Literature DB >> 21335233

Revisiting the central dogma one molecule at a time.

Carlos Bustamante1, Wei Cheng, Yara X Mejia, Yara X Meija.   

Abstract

The faithful relay and timely expression of genetic information depend on specialized molecular machines, many of which function as nucleic acid translocases. The emergence over the last decade of single-molecule fluorescence detection and manipulation techniques with nm and Å resolution and their application to the study of nucleic acid translocases are painting an increasingly sharp picture of the inner workings of these machines, the dynamics and coordination of their moving parts, their thermodynamic efficiency, and the nature of their transient intermediates. Here we present an overview of the main results arrived at by the application of single-molecule methods to the study of the main machines of the central dogma.
Copyright © 2011 Elsevier Inc. All rights reserved.

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Year:  2011        PMID: 21335233      PMCID: PMC3063003          DOI: 10.1016/j.cell.2011.01.033

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   41.582


  141 in total

1.  Simultaneous, coincident optical trapping and single-molecule fluorescence.

Authors:  Matthew J Lang; Polly M Fordyce; Anita M Engh; Keir C Neuman; Steven M Block
Journal:  Nat Methods       Date:  2004-10-21       Impact factor: 28.547

2.  Mechanism of force generation of a viral DNA packaging motor.

Authors:  Yann R Chemla; K Aathavan; Jens Michaelis; Shelley Grimes; Paul J Jardine; Dwight L Anderson; Carlos Bustamante
Journal:  Cell       Date:  2005-09-09       Impact factor: 41.582

3.  Fluorescence-force spectroscopy maps two-dimensional reaction landscape of the holliday junction.

Authors:  Sungchul Hohng; Ruobo Zhou; Michelle K Nahas; Jin Yu; Klaus Schulten; David M J Lilley; Taekjip Ha
Journal:  Science       Date:  2007-10-12       Impact factor: 47.728

4.  Following translation by single ribosomes one codon at a time.

Authors:  Jin-Der Wen; Laura Lancaster; Courtney Hodges; Ana-Carolina Zeri; Shige H Yoshimura; Harry F Noller; Carlos Bustamante; Ignacio Tinoco
Journal:  Nature       Date:  2008-03-09       Impact factor: 49.962

5.  Spontaneous intersubunit rotation in single ribosomes.

Authors:  Peter V Cornish; Dmitri N Ermolenko; Harry F Noller; Taekjip Ha
Journal:  Mol Cell       Date:  2008-06-06       Impact factor: 17.970

Review 6.  Comparative genomics and evolutionary trajectories of viral ATP dependent DNA-packaging systems.

Authors:  A M Burroughs; L M Iyer; L Aravind
Journal:  Genome Dyn       Date:  2007

7.  Opening of nucleic-acid double strands by helicases: active versus passive opening.

Authors:  M D Betterton; Frank Jülicher
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2005-01-19

8.  Backtracking determines the force sensitivity of RNAP II in a factor-dependent manner.

Authors:  Eric A Galburt; Stephan W Grill; Anna Wiedmann; Lucyna Lubkowska; Jason Choy; Eva Nogales; Mikhail Kashlev; Carlos Bustamante
Journal:  Nature       Date:  2007-03-14       Impact factor: 49.962

9.  Synergistic action of RNA polymerases in overcoming the nucleosomal barrier.

Authors:  Jing Jin; Lu Bai; Daniel S Johnson; Robert M Fulbright; Maria L Kireeva; Mikhail Kashlev; Michelle D Wang
Journal:  Nat Struct Mol Biol       Date:  2010-05-09       Impact factor: 15.369

Review 10.  DNA unwinding and protein displacement by superfamily 1 and superfamily 2 helicases.

Authors:  Samuel G Mackintosh; Kevin D Raney
Journal:  Nucleic Acids Res       Date:  2006-08-25       Impact factor: 16.971

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  59 in total

Review 1.  Photophysics of fluorescent probes for single-molecule biophysics and super-resolution imaging.

Authors:  Taekjip Ha; Philip Tinnefeld
Journal:  Annu Rev Phys Chem       Date:  2012-01-30       Impact factor: 12.703

2.  Single-molecule biophysics: untying a nanoscale knot.

Authors:  Micah J McCauley; Mark C Williams
Journal:  Nat Chem       Date:  2011-09-23       Impact factor: 24.427

3.  The effect of linker histone's nucleosome binding affinity on chromatin unfolding mechanisms.

Authors:  Rosana Collepardo-Guevara; Tamar Schlick
Journal:  Biophys J       Date:  2011-10-05       Impact factor: 4.033

4.  High Spatiotemporal-Resolution Magnetic Tweezers: Calibration and Applications for DNA Dynamics.

Authors:  David Dulin; Tao Ju Cui; Jelmer Cnossen; Margreet W Docter; Jan Lipfert; Nynke H Dekker
Journal:  Biophys J       Date:  2015-11-17       Impact factor: 4.033

5.  Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases.

Authors:  Bradley Zamft; Lacramioara Bintu; Toyotaka Ishibashi; Carlos Bustamante
Journal:  Proc Natl Acad Sci U S A       Date:  2012-05-21       Impact factor: 11.205

Review 6.  Modeling stochastic kinetics of molecular machines at multiple levels: from molecules to modules.

Authors:  Debashish Chowdhury
Journal:  Biophys J       Date:  2013-06-04       Impact factor: 4.033

7.  ATP-dependent motor activity of the transcription termination factor Rho from Mycobacterium tuberculosis.

Authors:  François D'Heygère; Annie Schwartz; Franck Coste; Bertrand Castaing; Marc Boudvillain
Journal:  Nucleic Acids Res       Date:  2015-05-20       Impact factor: 16.971

8.  DNA motion capture reveals the mechanical properties of DNA at the mesoscale.

Authors:  Allen C Price; Kevin R Pilkiewicz; Thomas G W Graham; Dan Song; Joel D Eaves; Joseph J Loparo
Journal:  Biophys J       Date:  2015-05-19       Impact factor: 4.033

Review 9.  RNA localization in bacteria.

Authors:  Avi-ad Avraam Buskila; Shanmugapriya Kannaiah; Orna Amster-Choder
Journal:  RNA Biol       Date:  2014-10-31       Impact factor: 4.652

Review 10.  Inside single cells: quantitative analysis with advanced optics and nanomaterials.

Authors:  Yi Cui; Joseph Irudayaraj
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2014-11-27
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