Global Estimation of mRNA Stability in Yeast

Methods in Molecular Biology

Volumn 734, Issue , 2011, Pages 3-23

  Marín Navarro, Julia ^b   Jauhiainen, Alexandra ^b   Moreno, Joaquín ^b   Alepuz, Paula ^b   Pérez Ortín, José E ^b   Sunnerhagen, Per ^a  

^a UNIVERSITY OF GOTHENBURG   (Sweden)

^b NONE

Author keywords

1 10 Phenanthroline; Exponential decay; Microarray; Transcription

Indexed keywords

FUNGAL RNA;

ARTICLE; GENETIC PROCEDURES; GENETIC TRANSCRIPTION; GENETICS; RNA STABILITY; SACCHAROMYCES CEREVISIAE;

GENETIC TECHNIQUES; RNA STABILITY; RNA, FUNGAL; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION, GENETIC;

EID: 79960145638     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-086-7_1     Document Type: Chapter

References (14)

1. Nonet, M., Scafe, C., Sexton, J., and Young, R. (1987) Eucaryotic RNA polymerase conditional mutant that rapidly ceases mRNA synthesis. Mol Cell Biol 7, 1602–11.
2. Grigull, J., Mnaimneh, S., Pootoolal, J., Robinson, M. D., and Hughes, T. R. (2004) Genome-wide analysis of mRNA stability using transcription inhibitors and microarrays reveals posttranscriptional control of ribosome biogenesis. factors. Mol Cell Biol 24, 5534–47.
3. Molina-Navarro, M. M., Castells-Roca, L., Bellí, G., García-Martínez, J., Marín-Navarro, J., Moreno, J., Pérez-Ortín, J. E., and Herrero, E. (2008) Comprehensive transcriptional analysis of the oxidative response in yeast. J Biol Chem 283, 17908–18.
4. Romero-Santacreu, L., Moreno, J., Pérez Ortín, J. E., and Alepuz, P. (2009) Specific and global regulation of mRNA stability during osmotic stress in Saccharomyces cerevisiae. RNA 15, 1110–20.
5. Molin, C., Jauhiainen, A., Warringer, J., Nerman, O., and Sunnerhagen, P. (2009) mRNA stability changes precede changes in steadystate mRNA amounts during hyperosmotic stress. RNA 15, 600–14.
6. Bernstein, J. A., Khodursky, A. B., Lin, P. H., Lin-Chao, S., and Cohen, S. N. (2002) Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays. Proc Natl Acad Sci U S A 99, 9697–702.
7. Hundt, S., Zaigler, A., Lange, C., Soppa, J., and Klug, G. (2007) Global analysis of mRNA decay in Halobacterium salinarum NRC-1 at single-gene resolution using DNA microarrays. J Bacteriol 189, 6936–44.
8. Andersson, A. F., Lundgren, M., Eriksson, S., Rosenlund, M., Bernander, R., and Nilsson, P. (2006) Global analysis of mRNA stability in the archaeon Sulfolobus. Genome Biol 7, R99.
9. Smyth, G. K. (2004) Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 3, Article3.
10. García-Martínez, J., Aranda, A., and PérezOrtín, J. E. (2004) Genomic run-on evaluates transcription rates for all yeast genes and identifies gene regulatory mechanisms. Mol Cell 15, 303–13.
11. Pérez-Ortín, J. E., Alepuz, P. M., and Moreno, J. (2007) Genomics and gene transcription kinetics in yeast. Trends Genet 23, 250–7.
12. Pelechano, V., and Pérez-Ortín, J. E. (2010) There is a steady state transcriptome in exponentially growing yeast cells. Yeast 27, 413–22.
13. Tu, B. P., Kudlicki, A., Rowicka, M., and McKnight, S. L. (2005) Logic of the yeast metabolic cycle: temporal compartmentalization of cellular processes. Science 310, 1152–8.
14. Reinke, H., and Gatfield, D. (2006) Genomewide oscillation of transcription in yeast. Trends Biochem Sci 31, 189–91.