Article (Scientific journals)
Microevolution of Helicobacter pylori during prolonged infection of single hosts and within families.
Morelli, Giovanna; Didelot, Xavier; Kusecek, Barica et al.
2010In PLoS Genetics, 6 (7), p. 1001036
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Keywords :
Bayes Theorem; Evolution, Molecular; Family; Helicobacter Infections/microbiology; Helicobacter pylori/genetics; Humans; Kinetics; Middle Aged; Mutation; Recombination, Genetic
Abstract :
[en] Our understanding of basic evolutionary processes in bacteria is still very limited. For example, multiple recent dating estimates are based on a universal inter-species molecular clock rate, but that rate was calibrated using estimates of geological dates that are no longer accepted. We therefore estimated the short-term rates of mutation and recombination in Helicobacter pylori by sequencing an average of 39,300 bp in 78 gene fragments from 97 isolates. These isolates included 34 pairs of sequential samples, which were sampled at intervals of 0.25 to 10.2 years. They also included single isolates from 29 individuals (average age: 45 years) from 10 families. The accumulation of sequence diversity increased with time of separation in a clock-like manner in the sequential isolates. We used Approximate Bayesian Computation to estimate the rates of mutation, recombination, mean length of recombination tracts, and average diversity in those tracts. The estimates indicate that the short-term mutation rate is 1.4 x 10(-6) (serial isolates) to 4.5 x 10(-6) (family isolates) per nucleotide per year and that three times as many substitutions are introduced by recombination as by mutation. The long-term mutation rate over millennia is 5-17-fold lower, partly due to the removal of non-synonymous mutations due to purifying selection. Comparisons with the recent literature show that short-term mutation rates vary dramatically in different bacterial species and can span a range of several orders of magnitude.
Disciplines :
Genetics & genetic processes
Author, co-author :
Morelli, Giovanna;  Max Planck Inst Infect Biol, Dept Mol Biol, Berlin, Germany
Didelot, Xavier;  Univ Warwick, Dept Stat, Warwick, England
Kusecek, Barica;  Max Planck Inst Infect Biol, Dept Mol Biol, Berlin, Germany
Schwarz, Sandra ;  Hannover Medical school > Inst Med Microbiol ; Hannover medical school > Hosp Epidemiol
Bahlawane, Christelle ;  Hannover Medical School > Inst Med Microbiol ; Hannover Medical School > Hosp Epidemiol
Falush, Daniel;  Univ Coll Cork > Dept Microbiol ; Univ Coll Cork > Environm Res Inst
Suerbaum, Sebastian;  Hannover Medical School > Inst Med Microbiol ; Hannover Medical School > Hosp Epidemiol
Achtman, Mark;  Max Planck Inst Infect Biol, Dept Mol Biol, Berlin, Germany ; Univ Coll Cork > Dept Microbiol ; Univ Coll Cork > Environm Res Inst
External co-authors :
yes
Language :
English
Title :
Microevolution of Helicobacter pylori during prolonged infection of single hosts and within families.
Publication date :
2010
Journal title :
PLoS Genetics
ISSN :
1553-7404
Publisher :
Public Library of Science, United States - California
Volume :
6
Issue :
7
Pages :
e1001036
Peer reviewed :
Peer Reviewed verified by ORBi
Available on ORBilu :
since 30 March 2016

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