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PMID: 16751270 Published · ppublish English Journal Article Research Support, U.S. Gov't, Non-P.H.S.

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

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 103 ·No. 24 ·2006-06-13 ·Pages 9107-12

Woods R, Schneider D, Winkworth CL, Riley MA, Lenski RE

Abstract

The repeatability of evolutionary change is difficult to quantify because only a single outcome can usually be observed for any precise set of circumstances. In this study, however, we have quantified the frequency of parallel and divergent genetic changes in 12 initially identical populations of Escherichia coli that evolved in identical environments for 20,000 cell generations. Unlike previous analyses in which candidate genes were identified based on parallel phenotypic changes, here we sequenced four loci (pykF, nadR, pbpA-rodA, and hokB/sokB) in which mutations of unknown effect had been discovered in one population, and then we compared the substitution pattern in these "blind" candidate genes with the pattern found in 36 randomly chosen genes. Two candidate genes, pykF and nadR, had substitutions in all 11 other populations, and the other 2 in several populations. There were very few cases, however, in which the exact same mutations were substituted, in contrast to the findings from conceptually related work performed with evolving virus populations. No random genes had any substitutions except in four populations that evolved defects in DNA repair. Tests of four different statistical aspects of the pattern of molecular evolution all indicate that adaptation by natural selection drove the parallel changes in these candidate genes.

MeSH Terms
Animals Escherichia coli/genetics Evolution, Molecular Models, Theoretical Molecular Sequence Data Mutation Random Allocation Time Factors
Authors & Affiliations
5 authors, click to expand affiliations / ORCID
Woods Robert
Department of Zoology, Michigan State University, East Lansing, MI 48824, USA.
Schneider Dominique
Winkworth Cynthia L
Riley Margaret A
Lenski Richard E
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
DOI
10.1073/pnas.0602917103
Published
2006-06-13
Epub
2006-00-02
Pages
9107-12
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC1482574
Subset
IM
Databases
GENBANK
AY625099, AY625100, AY625101, AY625102, AY625103, AY625104, AY625105, AY625106, AY625107, AY625108, AY625109, AY625110, AY625111, AY625112, AY625113, AY625114, AY625115, AY625116, AY625117, AY625118, AY625119, AY625120, AY625121, AY625122, AY625123, AY625124, AY625125, AY625126, AY625127, AY625128, AY625129, AY625130, AY625131, AY625132, AY625133, AY625134, AY849930, AY849931, AY849932, AY849933
External Links
PubMed source DOI: 10.1073/pnas.0602917103 PMC Full Text View journal details
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