The polyA machinery: Elucidating the molecular mechanisms of mRNA polyadenylation, deadenylation and RNA recognition

Methods for merging data sets in electron cryo-microscopy

Author(s): Max E Wilkinson, Ananthanarayanan Kumar, Ana Casañal
Published in: Acta Crystallogr D Struct Biol, Issue 75(9), 2019, Page(s) 782-791, ISSN 2059-7983
Publisher: International Union of Crystallography
DOI: 10.1107/s2059798319010519

Roles of mRNA poly(A) tails in regulation of eukaryotic gene expression

Author(s): Lori A. Passmore, Jeff Coller
Published in: Nature Reviews Molecular Cell Biology, Issue 23, 2022, Page(s) 93-106, ISSN 1471-0072
Publisher: Nature Publishing Group
DOI: 10.1038/s41580-021-00417-y

RBBP6 activates the pre-mRNA 3′ end processing machinery in humans

Author(s): Vytaute Boreikaite, Thomas S. Elliott, Jason W. Chin and Lori A. Passmore
Published in: Genes and Development, Issue 36, 2022, Page(s) 210-224, ISSN 0890-9369
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gad.349223.121

Knowing when to stop: Transcription termination on protein-coding genes by eukaryotic RNAPII

Author(s): Juan B Rodríguez-Molina, Steven West , Lori A Passmore
Published in: Molecular Cell, Issue 83, 2023, Page(s) 404-415, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2022.12.021

Mpe1 senses the binding of pre-mRNA and controls 3′ end processing by CPF

Author(s): Juan B. Rodriguez-Molina, Francis J. O’Reilly, Holly Fagarasan, Eleanor Sheekey, Sarah Maslen, J. Mark Skehel, Juri Rappsilber, and Lori A. Passmore
Published in: Molecular Cell, Issue 82, 2022, Page(s) 2490-2504, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2022.04.021

Current developments in Coot for macromolecular model building of Electron Cryo-microscopy and Crystallographic Data

Author(s): Ana Casañal, Bernhard Lohkamp, Paul Emsley
Published in: Protein Science, Issue 29(4), 2020, Page(s) 1069-1078, ISSN 1469-896X
Publisher: The Protein Society
DOI: 10.1002/pro.3791

Analysis of mRNA deadenylation by multi-protein complexes

Author(s): Michael W. Webster, James A.W. Stowell, Terence T.L. Tang, Lori A. Passmore
Published in: Methods, Issue 126, 2017, Page(s) 95-104, ISSN 1046-2023
Publisher: Academic Press
DOI: 10.1016/j.ymeth.2017.06.009

Architecture of eukaryotic mRNA 3′-end processing machinery

Author(s): Ana Casañal, Ananthanarayanan Kumar, Chris H. Hill, Ashley D. Easter, Paul Emsley, Gianluca Degliesposti, Yuliya Gordiyenko, Balaji Santhanam, Jana Wolf, Katrin Wiederhold, Gillian L. Dornan, Mark Skehel, Carol V. Robinson, Lori A. Passmore
Published in: Science, Issue 358/6366, 2017, Page(s) 1056-1059, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.aao6535

mRNA Deadenylation Is Coupled to Translation Rates by the Differential Activities of Ccr4-Not Nucleases

Author(s): Michael W. Webster, Ying-Hsin Chen, James A.W. Stowell, Najwa Alhusaini, Thomas Sweet, Brenton R. Graveley, Jeff Coller, Lori A. Passmore
Published in: Molecular Cell, Issue 70/6, 2018, Page(s) 1089-1100.e8, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2018.05.033

The intrinsic structure of poly(A) RNA determines the specificity of Pan2 and Caf1 deadenylases

Author(s): Terence T. L. Tang, James A. W. Stowell, Chris H. Hill, Lori A. Passmore
Published in: Nature Structural & Molecular Biology, Issue 26/6, 2019, Page(s) 433-442, ISSN 1545-9993
Publisher: Nature Publishing Group
DOI: 10.1038/s41594-019-0227-9

Importance of the Conserved Carboxyl-Terminal CNOT1 Binding Domain to Tristetraprolin Activity In Vivo

Author(s): Wi S. Lai, Deborah J. Stumpo, Melissa L. Wells, Artiom Gruzdev, Stephanie N. Hicks, Cindo O. Nicholson, Zhengfeng Yang, Roberta Faccio, Michael W. Webster, Lori A. Passmore, Perry J. Blackshear
Published in: Molecular and Cellular Biology, Issue 39/13, 2019, ISSN 0270-7306
Publisher: American Society for Microbiology
DOI: 10.1128/mcb.00029-19

Mechanistic insights into mRNA 3′-end processing

Author(s): Ananthanarayanan Kumar, Marcello Clerici, Lena M Muckenfuss, Lori A Passmore, Martin Jinek
Published in: Current Opinion in Structural Biology, Issue 59, 2019, Page(s) 143-150, ISSN 0959-440X
Publisher: Elsevier BV
DOI: 10.1016/j.sbi.2019.08.001

Interpretation of medium resolution cryoEM maps of multi-protein complexes

Author(s): Ana Casañal, Shabih Shakeel, Lori A Passmore
Published in: Current Opinion in Structural Biology, Issue 58, 2019, Page(s) 166-174, ISSN 0959-440X
Publisher: Elsevier BV
DOI: 10.1016/j.sbi.2019.06.009

The APT complex is involved in non-coding RNA transcription and is distinct from CPF

Author(s): Michael Lidschreiber, Ashley D Easter, Sofia Battaglia, Juan B Rodríguez-Molina, Ana Casañal, Manuel Carminati, Carlo Baejen, Pawel Grzechnik, Kerstin C Maier, Patrick Cramer, Lori A Passmore
Published in: Nucleic Acids Research, 2018, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gky845

RNA-binding proteins distinguish between similar sequence motifs to promote targeted deadenylation by Ccr4-Not

Author(s): Michael W Webster, James AW Stowell, Lori A Passmore
Published in: eLife, Issue 8, 2019, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.40670

Activation of the Endonuclease that Defines mRNA 3′ Ends Requires Incorporation into an 8-Subunit Core Cleavage and Polyadenylation Factor Complex

Author(s): Chris H. Hill, Vytautė Boreikaitė, Ananthanarayanan Kumar, Ana Casañal, Peter Kubík, Gianluca Degliesposti, Sarah Maslen, Angelica Mariani, Ottilie von Loeffelholz, Mathias Girbig, Mark Skehel, Lori A. Passmore
Published in: Molecular Cell, Issue 73/6, 2019, Page(s) 1217-1231.e11, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2018.12.023

Dynamics in Fip1 regulate eukaryotic mRNA 3′ end processing

Author(s): Ananthanarayanan Kumar, Conny W.H. Yu, Juan B. Rodríguez-Molina, Xiao-Han Li, Stefan M.V. Freund and Lori A. Passmore
Published in: Genes and Development, Issue 35, 2021, Page(s) 1510-1526, ISSN 0890-9369
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gad.348671.121

Three-layered control of mRNA poly(A) tail synthesis in Saccharomyces cerevisiae

Author(s): Matti Turtola, M. Cemre Manav, Ananthanarayanan Kumar, Agnieszka Tudek, Seweryn Mroczek, Paweł S. Krawczyk, Andrzej Dziembowski, Manfred Schmid, Lori A. Passmore, Ana Casañal, Torben Heick Jensen
Published in: Genes and Development, Issue 35, 2021, Page(s) 1290-1303, ISSN 0890-9369
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gad.348634.121

A direct interaction between CPF and Pol II links RNA 3ʹ-end processing to transcription

Author(s): Manuel Carminati, M. Cemre Manav, Dom Bellini, Lori A Passmore
Published in: bioRxiv, Issue July 28, 2022, 2022
Publisher: bioRxiv
DOI: 10.1101/2022.07.28.501803

Specific recognition and ubiquitination of slow-moving ribosomes by human CCR4-NOT

Author(s): Eva Absmeier, Viswanathan Chandrasekaran, Francis J O’Reilly, James AW Stowell, Juri Rappsilber, Lori A Passmore
Published in: bioRxiv, Issue July 24, 2022, 2022
Publisher: bioRxiv
DOI: 10.1101/2022.07.24.501325

Gel-Based Analysis of Protein-Nucleic Acid Interactions

Author(s): James A W Stowell, Terence T L Tang, Maximilian Seidel, Lori A Passmore
Published in: Methods Mol Biol, Issue 2263, 2021, Page(s) 321-339, ISBN 978-1-0716-1196-8
Publisher: Humana
DOI: 10.1007/978-1-0716-1197-5_14

Recognition of Poly(A) RNA through Its Intrinsic Helical Structure

Author(s): Terence T.L. Tang, Lori A. Passmore
Published in: Cold Spring Harbor Symposia on Quantitative Biology, Issue 15 April 2020, 2020, Page(s) 039818, ISSN 0091-7451
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/sqb.2019.84.039818

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