Literature DB >> 17274841

Analysis of genetic systems using experimental evolution and whole-genome sequencing.

Matthew Hegreness1, Roy Kishony.   

Abstract

The application of whole-genome sequencing to the study of microbial evolution promises to reveal the complex functional networks of mutations that underlie adaptation. A recent study of parallel evolution in populations of Escherichia coli shows how adaptation involves both functional changes to specific proteins as well as global changes in regulation.

Entities:  

Mesh：

Year:  2007        PMID： 17274841      PMCID： PMC1839123          DOI： 10.1186/gb-2007-8-1-201

Source DB:  PubMed          Journal:  Genome Biol        ISSN： 1474-7596            Impact factor:   13.583


  43 in total

1.  From molecular to modular cell biology.

Authors:  L H Hartwell; J J Hopfield; S Leibler; A W Murray
Journal:  Nature       Date:  1999-12-02       Impact factor: 49.962

2.  High direct estimate of the mutation rate in the mitochondrial genome of Caenorhabditis elegans.

Authors:  D R Denver; K Morris; M Lynch; L L Vassilieva; W K Thomas
Journal:  Science       Date:  2000-09-29       Impact factor: 47.728

3.  Effect of deleterious mutation-accumulation on the fitness of RNA bacteriophage MS2.

Authors:  M de la Peña; S F Elena; A Moya
Journal:  Evolution       Date:  2000-04       Impact factor: 3.694

4.  Tests of parallel molecular evolution in a long-term experiment with Escherichia coli.

Authors:  Robert Woods; Dominique Schneider; Cynthia L Winkworth; Margaret A Riley; Richard E Lenski
Journal:  Proc Natl Acad Sci U S A       Date:  2006-06-02       Impact factor: 11.205

5.  Parallel changes in global protein profiles during long-term experimental evolution in Escherichia coli.

Authors:  Ludovic Pelosi; Lauriane Kühn; Dorian Guetta; Jérôme Garin; Johannes Geiselmann; Richard E Lenski; Dominique Schneider
Journal:  Genetics       Date:  2006-05-15       Impact factor: 4.562

6.  Sociobiology: the Phoenix effect.

Authors:  Kevin R Foster
Journal:  Nature       Date:  2006-05-18       Impact factor: 49.962

7.  Analysis of one million base pairs of Neanderthal DNA.

Authors:  Richard E Green; Johannes Krause; Susan E Ptak; Adrian W Briggs; Michael T Ronan; Jan F Simons; Lei Du; Michael Egholm; Jonathan M Rothberg; Maja Paunovic; Svante Pääbo
Journal:  Nature       Date:  2006-11-16       Impact factor: 49.962

8.  Evolution of an obligate social cheater to a superior cooperator.

Authors:  Francesca Fiegna; Yuen-Tsu N Yu; Supriya V Kadam; Gregory J Velicer
Journal:  Nature       Date:  2006-05-18       Impact factor: 49.962

9.  Comparative genome sequencing of Escherichia coli allows observation of bacterial evolution on a laboratory timescale.

Authors:  Christopher D Herring; Anu Raghunathan; Christiane Honisch; Trina Patel; M Kenyon Applebee; Andrew R Joyce; Thomas J Albert; Frederick R Blattner; Dirk van den Boom; Charles R Cantor; Bernhard Ø Palsson
Journal:  Nat Genet       Date:  2006-11-05       Impact factor: 38.330

10.  High-resolution mutation mapping reveals parallel experimental evolution in yeast.

Authors:  Ayellet V Segrè; Andrew W Murray; Jun-Yi Leu
Journal:  PLoS Biol       Date:  2006-07       Impact factor: 8.029
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  15 in total

1.  The genetic basis of parallel and divergent phenotypic responses in evolving populations of Escherichia coli.

Authors:  Elizabeth A Ostrowski; Robert J Woods; Richard E Lenski
Journal:  Proc Biol Sci       Date:  2008-02-07       Impact factor: 5.349

2.  Probing the basis for genotype-phenotype relationships.

Authors:  Byung-Kwan Cho; Bernhard Ø Palsson
Journal:  Nat Methods       Date:  2009-08       Impact factor: 28.547

3.  Genome evolution and adaptation in a long-term experiment with Escherichia coli.

Authors:  Jeffrey E Barrick; Dong Su Yu; Sung Ho Yoon; Haeyoung Jeong; Tae Kwang Oh; Dominique Schneider; Richard E Lenski; Jihyun F Kim
Journal:  Nature       Date:  2009-10-18       Impact factor: 49.962

4.  Functional and metabolic effects of adaptive glycerol kinase (GLPK) mutants in Escherichia coli.

Authors:  M Kenyon Applebee; Andrew R Joyce; Tom M Conrad; Donald W Pettigrew; Bernhard Ø Palsson
Journal:  J Biol Chem       Date:  2011-05-06       Impact factor: 5.157

5.  Whole-genome sequencing of a laboratory-evolved yeast strain.

Authors:  Carlos L Araya; Celia Payen; Maitreya J Dunham; Stanley Fields
Journal:  BMC Genomics       Date:  2010-02-03       Impact factor: 3.969

6.  General and inducible hypermutation facilitate parallel adaptation in Pseudomonas aeruginosa despite divergent mutation spectra.

Authors:  Michael R Weigand; George W Sundin
Journal:  Proc Natl Acad Sci U S A       Date:  2012-08-06       Impact factor: 11.205

7.  Mutations in the primary sigma factor σA and termination factor rho that reduce susceptibility to cell wall antibiotics.

Authors:  Yong Heon Lee; John D Helmann
Journal:  J Bacteriol       Date:  2014-08-11       Impact factor: 3.490

8.  Genome-wide analysis of a long-term evolution experiment with Drosophila.

Authors:  Molly K Burke; Joseph P Dunham; Parvin Shahrestani; Kevin R Thornton; Michael R Rose; Anthony D Long
Journal:  Nature       Date:  2010-09-15       Impact factor: 49.962

9.  High-throughput characterization of mutations in genes that drive clonal evolution using multiplex adaptome capture sequencing.

Authors:  Daniel E Deatherage; Jeffrey E Barrick
Journal:  Cell Syst       Date:  2021-09-17       Impact factor: 10.304

10.  Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli.

Authors:  Zachary D Blount; Christina Z Borland; Richard E Lenski
Journal:  Proc Natl Acad Sci U S A       Date:  2008-06-04       Impact factor: 11.205
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