Global analysis of RNA oxidation in Saccharomyces cerevisiae

被引：15

作者：

McKinlay, Anastasia ^{[1
,3
]}

Gerard, Wayne ^{[1
]}

Fields, Stanley ^{[1
,2
,3
]}

机构：

[1] Univ Washington, Dept Genome Sci, Seattle, WA 98195 USA

[2] Univ Washington, Dept Med, Seattle, WA 98195 USA

[3] Univ Washington, Howard Hughes Med Inst, Seattle, WA 98195 USA

来源：

BIOTECHNIQUES | 2012年 / 52卷 / 02期

关键词：

yeast; Saccharomyces cerevisiae; RNA modification; RNA oxidation; 8-OHG modification; free radicals; hydrogen peroxide treatment; GENOME-WIDE ANALYSIS; ALZHEIMERS-DISEASE; DAMAGE; STRESS;

D O I：

10.2144/000113801

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Oxidative RNA damage has been linked to loss of RNA function and to the development of many human age-related diseases. Consequently, a need exists for methods to identify and quantify the extent of RNA oxidation on a genome-wide basis. We developed such a method by combining affinity selection of mRNA containing 8-hydroxyguanine with high throughput DNA sequencing. We demonstrate that this assay is suitable for detecting differences in the extent of oxidation between RNA transcripts. We applied this method to the yeast Saccharomyces cerevisiae grown under physiological conditions and in response to hydrogen peroxide, and detected significantly oxidized RNA transcripts.

引用

页码：109 / 111

页数：3

共 14 条

[1]

Brachmann CB, 1998, YEAST, V14, P115

[2] The efficiency and plasticity of mitochondrial energy transduction [J].

Brand, MD .

BIOCHEMICAL SOCIETY TRANSACTIONS, 2005, 33 :897-904

[3] A comparison of RNA folding measures [J].

Freyhult, E ;

Gardner, PP ;

Moulton, V .

BMC BIOINFORMATICS, 2005, 6 (1)

[4] Vienna RNA secondary structure server [J].

Hofacker, IL .

NUCLEIC ACIDS RESEARCH, 2003, 31 (13) :3429-3431

[5] Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling [J].

Ingolia, Nicholas T. ;

Ghaemmaghami, Sina ;

Newman, John R. S. ;

Weissman, Jonathan S. .

SCIENCE, 2009, 324 (5924) :218-223

[6] RNA damage and surveillance under oxidative stress [J].

Li, Zhongwei ;

Wu, Jinhua ;

DeLeo, Christopher J. .

IUBMB LIFE, 2006, 58 (10) :581-588

[7] Genome-wide analysis of mRNAs targeted to yeast mitochondria [J].

Marc, P ;

Margeot, A ;

Devaux, F ;

Blugeon, C ;

Corral-Debrinski, M ;

Jacq, C .

EMBO REPORTS, 2002, 3 (02) :159-164

[8]

Nunomura A, 1999, J NEUROSCI, V19, P1959

[9] Transcriptome analysis by strand-specific sequencing of complementary DNA [J].

Parkhomchuk, Dmitri ;

Borodina, Tatiana ;

Amstislavskiy, Vyacheslav ;

Banaru, Maria ;

Hallen, Linda ;

Krobitsch, Sylvia ;

Lehrach, Hans ;

Soldatov, Alexey .

NUCLEIC ACIDS RESEARCH, 2009, 37 (18)

[10] 8-Oxo-7,8-dihydroguanine: Links to gene expression, aging, and defense against oxidative stress [J].

Radak, Zsolt ;

Boldogh, Istvan .

FREE RADICAL BIOLOGY AND MEDICINE, 2010, 49 (04) :587-596

← 1 2 →