Comment on "Large Bottleneck Size in Cauliflower Mosaic Virus Populations during Host Plant Colonization" by Monsion et al. (2008)

Based on the definition of the variance, it can be shown that E(p(1 - p)) = E(p)(1 - E(p)) - Var(p), which is equivalent to the numerator of equation (14) in [2]. [...]the approximation will give relatively accurate results whenever Var(p) is negligible relative to E(p)(1 - E(p)). [...]we can make t...

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Bibliographic Details
Published in:PLoS pathogens 2016-04, Vol.12 (4), p.e1005512-e1005512
Main Authors: Thébaud, Gaël, Michalakis, Yannis
Format: Article
Language:English
Subjects:
Binomial distribution
Biology and Life Sciences
Brassica rapa - virology
Cauliflower
Caulimovirus - genetics
Diseases and pests
Estimates
Evolution, Molecular
Expected values
Formal Comment
Funding
Genetic markers
Genetics
Health aspects
Host-Pathogen Interactions - genetics
Identification and classification
Life Sciences
Methods
Microbiology and Parasitology
Physical Sciences
Plant Diseases - genetics
Plant Diseases - virology
Plant viruses
Populations and Evolution
Random variables
Studies
Virology
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Summary:Based on the definition of the variance, it can be shown that E(p(1 - p)) = E(p)(1 - E(p)) - Var(p), which is equivalent to the numerator of equation (14) in [2]. [...]the approximation will give relatively accurate results whenever Var(p) is negligible relative to E(p)(1 - E(p)). [...]we can make the more realistic assumption that N follows a zero-truncated Poisson (ZTP) distribution (i.e., N can vary among experimental replicates according to a Poisson distribution, but p' cannot be measured when N = 0 and the plant is discarded, hence the zero-truncation): Among the N genomes that go through the bottleneck, the number X bearing the neutral marker is drawn according to its pre-bottleneck frequency p from the binomial distribution: X~B(N,p). [...]the marker frequency after the bottleneck is p' = X/N.
ISSN:1553-7374
1553-7366
1553-7374
DOI:10.1371/journal.ppat.1005512