全转录组学在畜牧业中的应用

doi:10.16288/j.yczz.18-218

遗传 ›› 2019, Vol. 41 ›› Issue (3): 193-205.doi: 10.16288/j.yczz.18-218

全转录组学在畜牧业中的应用

石田培,张莉()

中国农业科学院北京畜牧兽医研究所,北京 100193

收稿日期:2018-07-31 修回日期:2018-10-22 出版日期:2018-11-15 发布日期:2018-11-14
通讯作者: 张莉 E-mail:zhangli07@caas.cn
作者简介:石田培,在读硕士研究生,专业方向：动物遗传育种与繁殖。E-mail: 1337684764@qq.com
基金资助:
国家自然科学基金项目(U1503285);中国农业科学院基本科研业务费重大项目资助(Y2017XM02)

Application of whole transcriptomics in animal husbandry

Tianpei Shi,Li Zhang()

Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China

Received:2018-07-31 Revised:2018-10-22 Online:2018-11-15 Published:2018-11-14
Contact: Zhang Li E-mail:zhangli07@caas.cn
Supported by:
Supported by the National Natural Science Foundation of China(U1503285);Chinese Academy of Agricultural Sciences(Y2017XM02)

摘要/Abstract

摘要：

RNA作为一种大分子参与基因编码、解码、调控、表达等多种生物学过程。目前,对RNA的功能研究主要通过全转录组测序方法来完成。全转录组研究可以对基因结构与功能进行更深层次地分析和探究,揭示基因表达与生命现象之间的内在联系。现阶段,基于高通量测序技术的转录本结构研究、基因表达水平研究及非编码区域功能研究在模式动物、猪、禽类中已大量开展,但在羊上却鲜有报道。本文介绍了利用RNA-seq及Small RNA-seq 技术研究全转录组的一般流程及常用策略,综述了全转录组学技术在畜牧业领域中的研究进展。

关键词: 基因表达, 全转录组, RNA测序技术, 高通量测序

Abstract:

RNA is a polymeric molecule which is involved in various biological processes including the coding, decoding, regulation, and expression of genes. Whole transcriptome sequencing is the dominant method for studying RNA functions which assists researchers to deepen the exploration and analysis of gene structure and function and to reveal intrinsic links between gene expression and life phenomena. To date, extensive research has been done in animal husbandry models including swine and poultry by using high-throughput RNA sequencing technology. These studies included transcript structure, gene expression level and non-coding region function. In this review, we briefly introduce the general processes and strategies of RNA-seq and small RNA-seq technologies, and summarize the various achievements of the application of whole transcriptomics in animal husbandry.

Key words: gene expression, whole transcriptome, RNA-seq, high-throughput RNA sequencing

石田培,张莉. 全转录组学在畜牧业中的应用[J]. 遗传, 2019, 41(3): 193-205.

Tianpei Shi,Li Zhang. Application of whole transcriptomics in animal husbandry[J]. Hereditas(Beijing), 2019, 41(3): 193-205.

参考文献

[1]	Lockhart DJ, Winzeler EA . Genomics, gene expression and DNA arrays. Nature, 2000,405(6788):827-836.
[2]	Lindberg J, Lundeberg J . The plasticity of the mammalian transcriptome. Genomics, 2010,95(1):1-6.
[3]	Wang Z, Gerstein M, Snyder M . RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet, 2009,10(1):57-63.
[4]	Wong ML, Medrano JF . Real-time PCR for mRNA quantitation. Biotechniques, 2005,39(1):75-85.
[5]	Liu C, LI X, Chen LL . Methods for genome-wide characterization of long noncoding RNAs. Chem Life, 2016, ( 6):745-752.
[6]	Yang L, Duff MO, Graveley BR, Carmichael GG, Chen LL . Genomewide characterization of non-polyadenylated RNAs. Genome Biology, 2011,12(2):R16.
[7]	Carthew RW, Sontheimer EJ . Origins and mechanisms of miRNAs and siRNAs. Cell, 2009,136(4):642-655.
[8]	Chen LL . Linking long noncoding RNA localization and function. Trends Biochem Sci, 2016,41(9):761-772.
[9]	Yin QF, Yang L, Zhang Y, Xiang JF, Wu YW, Carmichael G, Chen LL . Long noncoding RNAs with snoRNA ends. Mol Cell, 2012,48(2):219-230.
[10]	Zhang Y, Zhang X, Chen T, Xiang J, Yin Q, Xing Y, Zhu S, Yang L, Chen L . Circular intronic long noncoding RNAs. Mol Cell, 2013,51(6):792-806.
[11]	Zhang XO, Wang HB, Zhang Y, Lu X, Chen LL, Yang L . Complementary sequence-mediated exon circularization. Cell, 2014,159(1):134-147.
[12]	Qi YX, Liu YB, Rong WH . RNA-Seq and its applications: a new technology for transcriptomics. Hereditas(Beijing), 2011,33(11):1191-1201.
[12]	祁云霞, 刘永斌, 荣威恒 . 转录组研究新技术: RNA- Seq及其应用. 遗传, 2011,33(11):1191-1201.
[13]	Hong QY, Bi XJ, Wang DN, Li ZZ, Yu H, Xia NS, Li SW . Research progress on RNA-Seq technology. Chin J Biochem Pharm, 2017,37(6):443-448.
[13]	洪奇阳, 毕行建, 王大宁, 李子真, 俞海, 夏宁邵, 李少伟 . 转录组测序技术研究进展. 中国生化药物杂志, 2017,37(6):443-448.
[14]	Patel RK, Jain M . NGS QC toolkit: a toolkit for quality control of next generation sequencing data. PLoS One, 2012,7(2):e30619.
[15]	Okonechnikov K, Conesa A, García-Alcalde F . Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data. Bioinformatics, 2016,32(2):292-294.
[16]	Yang X, Liu D, Liu F, Wu J, Zou J, Xiao X, Zhao F, Zhu B . HTQC: a fast quality control toolkit for Illumina sequencing data. BMC Bioinformatics, 2013,14:33.

编辑推荐

Metrics

www.chinagene.cn
备案号：京ICP备09063187号-4
总访问:,今日访问:,当前在线:

全转录组学在畜牧业中的应用

Application of whole transcriptomics in animal husbandry

RichHTML

PDF (PC)

可视化

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 15

编辑推荐

Metrics