binding，et al.According to the KEGG database，the differential genes were mainly involved in these pathways，such as the phagosome，type I diabetes and rheumatoid arthritis，et al.The four mainly splicing types in this study were A3SS(Alternative 3′splice site)，A5SS (Alternative 5′splice site),SE(Exon skipping)and RI((Intron retention).In fact，A3SS was obvious in the intramuscular adipocytes of goat.The high-throughput RNA-seq provided the whole transcript information，the important functional genes were obtained in the process of proliferation and differentiation for intramuscular fat cell.The up-regulation genes might play important roles in the process of insulin-like growth factor binding and diabetes mellitus，which will lay a foundation for further studying functional genomics of Cashmere goat fat deposition and improving the quality of goat.

Key words: Cashmere goat, intramuscular adipocytes, high-throughput sequencing, alternative splicing

中图分类号:

S827
S813.3

杜琛，付绍印，高鸿雁，郑竹清，孟宪然，阿娜，萨仁，张文广，李金泉. 绒山羊肌内脂肪细胞成熟前后比较转录组分析[J]. 畜牧兽医学报, 2014, 45(5): 714-721.

DU Chen, FU Shao-yin, GAO Hong-yan, ZHENG Zhu-qing，MENG Xian-ran，A Na， A Ren, ZHANG Wen-guang， LI Jin-quan. Transcriptome Analysis of Intramuscular Preadipocytes and Matureadipocyte in Cashmere Goats[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2014, 45(5): 714-721.

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绒山羊肌内脂肪细胞成熟前后比较转录组分析

Transcriptome Analysis of Intramuscular Preadipocytes and Matureadipocyte in Cashmere Goats

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