Bottleneck Size-Dependent Changes in the Genetic Diversity and Specific Growth Rate of a Rotavirus A Strain

Journal of Virology
S.-s. KadoyaDaisuke Sano

Abstract

RNA viruses form a dynamic distribution of mutant swarms (termed "quasispecies") due to the accumulation of mutations in the viral genome. The genetic diversity of a viral population is affected by several factors, including a bottleneck effect. Human-to-human transmission exemplifies a bottleneck effect, in that only part of a viral population can reach the next susceptible hosts. In the present study, two lineages of the rhesus rotavirus (RRV) strain of rotavirus A were serially passaged five times at a multiplicity of infection (MOI) of 0.1 or 0.001, and three phenotypes (infectious titer, cell binding ability, and specific growth rate) were used to evaluate the impact of a bottleneck effect on the RRV population. The specific growth rate values of lineages passaged under the stronger bottleneck (MOI of 0.001) were higher after five passages. The nucleotide diversity also increased, which indicated that the mutant swarms of the lineages under the stronger bottleneck effect were expanded through the serial passages. The random distribution of synonymous and nonsynonymous substitutions on rotavirus genome segments indicated that almost all mutations were selectively neutral. Simple simulations revealed that the presence of min...Continue Reading

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Citations

Nov 17, 2020·Frontiers in Microbiology·Syun-Ichi UrayamaTakuro Nunoura

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Datasets Mentioned

BETA
DRA006847
DRA008653

Methods Mentioned

BETA
PCR
cDNA library construction

Software Mentioned

CLC Genomics Workbench
MEGA7
BEAST
SNPGenie
Circos
SAMtools
TenSQR
Bowtie2
R
Trimmomatic

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