嗜热四膜虫可变剪接基因鉴定及功能分析
Identification and Functional Analysis of the Alternative Splicing Genes in Tetrahymena thermophila
查看参考文献38篇
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文摘
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可变剪接是产生蛋白质组多样性和调节基因表达的重要机制,相关研究在高等真核生物中开展较多,而在单细胞真核生物中则较少,尤其是单细胞原生动物纤毛虫中,仅有少量报道。本文基于单细胞模式原生动物嗜热四膜虫种大量转录组数据,对其可变剪接基因进行了鉴定及分析。在嗜热四膜虫中共鉴定到2 894个可变剪接位点,涉及到2 698个可变剪接基因,可分为四类。考虑到转录本拼接的准确性,选择了其中464个与基因组预测模型完全一致的可变剪接基因进行深入分析,其中生长(growth)时期、饥饿(starvation)时期、接合生殖(conjugation)时期特异性的可变剪接基因分别为49个、79个和135个。对可变剪接基因的功能进行分析表明其涉及的功能广泛且显著富集于蛋白激酶过程,提示可变剪接基因在嗜热四膜虫蛋白磷酸化和信号传导中具有重要作用。 |
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其他语种文摘
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Alternative splicing (AS) is the important way to generate the protein diversity and post-translational gene expression regulation. Currently, AS studies mainly focused on the high eukaryotes, few studies have been found in the single-celled eukaryotes, especially in the ciliated protozoans. This study analyzed the AS genes in model organism Tetrahymena thermophila based on the next generation transcriptome sequencing (RNA-Seq) data. A total of 2 894 splicing sites were identified in T. thermophila, represented 2 698 AS genes in four different types. Taking into account the accuracy of the transcripts/gene models, 464 highly confident genes were used to further analysis. In these genes, there are 49, 79 and 135 stages specific AS genes in growth, starvation and conjugation, respectively. Functional analysis showed that the AS genes involved in a wide range of biological processes, and significantly enriched in the protein kinase, which suggested that AS play an important role in the protein phosphorylation and cell signaling transduction in T. thermophila. |
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来源
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基因组学与应用生物学
,2015,34(1):17-27 【核心库】
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关键词
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嗜热四膜虫
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转录组
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可变剪接
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鉴定
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功能分析
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地址
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1.
西北师范大学, 生命科学学院, 兰州, 730070
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中国科学院水生生物研究所, 中国科学院水生生物多样性与保护重点实验室, 武汉, 430072
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语种
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中文 |
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文献类型
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研究性论文 |
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ISSN
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1674-568X |
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基金
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国家自然科学基金项目
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文献收藏号
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CSCD:5341984
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参考文献 共
38
共2页
|
|
1.
Blencowe B J. Alternative splicing: new insights from global analyses.
Cell,2006,126(1):37-47
|
被引
40
次
|
|
|
|
|
2.
Boudsocq M. Characterization of Arabidopsis calcium-dependent protein kinases: activated or not by calcium?.
Biochem. J,2012,447(2):291-299
|
被引
3
次
|
|
|
|
|
3.
Chang Y F. The nonsense-mediated decay RNA surveillance pathway.
Annu. Rev. Biochem,2007,76:51-74
|
被引
23
次
|
|
|
|
|
4.
Filichkin S A. Genome-wide mapping of alternative splicing in A rabidopsis thaliana.
Genome Res,2010,20(1):45-58
|
被引
54
次
|
|
|
|
|
5.
Finn R D. The Pfam protein families database.
Nucleic Acids Res,2008,36(Database issue):D281-D288
|
被引
59
次
|
|
|
|
|
6.
Fryer L G. Amp-activated protein kinase and the metabolic syndrome.
Biochem. Soc. Trans,2005,33(Pt 2):362-366
|
被引
9
次
|
|
|
|
|
7.
Glickman M H. The ubiquitin-proteasome proteolytic pathway: destruction for the sake of construction.
Physiol. Rev,2002,82(2):373-428
|
被引
134
次
|
|
|
|
|
8.
Greider C W. Identification of a specific telomere terminal transferase activity in Tetrahymena extracts.
Cell,1985,43(2 Pt 1):405-413
|
被引
75
次
|
|
|
|
|
9.
Hanna R A. Calcium-bound structure of calpain and its mechanism of inhibition by calpastatin.
Nature,2008,456(7220):409-412
|
被引
15
次
|
|
|
|
|
10.
Hershko A. The ubiquitin system for protein degradation and some of its roles in the control of the cell division cycle.
Cell Death Differ,2005,12(9):1191-1197
|
被引
25
次
|
|
|
|
|
11.
Hershko A. The ubiquitin system.
Annu. Rev. Biochem,1998,67:425-479
|
被引
223
次
|
|
|
|
|
12.
Higgins C F. ABC transporters: physiology, structure and mechanism-an overview.
Res. Microbiol,2001,152(3/4):205-210
|
被引
18
次
|
|
|
|
|
13.
Hill D P. Gene ontology annotations: what they mean and where they come from.
BMC Bioinformatics,2008,9(Suppl 5):S2
|
被引
1
次
|
|
|
|
|
14.
Hoagland M. Biochemistry or molecular biology? the discovery of'soluble RNA'.
Trends Biochem. Sci,1996,21(2):77-80
|
被引
1
次
|
|
|
|
|
15.
Jaillon O. Translational control of intron splicing in eukaryotes.
Nature,2008,451(7176):359-362
|
被引
6
次
|
|
|
|
|
16.
Kanehisa M. KEGG: kyoto encyclopedia of genes and genomes.
Nucleic Acids Res,2000,28(1):27-30
|
被引
584
次
|
|
|
|
|
17.
Kataoka N. Identification of the factors that interact with NCBP, an 80 kDa nuclear cap binding protein.
Nucleic Acids Res,1995,23(18):3638-3641
|
被引
1
次
|
|
|
|
|
18.
Koegl M. A novel ubiquitination factor, E4, is involved in multiubiquitin chain assembly.
Cell,1999,96(5):635-644
|
被引
36
次
|
|
|
|
|
19.
Kruger K. Self-splicing RNA: autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena.
Cell,1982,31(1):147-157
|
被引
43
次
|
|
|
|
|
20.
Martinis S A. Aminoacyl-tRNA synthetases: a new image for a classical family.
Biochimie,1999,81(7):683-700
|
被引
4
次
|
|
|
|
|
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