Literature DB >> 25192263

The evolutionary journey of Argonaute proteins.

Daan C Swarts1, Kira Makarova2, Yanli Wang3, Kotaro Nakanishi4, René F Ketting5, Eugene V Koonin2, Dinshaw J Patel6, John van der Oost1.   

Abstract

Argonaute proteins are conserved throughout all domains of life. Recently characterized prokaryotic Argonaute proteins (pAgos) participate in host defense by DNA interference, whereas eukaryotic Argonaute proteins (eAgos) control a wide range of processes by RNA interference. Here we review molecular mechanisms of guide and target binding by Argonaute proteins, and describe how the conformational changes induced by target binding lead to target cleavage. On the basis of structural comparisons and phylogenetic analyses of pAgos and eAgos, we reconstruct the evolutionary journey of the Argonaute proteins through the three domains of life and discuss how different structural features of pAgos and eAgos relate to their distinct physiological roles.

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Year:  2014        PMID： 25192263      PMCID： PMC4691850          DOI： 10.1038/nsmb.2879

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN： 1545-9985            Impact factor:   15.369


  108 in total

1.  Structural basis for 5'-nucleotide base-specific recognition of guide RNA by human AGO2.

Authors:  Filipp Frank; Nahum Sonenberg; Bhushan Nagar
Journal:  Nature       Date:  2010-05-26       Impact factor: 49.962

2.  DNA-binding proteins and evolution of transcription regulation in the archaea.

Authors:  L Aravind; E V Koonin
Journal:  Nucleic Acids Res       Date:  1999-12-01       Impact factor: 16.971

3.  Crystal structure of A. aeolicus argonaute, a site-specific DNA-guided endoribonuclease, provides insights into RISC-mediated mRNA cleavage.

Authors:  Yu-Ren Yuan; Yi Pei; Jin-Biao Ma; Vitaly Kuryavyi; Maria Zhadina; Gunter Meister; Hong-Ying Chen; Zbigniew Dauter; Thomas Tuschl; Dinshaw J Patel
Journal:  Mol Cell       Date:  2005-08-05       Impact factor: 17.970

4.  Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage.

Authors:  Gang Sheng; Hongtu Zhao; Jiuyu Wang; Yu Rao; Wenwen Tian; Daan C Swarts; John van der Oost; Dinshaw J Patel; Yanli Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-27       Impact factor: 11.205

Review 5.  Planting the seed: target recognition of short guide RNAs.

Authors:  Tim Künne; Daan C Swarts; Stan J J Brouns
Journal:  Trends Microbiol       Date:  2014-01-14       Impact factor: 17.079

6.  Single-molecule FRET supports the two-state model of Argonaute action.

Authors:  Adrian Zander; Phil Holzmeister; Daniel Klose; Philip Tinnefeld; Dina Grohmann
Journal:  RNA Biol       Date:  2013-12-20       Impact factor: 4.652

7.  Structural basis for piRNA 2'-O-methylated 3'-end recognition by Piwi PAZ (Piwi/Argonaute/Zwille) domains.

Authors:  Yuan Tian; Dhirendra K Simanshu; Jin-Biao Ma; Dinshaw J Patel
Journal:  Proc Natl Acad Sci U S A       Date:  2010-12-30       Impact factor: 11.205

8.  Structural features of Argonaute-GW182 protein interactions.

Authors:  Janina Pfaff; Janosch Hennig; Franz Herzog; Ruedi Aebersold; Michael Sattler; Dierk Niessing; Gunter Meister
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-16       Impact factor: 11.205

9.  Protection of germline gene expression by the C. elegans Argonaute CSR-1.

Authors:  Christopher J Wedeles; Monica Z Wu; Julie M Claycomb
Journal:  Dev Cell       Date:  2013-12-23       Impact factor: 12.270

10.  Structure of yeast Argonaute with guide RNA.

Authors:  Kotaro Nakanishi; David E Weinberg; David P Bartel; Dinshaw J Patel
Journal:  Nature       Date:  2012-06-20       Impact factor: 49.962
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  143 in total

1.  Profile of Dinshaw J. Patel.

Authors:  Dinshaw J Patel; Tinsley H Davis
Journal:  Proc Natl Acad Sci U S A       Date:  2015-07-27       Impact factor: 11.205

2.  Alterations in Striatal microRNA-mRNA Networks Contribute to Neuroinflammation in Multiple System Atrophy.

Authors:  Taeyeon Kim; Elvira Valera; Paula Desplats
Journal:  Mol Neurobiol       Date:  2019-04-09       Impact factor: 5.590

3.  Human nuclear ARGONAUTE 2 interacts in vivo only with small RNAs and not with DNA.

Authors:  Ubaldo Gioia; Fabrizio d'Adda di Fagagna
Journal:  Cell Cycle       Date:  2015-05-13       Impact factor: 4.534

Review 4.  Facilitated diffusion of Argonaute-mediated target search.

Authors:  Tao Ju Cui; Chirlmin Joo
Journal:  RNA Biol       Date:  2019-05-20       Impact factor: 4.652

Review 5.  Prokaryotic Argonaute proteins: novel genome-editing tools?

Authors:  Jorrit W Hegge; Daan C Swarts; John van der Oost
Journal:  Nat Rev Microbiol       Date:  2017-07-24       Impact factor: 60.633

Review 6.  Mechanisms and consequences of diversity-generating immune strategies.

Authors:  Edze R Westra; David Sünderhauf; Mariann Landsberger; Angus Buckling
Journal:  Nat Rev Immunol       Date:  2017-08-07       Impact factor: 53.106

7.  The LBD12-1 Transcription Factor Suppresses Apical Meristem Size by Repressing Argonaute 10 Expression.

Authors:  Weiwei Ma; Fuqing Wu; Peike Sheng; Xiaole Wang; Zhe Zhang; Kunneng Zhou; Huan Zhang; Jinlong Hu; Qibin Lin; Zhijun Cheng; Jiulin Wang; Shanshan Zhu; Xin Zhang; Xiuping Guo; Haiyang Wang; Chuanyin Wu; Huqu Zhai; Jianmin Wan
Journal:  Plant Physiol       Date:  2016-11-28       Impact factor: 8.340

8.  Systematic prediction of genes functionally linked to CRISPR-Cas systems by gene neighborhood analysis.

Authors:  Sergey A Shmakov; Kira S Makarova; Yuri I Wolf; Konstantin V Severinov; Eugene V Koonin
Journal:  Proc Natl Acad Sci U S A       Date:  2018-05-21       Impact factor: 11.205

Review 9.  Evolution of adaptive immunity from transposable elements combined with innate immune systems.

Authors:  Eugene V Koonin; Mart Krupovic
Journal:  Nat Rev Genet       Date:  2014-12-09       Impact factor: 53.242

10.  Zebrafish Embryonic Slow Muscle Is a Rapid System for Genetic Analysis of Sarcomere Organization by CRISPR/Cas9, but Not NgAgo.

Authors:  Mengxin Cai; Yufeng Si; Jianshe Zhang; Zhenjun Tian; Shaojun Du
Journal:  Mar Biotechnol (NY)       Date:  2018-01-27       Impact factor: 3.619
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