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Gene Expression

Global Analysis of Pub1p Targets Reveals a Coordinate Control of Gene Expression through Modulation of Binding and Stability

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Pages 5499-5513 | Received 24 Jan 2005, Accepted 24 Mar 2005, Published online: 27 Mar 2023

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Anthony D. Fischer & Wendy M. Olivas. (2018) Multiple Puf proteins regulate the stability of ribosome biogenesis transcripts. RNA Biology 15:9, pages 1228-1243.
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Valery N. Urakov, Aleksandra B. Vishnevskaya, Ilya M. Alexandrov, Vitaly V. Kushnirov, Vladimir N. Smirnov & Michael D. Ter-Avanesyan. (2010) Interdependence of amyloid formation in yeast. Prion 4:1, pages 45-52.
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Luciano H. Apponi, Seth M. Kelly, Michelle T. Harreman, Alexander N. Lehner, Anita H. Corbett & Sandro R. Valentini. (2007) An Interaction between Two RNA Binding Proteins, Nab2 and Pub1, Links mRNA Processing/Export and mRNA Stability. Molecular and Cellular Biology 27:18, pages 6569-6579.
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Joshua J. Hamey, Amy Nguyen & Marc R. Wilkins. (2021) Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae . Journal of Proteome Research 20:5, pages 2420-2434.
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Kendra Reynaud, Molly Brothers, Michael Ly & Nicholas T. Ingolia. (2021) Dynamic post-transcriptional regulation by Mrn1 links cell wall homeostasis to mitochondrial structure and function. PLOS Genetics 17:4, pages e1009521.
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Leon Y Chan, Christopher F Mugler, Stephanie Heinrich, Pascal Vallotton & Karsten Weis. (2018) Non-invasive measurement of mRNA decay reveals translation initiation as the major determinant of mRNA stability. eLife 7.
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Farzaneh Eghbal, Reza Hoveida, Seyed Ali Siadat, Hossein Samavatyan & Mohammad Hossein Yarmohammadian. (2017) Identifying the Talent Management Components of Faculty Members. Strides in Development of Medical Education 14:2.
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Carlo Baejen, Phillipp Torkler, Saskia Gressel, Katharina Essig, Johannes Söding & Patrick Cramer. (2014) Transcriptome Maps of mRNP Biogenesis Factors Define Pre-mRNA Recognition. Molecular Cell 55:5, pages 745-757.
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Mina Fazlollahi, Eunjee Lee, Ivor Muroff, Xiang-Jun Lu, Pilar Gomez-Alcala, Helen C Causton & Harmen J Bussemaker. (2014) Harnessing Natural Sequence Variation to Dissect Posttranscriptional Regulatory Networks in Yeast. G3 Genes|Genomes|Genetics 4:8, pages 1539-1553.
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Chongxu Zhang, Xin Wang, Shiwha Park, Yueh-chin Chiang, Wen Xi, Thomas M. Laue & Clyde L. Denis. (2014) Only a subset of the PAB1-mRNP proteome is present in mRNA translation complexes. Protein Science 23:8, pages 1036-1049.
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Jung H. Doh, Sheila Lutz & M. Joan Curcio. (2014) Co-translational Localization of an LTR-Retrotransposon RNA to the Endoplasmic Reticulum Nucleates Virus-Like Particle Assembly Sites. PLoS Genetics 10:3, pages e1004219.
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Joseph V. Geisberg, Zarmik Moqtaderi, Xiaochun Fan, Fatih Ozsolak & Kevin Struhl. (2014) Global Analysis of mRNA Isoform Half-Lives Reveals Stabilizing and Destabilizing Elements in Yeast. Cell 156:4, pages 812-824.
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Clare E. Simpson, Jennifer Lui, Christopher J. Kershaw, Paul F. G. Sims & Mark P. Ashe. (2014) mRNA localization to P-bodies in yeast is bi-phasic with many mRNAs captured in a late Bfr1p-dependent wave. Journal of Cell Science.
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Helena Orozco, Emilia Matallana & Agustín Aranda. (2013) Genetic manipulation of longevity-related genes as a tool to regulate yeast life span and metabolite production during winemaking. Microbial Cell Factories 12:1.
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Mamoru Yamanishi, Yoichiro Ito, Reiko Kintaka, Chie Imamura, Satoshi Katahira, Akinori Ikeuchi, Hisao Moriya & Takashi Matsuyama. (2013) A Genome-Wide Activity Assessment of Terminator Regions in Saccharomyces cerevisiae Provides a ″Terminatome″ Toolbox . ACS Synthetic Biology 2:6, pages 337-347.
Crossref
Julia Salzman, Daniel M. Klass & Patrick O. Brown. (2013) Improved Discovery of Molecular Interactions in Genome-Scale Data with Adaptive Model-Based Normalization. PLoS ONE 8:1, pages e53930.
Crossref
Rémy Merret, Luigi Martino, Cécile Bousquet-Antonelli, Sara Fneich, Julie Descombin, Élodie Billey, Maria R. Conte & Jean-Marc Deragon. (2013) The association of a La module with the PABP-interacting motif PAM2 is a recurrent evolutionary process that led to the neofunctionalization of La-related proteins. RNA 19:1, pages 36-50.
Crossref
Roy Parker. (2012) RNA Degradation in Saccharomyces cerevisae . Genetics 191:3, pages 671-702.
Crossref
Carl R. FellbaumEmma W. GachomoYugandhar BeesettySulbha ChoudhariGary D. Strahan, Philip E. Pfeffer, E. Toby Kiers & Heike Bücking. (2012) Carbon availability triggers fungal nitrogen uptake and transport in arbuscular mycorrhizal symbiosis. Proceedings of the National Academy of Sciences 109:7, pages 2666-2671.
Crossref
Clara M. Santiveri, Yasmina Mirassou, Palma Rico-Lastres, Santiago Martínez-Lumbreras & José Manuel Pérez-Cañadillas. (2011) Pub1p C-Terminal RRM Domain Interacts with Tif4631p through a Conserved Region Neighbouring the Pab1p Binding Site. PLoS ONE 6:9, pages e24481.
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Mally Dori-Bachash, Efrat Shema & Itay Tirosh. (2011) Coupled Evolution of Transcription and mRNA Degradation. PLoS Biology 9:7, pages e1001106.
Crossref
Laia Castells-Roca, José García-Martínez, Joaquín Moreno, Enrique Herrero, Gemma Bellí & José E. Pérez-Ortín. (2011) Heat Shock Response in Yeast Involves Changes in Both Transcription Rates and mRNA Stabilities. PLoS ONE 6:2, pages e17272.
Crossref
Ritu Jain, Tiffany Devine, Ajish D. George, Sridar V. Chittur, Timothy E. Baroni, Luiz O. Penalva & Scott A. Tenenbaum. 2011. RNA. RNA 247 263 .
Andrew G. Cridge, Lydia M. Castelli, Julia B. Smirnova, Julian N. Selley, William Rowe, Simon J. Hubbard, John E.G. McCarthy, Mark P. Ashe, Christopher M. Grant & Graham D. Pavitt. (2010) Identifying eIF4E-binding protein translationally-controlled transcripts reveals links to mRNAs bound by specific PUF proteins. Nucleic Acids Research 38:22, pages 8039-8050.
Crossref
Yoon-Dong Park, John Panepinto, Soowan Shin, Peter Larsen, Steven Giles & Peter R. Williamson. (2010) Mating Pheromone in Cryptococcus neoformans Is Regulated by a Transcriptional/Degradative “Futile” Cycle. Journal of Biological Chemistry 285:45, pages 34746-34756.
Crossref
Heng Li, Hui Shi, Hong Wang, Zhiqiang Zhu, Xu Li, Yongxiang Gao, Yingji Cui, Liwen Niu & Maikun Teng. (2010) Crystal structure of the two N-terminal RRM domains of Pub1 and the poly(U)-binding properties of Pub1. Journal of Structural Biology 171:3, pages 291-297.
Crossref
Jerome E. Lee, Ju Youn Lee, Jeffrey Wilusz, Bin Tian & Carol J. Wilusz. (2010) Systematic Analysis of Cis-Elements in Unstable mRNAs Demonstrates that CUGBP1 Is a Key Regulator of mRNA Decay in Muscle Cells. PLoS ONE 5:6, pages e11201.
Crossref
Adam R. Morris, Neelanjan Mukherjee & Jack D. Keene. (2009) Systematic analysis of posttranscriptional gene expression. WIREs Systems Biology and Medicine 2:2, pages 162-180.
Crossref
J. Ross Buchan, Tracy Nissan & Roy Parker. 2010. Guide to Yeast Genetics: Functional Genomics, Proteomics, and Other Systems Analysis. Guide to Yeast Genetics: Functional Genomics, Proteomics, and Other Systems Analysis 619 640 .
Nitish Mittal, Nilanjan Roy, M. Madan Babu & Sarath Chandra Janga. (2009) Dissecting the expression dynamics of RNA-binding proteins in posttranscriptional regulatory networks. Proceedings of the National Academy of Sciences 106:48, pages 20300-20305.
Crossref
Lorena Romero-Santacreu, Joaquín Moreno, José E. Pérez-Ortín & Paula Alepuz. (2009) Specific and global regulation of mRNA stability during osmotic stress in Saccharomyces cerevisiae . RNA 15:6, pages 1110-1120.
Crossref
Claes Molin, Alexandra Jauhiainen, Jonas Warringer, Olle Nerman & Per Sunnerhagen. (2009) mRNA stability changes precede changes in steady-state mRNA amounts during hyperosmotic stress. RNA 15:4, pages 600-614.
Crossref
Alice Barkan. 2009. Plant Systems Biology. Plant Systems Biology 13 37 .
Ta-tsen Soong, Kazimierz O. Wrzeszczynski & Burkhard Rost. (2008) Physical protein–protein interactions predicted from microarrays. Bioinformatics 24:22, pages 2608-2614.
Crossref
J. Ross Buchan, Denise Muhlrad & Roy Parker. (2008) P bodies promote stress granule assembly in Saccharomyces cerevisiae. Journal of Cell Biology 183:3, pages 441-455.
Crossref
Hélène Gaillard & Andrés Aguilera. (2008) A Novel Class of mRNA-containing Cytoplasmic Granules Are Produced in Response to UV-Irradiation. Molecular Biology of the Cell 19:11, pages 4980-4992.
Crossref
Michal Rabani, Michael Kertesz & Eran Segal. (2008) Computational prediction of RNA structural motifs involved in posttranscriptional regulatory processes. Proceedings of the National Academy of Sciences 105:39, pages 14885-14890.
Crossref
Daniel Melamed, Lilach Pnueli & Yoav Arava. (2008) Yeast translational response to high salinity: Global analysis reveals regulation at multiple levels. RNA 14:7, pages 1337-1351.
Crossref
R. E. Halbeisen, A. Galgano, T. Scherrer & A. P. Gerber. (2007) Post-transcriptional gene regulation: From genome-wide studies to principles. Cellular and Molecular Life Sciences 65:5.
Crossref
Daniel H. Lackner & Jürg Bähler. 2008. 199 251 .
Dario O. Passos & Roy Parker. 2008. RNA Turnover in Eukaryotes: Nucleases, Pathways and Analysis of mRNA Decay. RNA Turnover in Eukaryotes: Nucleases, Pathways and Analysis of mRNA Decay 409 427 .
Claudia Hartmann, Corinna Benz, Stefanie Brems, Louise Ellis, Van-Duc Luu, Mhairi Stewart, Iván D'Orso, Christian Busold, Kurt Fellenberg, Alberto C. C. Frasch, Mark Carrington, Jörg Hoheisel & Christine E. Clayton. (2007) Small Trypanosome RNA-Binding Proteins Tb UBP1 and Tb UBP2 Influence Expression of F-Box Protein mRNAs in Bloodstream Trypanosomes . Eukaryotic Cell 6:11, pages 1964-1978.
Crossref
Raymond E. Chen & Jeremy Thorner. (2007) Function and regulation in MAPK signaling pathways: Lessons learned from the yeast Saccharomyces cerevisiae. Biochimica et Biophysica Acta (BBA) - Molecular Cell Research 1773:8, pages 1311-1340.
Crossref
Jack D. Keene. (2007) RNA regulons: coordination of post-transcriptional events. Nature Reviews Genetics 8:7, pages 533-543.
Crossref
Per Sunnerhagen. (2007) Cytoplasmatic post-transcriptional regulation and intracellular signalling. Molecular Genetics and Genomics 277:4, pages 341-355.
Crossref
Joana Paes de Faria & Lisete Fernandes. (2006) Protection against oxidative stress through SUA7/TFIIB regulation in Saccharomyces cerevisiae. Free Radical Biology and Medicine 41:11, pages 1684-1693.
Crossref
Scott C. Wesselkamper, Susan A. McDowell, Mario Medvedovic, Timothy P. Dalton, Hitesh S. Deshmukh, Maureen A. Sartor, Lisa M. Case, Lisa N. Henning, Michael T. Borchers, Craig R. Tomlinson, Daniel R. Prows & George D. Leikauf. (2006) The Role of Metallothionein in the Pathogenesis of Acute Lung Injury. American Journal of Respiratory Cell and Molecular Biology 34:1, pages 73-82.
Crossref

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