A protein interaction framework for human mRNA degradation

Genome Research
Ben Lehner, Christopher M Sanderson

Abstract

The degradation of mRNA is an important regulatory step in the control of gene expression. However, mammalian RNA decay pathways remain poorly characterized. To provide a framework for studying mammalian RNA decay, a two-hybrid protein interaction map was generated using 54 constructs from 38 human proteins predicted to function in mRNA decay. The results provide evidence for interactions between many different proteins required for mRNA decay. Of particular interest are interactions between the poly(A) ribonuclease and the exosome and between the Lsm complex, decapping factors, and 5'-->3' exonucleases. Moreover, multiple interactions connect 5'-->3' and 3'-->5' decay proteins to each other and to nonsense-mediated decay factors, providing the opportunity for coordination between decay pathways. The interaction network also predicts the internal organization of the exosome and Lsm complexes. Additional interactions connect mRNA decay factors to many novel proteins and to proteins required for other steps in gene expression. These results provide an experimental insight into the organization of proteins required for mRNA decay and their coupling to other cellular processes, and the physiological relevance of many of these inter...Continue Reading

References

Sep 1, 1996·Molecular Biology of the Cell·N Matsumoto-TaniuraJ M Westendorf
Jun 16, 1999·The EMBO Journal·J Salgado-GarridoB Séraphin
Mar 4, 2000·The EMBO Journal·E DehlinE Wahle
May 10, 2000·Current Opinion in Cell Biology·W He, R Parker
Apr 3, 2001·Nature Reviews. Molecular Cell Biology·C J WiluszS W Peltz
Oct 9, 2001·Bioinformatics·A J Enright, C A Ouzounis
Dec 18, 2001·Journal of Molecular Biology·M RemmE L Sonnhammer
Feb 14, 2002·Trends in Biochemical Sciences·Martyn F SymmonsAgamemnon J Carpousis
Feb 14, 2002·Proceedings of the National Academy of Sciences of the United States of America·Gaurav LaroiaRobert J Schneider
Jul 9, 2002·EMBO Reports·Patrick AloyRobert B Russell
Aug 29, 2002·The EMBO Journal·Hudan LiuMegerditch Kiledjian
Sep 10, 2002·Proceedings of the National Academy of Sciences of the United States of America·Zuoren WangMegerditch Kiledjian
Dec 13, 2002·Proceedings of the National Academy of Sciences of the United States of America·Robert L StrausbergUNKNOWN Mammalian Gene Collection Program Team
Mar 5, 2003·Trends in Genetics : TIG·Arkady B Khodursky, Jonathan A Bernstein
Jun 25, 2003·The Journal of Biological Chemistry·Antonio M EstévezChristine Clayton
Nov 8, 2003·Science·L GiotJ M Rothberg
Jan 6, 2004·Science·Siming LiMarc Vidal
Jul 15, 2004·Briefings in Functional Genomics & Proteomics·Jennifer I SempleR Duncan Campbell

❮ Previous
Next ❯

Citations

Apr 9, 2013·Journal of Neurology·Roberta BiancheriFilippo Maria Santorelli
Mar 6, 2012·Journal of Proteome Research·Gavin C K W KohSandra E Orchard
Jul 11, 2006·Nature Reviews. Molecular Cell Biology·Jonathan HouseleyDavid Tollervey
Jul 7, 2005·Nature Structural & Molecular Biology·Ger J M Pruijn
Dec 6, 2005·Nature Structural & Molecular Biology·Carol J Wilusz, Jeffrey Wilusz
Dec 19, 2006·Nature Structural & Molecular Biology·Andrzej DziembowskiBertrand Séraphin
Jun 14, 2005·Nature Structural & Molecular Biology·Esben LorentzenElena Conti
Jul 19, 2006·Stem Cells and Development·Audrey PlayerErnest S Kawasaki
Mar 14, 2009·Briefings in Functional Genomics & Proteomics·Christopher M Sanderson
Jan 7, 2006·Nucleic Acids Research·Geurt SchildersGer J M Pruijn
Oct 23, 2008·Nucleic Acids Research·Kevin P Callahan, J Scott Butler
May 12, 2009·Nucleic Acids Research·Andrea D'AmbrogioFrancisco E Baralle
Jun 25, 2009·Genome Research·Gabriel MarksonChristopher M Sanderson
Mar 31, 2011·Cold Spring Harbor Symposia on Quantitative Biology·L E MaquatY Tang
Mar 27, 2013·Molecular and Cellular Biology·Mei-Ling LiGary Brewer
Feb 14, 2007·Molecular and Cellular Biology·Elizabeth L Murray, Daniel R Schoenberg
Dec 2, 2009·BMC Bioinformatics·Janusz Dutkowski, Jerzy Tiuryn
Mar 17, 2010·Retrovirology·Xinlu WangGuangxia Gao
Sep 4, 2004·Genome Biology·Ben Lehner, Andrew G Fraser
Dec 18, 2007·PLoS Genetics·Nigel P S CrawfordKent W Hunter
Feb 22, 2012·PloS One·Martin H SchaeferMiguel A Andrade-Navarro
Dec 25, 2013·International Journal of Molecular Sciences·Abigail LubinFeng Gong
May 1, 2010·Reproduction : the Official Journal of the Society for the Study of Fertility·James A MacLean, Miles F Wilkinson
Oct 19, 2007·Proceedings of the National Academy of Sciences of the United States of America·Hong-Wei WangAilong Ke
Dec 23, 2006·Proceedings of the National Academy of Sciences of the United States of America·Xuemin GuoGuangxia Gao
Aug 3, 2006·Proceedings of the National Academy of Sciences of the United States of America·Søren F MidtgaardDitlev E Brodersen
Jul 14, 2010·Proceedings of the National Academy of Sciences of the United States of America·Shuo-Chien LingDon W Cleveland
Sep 20, 2015·Current Genetics·Juan Manuel PolledoAlejandro Cassola
Oct 29, 2008·Current Opinion in Structural Biology·Esben LorentzenElena Conti
Oct 22, 2008·Trends in Molecular Medicine·I-Fan WangC-K James Shen
Apr 10, 2009·Molecular Systems Biology·Alice Bossi, Ben Lehner
May 27, 2006·EMBO Reports·Helena HernándezCarol V Robinson

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.