Correlation of mRNA and protein in complex biological samples

被引:1382
作者
Maier, Tobias [1 ]
Guell, Marc [1 ]
Serrano, Luis [1 ]
机构
[1] Ctr Genom Regulat, Syst Biol Unit, Barcelona 08003, Spain
来源
FEBS LETTERS | 2009年 / 583卷 / 24期
基金
欧洲研究理事会;
关键词
mRNA; Protein; Quantitative; Systems biology; Genomics; Proteomics; TANDEM MASS-SPECTROMETRY; YEAST SACCHAROMYCES-CEREVISIAE; CODON ADAPTATION INDEX; GENOME-WIDE ANALYSIS; N-END RULE; GENE-EXPRESSION; QUANTITATIVE PROTEOMICS; ABSOLUTE QUANTIFICATION; DESULFOVIBRIO-VULGARIS; RELATIVE QUANTITATION;
D O I
10.1016/j.febslet.2009.10.036
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The correlation between mRNA and protein abundances in the cell has been reported to be notoriously poor. Recent technological advances in the quantitative analysis of mRNA and protein species in complex samples allow the detailed analysis of this pathway at the center of biological systems. We give an overview of available methods for the identification and quantification of free and ribosome-bound mRNA, protein abundances and individual protein turnover rates. We review available literature on the correlation of mRNA and protein abundances and discuss biological and technical parameters influencing the correlation of these central biological molecules. (c) 2009 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.
引用
收藏
页码:3966 / 3973
页数:8
相关论文
共 86 条
[1]   Mass spectrometry-based proteomics [J].
Aebersold, R ;
Mann, M .
NATURE, 2003, 422 (6928) :198-207
[2]   In vitro and in silico processes to identify differentially expressed proteins [J].
Allet, N ;
Barrillat, N ;
Baussant, T ;
Boiteau, C ;
Botti, P ;
Bougueleret, L ;
Budin, N ;
Canet, D ;
Carraud, S ;
Chiappe, D ;
Christmann, N ;
Colinge, J ;
Cusin, I ;
Dafflon, N ;
Depresle, B ;
Fasso, I ;
Frauchiger, P ;
Gaertner, H ;
Gleizes, A ;
Gonzalez-Couto, E ;
Jeandenans, C ;
Karmime, A ;
Kowall, T ;
Lagache, S ;
Mahé, E ;
Masselot, A ;
Mattou, H ;
Moniatte, M ;
Niknejad, A ;
Paolini, M ;
Perret, F ;
Pinaud, N ;
Ranno, F ;
Raimondi, S ;
Reffas, S ;
Regamey, PO ;
Rey, PA ;
Rodriguez-Tomé, P ;
Rose, K ;
Rossellat, G ;
Saudrais, C ;
Schmidt, C ;
Villain, M ;
Zwahlen, C .
PROTEOMICS, 2004, 4 (08) :2333-2351
[3]   Quantifying reproducibility for differential proteomics: noise analysis for protein liquid chromatography-mass spectrometry of human serum [J].
Anderle, M ;
Roy, S ;
Lin, H ;
Becker, C ;
Joho, K .
BIOINFORMATICS, 2004, 20 (18) :3575-3582
[4]   Next-generation DNA sequencing techniques [J].
Ansorge, Wilhelm J. .
NEW BIOTECHNOLOGY, 2009, 25 (04) :195-203
[5]   Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae [J].
Arava, Y ;
Wang, YL ;
Storey, JD ;
Liu, CL ;
Brown, PO ;
Herschlag, D .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2003, 100 (07) :3889-3894
[6]  
Ben Larbi Nadia, 2009, V517, P105, DOI 10.1007/978-1-59745-541-1_8
[7]   Localization of ASH1 mRNA particles in living yeast [J].
Bertrand, E ;
Chartrand, P ;
Schaefer, M ;
Shenoy, SM ;
Singer, RH ;
Long, RM .
MOLECULAR CELL, 1998, 2 (04) :437-445
[8]   Post-transcriptional expression regulation in the yeast Saccharomyces cerevisiae on a genomic scale [J].
Beyer, A ;
Hollunder, J ;
Nasheuer, HP ;
Wilhelm, T .
MOLECULAR & CELLULAR PROTEOMICS, 2004, 3 (11) :1083-1092
[9]   Identification and relative quantitation of protein mixtures by enzymatic digestion followed by capillary reversed-phase liquid chromatography-tandem mass spectrometry [J].
Bondarenko, PV ;
Chelius, D ;
Shaler, TA .
ANALYTICAL CHEMISTRY, 2002, 74 (18) :4741-4749
[10]   Synthesis/degradation ratio mass spectrometry for measuring relative dynamic protein turnover [J].
Cargile, BJ ;
Bundy, JL ;
Grunden, AM ;
Stephenson, JL .
ANALYTICAL CHEMISTRY, 2004, 76 (01) :86-97