Literature DB >> 22297527

Condensed genome structure.

Lindsay W Black1, Julie A Thomas.   

Abstract

Large, tailed dsDNA-containing bacteriophage genomes are packaged to a conserved and high density (∼500 mg/ml), generally in ∼2.5-nm, duplex-to-duplex, spaced, organized DNA shells within icosahedral capsids. Phages with these condensate properties, however, differ markedly in their inner capsid structures: (1) those with a naked condensed DNA, (2) those with many dispersed unstructured proteins embedded within the DNA, (3) those with a small number of localized proteins, and (4) those with a reduced or DNA-free internal protein structure of substantial volume. The DNA is translocated and condensed by a high-force ATPase motor into a procapsid already containing the proteins that are to be ejected together with the DNA into the infected host. The condensed genome structure of a single-phage type is unlikely to be precisely determined and can change without loss of function to fit an altered capsid size or internal structure. Although no such single-phage condensed genome structure is known exactly, it is known that a single general structure is unlikely to apply to all such phages.

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Year:  2012        PMID: 22297527      PMCID: PMC3559133          DOI: 10.1007/978-1-4614-0980-9_21

Source DB:  PubMed          Journal:  Adv Exp Med Biol        ISSN: 0065-2598            Impact factor:   2.622


  98 in total

1.  Visualization of the maturation transition in bacteriophage P22 by electron cryomicroscopy.

Authors:  Z Zhang; B Greene; P A Thuman-Commike; J Jakana; P E Prevelige; J King; W Chiu
Journal:  J Mol Biol       Date:  2000-03-31       Impact factor: 5.469

2.  Increasing the thermostability of staphylococcal nuclease: implications for the origin of protein thermostability.

Authors:  J Chen; Z Lu; J Sakon; W E Stites
Journal:  J Mol Biol       Date:  2000-10-20       Impact factor: 5.469

3.  Packaging of prophage and host DNA by coliphage lambda.

Authors:  N Sternberg; R Weisberg
Journal:  Nature       Date:  1975-07-10       Impact factor: 49.962

4.  The mono-ADP-ribosyltransferases Alt and ModB of bacteriophage T4: target proteins identified.

Authors:  Reinhard Depping; Christiane Lohaus; Helmut E Meyer; Wolfgang Rüger
Journal:  Biochem Biophys Res Commun       Date:  2005-10-07       Impact factor: 3.575

5.  Changes in bacteriophage T7 virion structure at the initiation of infection.

Authors:  Priscilla Kemp; L René Garcia; Ian J Molineux
Journal:  Virology       Date:  2005-09-30       Impact factor: 3.616

6.  The conformation of double-stranded DNA inside bacteriophages depends on capsid size and shape.

Authors:  Anton S Petrov; Mustafa Burak Boz; Stephen C Harvey
Journal:  J Struct Biol       Date:  2007-08-29       Impact factor: 2.867

7.  Unifying classical and molecular taxonomic classification: analysis of the Podoviridae using BLASTP-based tools.

Authors:  Rob Lavigne; Donald Seto; Padmanabhan Mahadevan; Hans-W Ackermann; Andrew M Kropinski
Journal:  Res Microbiol       Date:  2008-04-18       Impact factor: 3.992

8.  A model of lambda DNA arrangement in the viral particle.

Authors:  H Witkiewicz; M Schweiger
Journal:  J Theor Biol       Date:  1985-10-21       Impact factor: 2.691

9.  Exclusion of glucosyl-hydroxymethylcytosine DNA containing bacteriophages is overcome by the injected protein inhibitor IPI*.

Authors:  Catherine L Bair; Dalin Rifat; Lindsay W Black
Journal:  J Mol Biol       Date:  2006-11-18       Impact factor: 5.469

10.  Sequences homologous to yeast mitochondrial and bacteriophage T3 and T7 RNA polymerases are widespread throughout the eukaryotic lineage.

Authors:  N Cermakian; T M Ikeda; R Cedergren; M W Gray
Journal:  Nucleic Acids Res       Date:  1996-02-15       Impact factor: 16.971

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  14 in total

Review 1.  Old, new, and widely true: The bacteriophage T4 DNA packaging mechanism.

Authors:  Lindsay W Black
Journal:  Virology       Date:  2015-02-27       Impact factor: 3.616

Review 2.  Popping the cork: mechanisms of phage genome ejection.

Authors:  Ian J Molineux; Debabrata Panja
Journal:  Nat Rev Microbiol       Date:  2013-02-04       Impact factor: 60.633

3.  Visualization of uncorrelated, tandem symmetry mismatches in the internal genome packaging apparatus of bacteriophage T7.

Authors:  Fei Guo; Zheng Liu; Frank Vago; Yue Ren; Weimin Wu; Elena T Wright; Philip Serwer; Wen Jiang
Journal:  Proc Natl Acad Sci U S A       Date:  2013-04-11       Impact factor: 11.205

Review 4.  Molecular architecture of tailed double-stranded DNA phages.

Authors:  Andrei Fokine; Michael G Rossmann
Journal:  Bacteriophage       Date:  2014-02-21

5.  Nucleotide-type chemical shift assignment of the encapsulated 40 kbp dsDNA in intact bacteriophage T7 by MAS solid-state NMR.

Authors:  Gili Abramov; Amir Goldbourt
Journal:  J Biomol NMR       Date:  2014-05-30       Impact factor: 2.835

Review 6.  States of phage T3/T7 capsids: buoyant density centrifugation and cryo-EM.

Authors:  Philip Serwer; Elena T Wright; Borries Demeler; Wen Jiang
Journal:  Biophys Rev       Date:  2017-12-14

7.  Adenovirus major core protein condenses DNA in clusters and bundles, modulating genome release and capsid internal pressure.

Authors:  Natalia Martín-González; Mercedes Hernando-Pérez; Gabriela N Condezo; Marta Pérez-Illana; Antonio Šiber; David Reguera; Philomena Ostapchuk; Patrick Hearing; Carmen San Martín; Pedro J de Pablo
Journal:  Nucleic Acids Res       Date:  2019-09-26       Impact factor: 16.971

Review 8.  Magic angle spinning NMR of viruses.

Authors:  Caitlin M Quinn; Manman Lu; Christopher L Suiter; Guangjin Hou; Huilan Zhang; Tatyana Polenova
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2015-02-16       Impact factor: 9.795

9.  Identification of structural and morphogenesis genes of Pseudoalteromonas phage φRIO-1 and placement within the evolutionary history of Podoviridae.

Authors:  Stephen C Hardies; Julie A Thomas; Lindsay Black; Susan T Weintraub; Chung Y Hwang; Byung C Cho
Journal:  Virology       Date:  2015-12-31       Impact factor: 3.616

10.  Shapes of minimal-energy DNA ropes condensed in confinement.

Authors:  Antonio Šiber
Journal:  Sci Rep       Date:  2016-07-01       Impact factor: 4.379

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