Genome-wide analysis of mRNA decay in resting and activated primary human T lymphocytes

Arvind Raghavan, Rachel L. Ogilvie, Cavan Reilly, Michelle L. Abelson, Shalini Raghavan, Jayprakash Vasdewani, Mitchell Krathwohl, Paul R. Bohjanen

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192 Scopus citations


We used microarray technology to measure mRNA decay rates in resting and activated T lymphocytes in order to better understand the role of mRNA decay in regulating gene expression. Purified human T lymphocytes were stimulated for 3 h with medium alone, with an anti-CD3 antibody, or with a combination of anti-CD3 and anti-CD28 antibodies. Actinomycin D was added to arrest transcription, and total cellular RNA was collected at discrete time points over a 2 h period. RNA from each point was analyzed using Affymetrix oligonucleotide arrays and a first order decay model was used to determine the half-lives of approximately 6000 expressed transcripts. We identified hundreds of short-lived transcripts encoding important regulatory proteins including cytokines, cell surface receptors, signal transduction regulators, transcription factors, cell cycle regulators and regulators of apoptosis. Approximately 100 of these short-lived transcripts contained ARE-like sequences. We also identified numerous transcripts that exhibited stimulus-dependent changes in mRNA decay. In particular, we identified hundreds of transcripts whose steady-state levels were repressed following T cell activation and were either unstable in the resting state or destabilized following cellular activation. Thus, rapid mRNA degradation appears to be an important mechanism for turning gene expression off in an activation-dependent manner.

Original languageEnglish (US)
Pages (from-to)5529-5538
Number of pages10
JournalNucleic acids research
Issue number24
StatePublished - Dec 15 2002

Bibliographical note

Funding Information:
We thank Marc Jenkins, Ashley Haase, Vivek Kapur and Arkady Khodursky for critically reading this manuscript. This work was supported by grant R01-AI49494 from the NIH and by an award to the University of Minnesota Medical School under the Research Resources Program of the Howard Hughes Medical Institute.


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