Genetic bottlenecks and population passages cause profound fitness differences in RNA viruses.

PubWeight™: 2.55‹?› | Rank: Top 2%

🔗 View Article (PMC 237355)

Published in J Virol on January 01, 1993

Authors

D K Clarke1, E A Duarte, A Moya, S F Elena, E Domingo, J Holland

Author Affiliations

1: Department of Biology, University of California, San Diego, La Jolla 92093-0116.

Articles citing this

The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus. Proc Natl Acad Sci U S A (2004) 4.77

Viral quasispecies evolution. Microbiol Mol Biol Rev (2012) 2.69

Exponential increases of RNA virus fitness during large population transmissions. Proc Natl Acad Sci U S A (1995) 2.60

Changes in human immunodeficiency virus type 1 fitness and genetic diversity during disease progression. J Virol (2005) 2.25

Stochastic processes strongly influence HIV-1 evolution during suboptimal protease-inhibitor therapy. Proc Natl Acad Sci U S A (1998) 2.23

Size of genetic bottlenecks leading to virus fitness loss is determined by mean initial population fitness. J Virol (1995) 2.18

Subclonal components of consensus fitness in an RNA virus clone. J Virol (1994) 2.09

Genetic bottlenecks reduce population variation in an experimental RNA virus population. J Virol (2004) 2.02

Cost of host radiation in an RNA virus. Genetics (2000) 1.95

Diminishing returns of population size in the rate of RNA virus adaptation. J Virol (2000) 1.94

Distribution of fitness and virulence effects caused by single-nucleotide substitutions in Tobacco Etch virus. J Virol (2007) 1.90

Drastic fitness loss in human immunodeficiency virus type 1 upon serial bottleneck events. J Virol (1999) 1.85

The evolution of RNA viruses: A population genetics view. Proc Natl Acad Sci U S A (2000) 1.84

Extreme fitness differences in mammalian and insect hosts after continuous replication of vesicular stomatitis virus in sandfly cells. J Virol (1995) 1.84

The red queen reigns in the kingdom of RNA viruses. Proc Natl Acad Sci U S A (1994) 1.83

Evolution of the feline-subgroup parvoviruses and the control of canine host range in vivo. J Virol (1995) 1.74

Apoptosis in the mouse central nervous system in response to infection with mouse-neurovirulent dengue viruses. J Virol (1998) 1.73

Multiple host barriers restrict poliovirus trafficking in mice. PLoS Pathog (2008) 1.65

Muller's ratchet decreases fitness of a DNA-based microbe. Proc Natl Acad Sci U S A (1996) 1.63

Mosquitoes put the brake on arbovirus evolution: experimental evolution reveals slower mutation accumulation in mosquito than vertebrate cells. PLoS Pathog (2009) 1.56

Evolution of circulating wild poliovirus and of vaccine-derived poliovirus in an immunodeficient patient: a unifying model. J Virol (2000) 1.54

Multiple virulence determinants of foot-and-mouth disease virus in cell culture. J Virol (1998) 1.52

Episodic evolution mediates interspecies transfer of a murine coronavirus. J Virol (1997) 1.44

Many-trillionfold amplification of single RNA virus particles fails to overcome the Muller's ratchet effect. J Virol (1993) 1.40

Microarray analysis of evolution of RNA viruses: evidence of circulation of virulent highly divergent vaccine-derived polioviruses. Proc Natl Acad Sci U S A (2003) 1.33

Bottleneck-mediated quasispecies restriction during spread of an RNA virus from inoculation site to brain. Proc Natl Acad Sci U S A (2006) 1.32

Search for the mechanism of genetic variation in the pro gene of human immunodeficiency virus. J Virol (1999) 1.30

Large bottleneck size in Cauliflower Mosaic Virus populations during host plant colonization. PLoS Pathog (2008) 1.28

Population genetic estimation of the loss of genetic diversity during horizontal transmission of HIV-1. BMC Evol Biol (2006) 1.27

Distinct repertoire of antigenic variants of foot-and-mouth disease virus in the presence or absence of immune selection. J Virol (1993) 1.26

Estimating the magnitude and direction of altered arbovirus transmission due to viral phenotype. PLoS One (2011) 1.20

Growth of an RNA virus in single cells reveals a broad fitness distribution. Virology (2008) 1.19

Insights into arbovirus evolution and adaptation from experimental studies. Viruses (2010) 1.15

Molecular and biological changes in the cold-adapted "master strain" A/AA/6/60 (H2N2) influenza virus. Proc Natl Acad Sci U S A (1993) 1.12

Sequences of Citrus tristeza virus separated in time and space are essentially identical. J Virol (2000) 1.12

Phylogenetic inferences on HIV-1 transmission: implications for the design of prevention and treatment interventions. AIDS (2013) 1.10

Selection of an avian retrovirus mutant with extended receptor usage. J Virol (1997) 1.05

Interferon induction as a quasispecies marker of vesicular stomatitis virus populations. J Virol (1998) 1.03

Genetic divergence with emergence of novel phenotypic variants of equine arteritis virus during persistent infection of stallions. J Virol (1999) 0.99

Evolution of a persistent aphthovirus in cytolytic infections: partial reversion of phenotypic traits accompanied by genetic diversification. J Virol (1996) 0.98

Genetic and phenotypic variation of foot-and-mouth disease virus during serial passages in a natural host. J Virol (2007) 0.97

Innate host barriers to viral trafficking and population diversity: lessons learned from poliovirus. Adv Virus Res (2010) 0.96

HIV molecular epidemiology: transmission and adaptation to human populations. Curr Opin HIV AIDS (2009) 0.94

Diversity in a honey bee pathogen: first report of a third master variant of the Deformed Wing Virus quasispecies. ISME J (2015) 0.94

Effect of bottlenecking on evolution of the nonstructural protein 3 gene of hepatitis C virus during sexually transmitted acute resolving infection. J Virol (2005) 0.93

Large-population passages of vesicular stomatitis virus in interferon-treated cells select variants of only limited resistance. J Virol (1996) 0.92

Modeling viral genome fitness evolution associated with serial bottleneck events: evidence of stationary states of fitness. J Virol (2002) 0.90

Incongruent fitness landscapes, not tradeoffs, dominate the adaptation of vesicular stomatitis virus to novel host types. J Gen Virol (2010) 0.90

Covariation in the capsid protein of hibiscus chlorotic ringspot virus induced by serial passaging in a host that restricts movement leads to avirulence in its systemic host. J Virol (2002) 0.88

Ecological factors rather than temporal factors dominate the evolution of vesicular stomatitis virus. Proc Natl Acad Sci U S A (1996) 0.88

Profound differences in virus population genetics correspond to protection from CD4 decline resulting from feline lentivirus coinfection. Viruses (2010) 0.84

Time-Dependent Rate Phenomenon in Viruses. J Virol (2016) 0.84

Mutation accumulation in Tetrahymena. BMC Evol Biol (2010) 0.83

Intra-epidemic evolutionary dynamics of a Dengue virus type 1 population reveal mutant spectra that correlate with disease transmission. Sci Rep (2016) 0.80

Dynamics of in vitro fitness recovery of HIV-1. J Virol (2010) 0.79

The Mutational Robustness of Influenza A Virus. PLoS Pathog (2016) 0.79

Viral population dynamics and virulence thresholds. Curr Opin Microbiol (2012) 0.78

Computational analysis suggests that lyssavirus glycoprotein gene plays a minor role in viral adaptation. Int J Evol Biol (2011) 0.75

Genetic variation in fitness within a clonal population of a plant RNA virus. Virus Evol (2016) 0.75

Articles cited by this

The evolutionary advantage of recombination. Genetics (1974) 11.65

THE RELATION OF RECOMBINATION TO MUTATIONAL ADVANCE. Mutat Res (1964) 11.15

Temporal fluctuations in HIV quasispecies in vivo are not reflected by sequential HIV isolations. Cell (1989) 9.66

Deleterious mutations and the evolution of sexual reproduction. Nature (1988) 8.89

Selective transmission of human immunodeficiency virus type-1 variants from mothers to infants. Science (1992) 7.44

Fitness of RNA virus decreased by Muller's ratchet. Nature (1990) 6.30

RNA virus populations as quasispecies. Curr Top Microbiol Immunol (1992) 5.42

Protein synthesis in vesicular stomatitis virus-infected HeLa cells. Virology (1970) 5.14

Antigenic diversity thresholds and the development of AIDS. Science (1991) 5.13

Selection, recombination, and G----A hypermutation of human immunodeficiency virus type 1 genomes. J Virol (1991) 5.03

Quantitation of relative fitness and great adaptability of clonal populations of RNA viruses. J Virol (1991) 4.79

Positive Darwinian evolution in human influenza A viruses. Proc Natl Acad Sci U S A (1991) 4.78

Broad spectrum of in vivo forward mutations, hypermutations, and mutational hotspots in a retroviral shuttle vector after a single replication cycle: substitutions, frameshifts, and hypermutations. Proc Natl Acad Sci U S A (1990) 4.72

Rapid fitness losses in mammalian RNA virus clones due to Muller's ratchet. Proc Natl Acad Sci U S A (1992) 4.22

The interactionof antiody with the major surface glycoprotein of vesicular stomatitis virus. I. Analysis of neutralizing epitopes with monoclonal antibodies. Virology (1982) 3.81

Genetic variation in AIDS viruses. Cell (1986) 3.68

The interaction of antibody with the major surface glycoprotein of vesicular stomatitis virus. II. Monoclonal antibodies of nonneutralizing and cross-reactive epitopes of Indiana and New Jersey serotypes. Virology (1982) 3.68

The quasispecies (extremely heterogeneous) nature of viral RNA genome populations: biological relevance--a review. Gene (1985) 3.42

Genetic diversity and evolution of retroviruses. Curr Top Microbiol Immunol (1992) 2.92

Molecular cloning of a feline leukemia virus that induces fatal immunodeficiency disease in cats. Science (1988) 2.86

The mutation rate and variability of eukaryotic viruses: an analytical review. J Gen Virol (1987) 2.77

Assessment of experimental and natural viral aerosols. Bacteriol Rev (1966) 2.64

Defective virus is associated with induction of murine retrovirus-induced immunodeficiency syndrome. Proc Natl Acad Sci U S A (1989) 2.63

Effect of route of inoculation on experimental respiratory viral disease in volunteers and evidence for airborne transmission. Bacteriol Rev (1966) 2.41

Sequences of the major antibody binding epitopes of the Indiana serotype of vesicular stomatitis virus. Virology (1986) 2.29

Evolutionary processes in influenza viruses: divergence, rapid evolution, and stasis. Curr Top Microbiol Immunol (1992) 2.09

Rapid generation of sequence variation during primary HIV-1 infection. AIDS (1992) 2.08

SURVIVAL OF MEASLES VIRUS IN AIR. Nature (1964) 2.07

5-Azacytidine and RNA secondary structure increase the retrovirus mutation rate. J Virol (1992) 2.03

Human immunodeficiency virus type 1 quasispecies in vivo and ex vivo. Curr Top Microbiol Immunol (1992) 1.77

RNA virus evolution and the control of viral disease. Prog Drug Res (1989) 1.74

Evolution of the capsid protein genes of foot-and-mouth disease virus: antigenic variation without accumulation of amino acid substitutions over six decades. J Virol (1992) 1.72

Determination of the poliovirus RNA polymerase error frequency at eight sites in the viral genome. J Virol (1992) 1.61

Foot-and-mouth disease virus populations are quasispecies. Curr Top Microbiol Immunol (1992) 1.53

Development of attenuated measles-virus vaccines. A summary of recentinvestigation. Am J Dis Child (1962) 1.49

Air sampling for respiratory disease agents in army recruits. Bacteriol Rev (1966) 1.48

Mutations and A/I hypermutations in measles virus persistent infections. Curr Top Microbiol Immunol (1992) 1.44

Polymerase errors accumulating during natural evolution of the glycoprotein gene of vesicular stomatitis virus Indiana serotype isolates. J Virol (1990) 1.44

Levels of selection, evolution of sex in RNA viruses, and the origin of life. J Theor Biol (1991) 1.36

Antigenic determinants of vesicular stomatitis virus: analysis with antigenic variants. J Immunol (1983) 1.33

Prevalence and type of pre-C HBV mutants in anti-HBe positive carriers with chronic liver disease in a highly endemic area. Virology (1991) 1.10

Serial passage of infectious transcripts of a cucumber mosaic virus satellite RNA clone results in sequence heterogeneity. Virology (1990) 1.04

Deleterious mutation and genetic recombination. Nature (1988) 1.02

Rapid sequence evolution of street rabies glycoprotein is related to the highly heterogeneous nature of the viral population. Virology (1992) 1.01

Genetic diversity and rapid evolution of poliovirus in human hosts. Curr Top Microbiol Immunol (1992) 0.94

On the evolution of sex in RNA viruses. J Theor Biol (1989) 0.89

Articles by these authors

Rapid evolution of RNA genomes. Science (1982) 14.76

The gene involved in X-linked agammaglobulinaemia is a member of the src family of protein-tyrosine kinases. Nature (1993) 7.39

Genetic basis and molecular mechanism for idiopathic ventricular fibrillation. Nature (1998) 7.26

Nucleotide sequence heterogeneity of an RNA phage population. Cell (1978) 5.55

Rapid fitness losses in mammalian RNA virus clones due to Muller's ratchet. Proc Natl Acad Sci U S A (1992) 4.22

Sexual health education interventions for young people: a methodological review. BMJ (1995) 4.18

Impact of protein kinase PKR in cell biology: from antiviral to antiproliferative action. Microbiol Mol Biol Rev (2006) 4.13

Clonal interference and the evolution of RNA viruses. Science (1999) 3.68

Transmission of hepatitis C virus by a cardiac surgeon. N Engl J Med (1996) 3.60

The quasispecies (extremely heterogeneous) nature of viral RNA genome populations: biological relevance--a review. Gene (1985) 3.42

Basic concepts in RNA virus evolution. FASEB J (1996) 3.35

Guidelines on management (diagnosis and treatment) of syncope. Eur Heart J (2001) 3.22

Mutation frequencies at defined single codon sites in vesicular stomatitis virus and poliovirus can be increased only slightly by chemical mutagenesis. J Virol (1990) 3.11

Multiple genetic variants arise in the course of replication of foot-and-mouth disease virus in cell culture. Virology (1983) 3.04

Side-stepping secondary symbionts: widespread horizontal transfer across and beyond the Aphidoidea. Mol Ecol (2003) 2.83

The proportion of revertant and mutant phage in a growing population, as a function of mutation and growth rate. Gene (1976) 2.77

Pol gene quasispecies of human immunodeficiency virus: mutations associated with drug resistance in virus from patients undergoing no drug therapy. J Virol (1995) 2.68

Exponential increases of RNA virus fitness during large population transmissions. Proc Natl Acad Sci U S A (1995) 2.60

Natural populations of Trypanosoma cruzi, the agent of Chagas disease, have a complex multiclonal structure. Proc Natl Acad Sci U S A (1986) 2.48

Nucleotide sequence heterogeneity of the RNA from a natural population of foot-and-mouth-disease virus. Gene (1980) 2.44

Genetic lesions associated with Muller's ratchet in an RNA virus. J Mol Biol (1996) 2.41

Contribution of Taq polymerase-induced errors to the estimation of RNA virus diversity. J Gen Virol (1998) 2.38

Comparative studies of psychological function in patients with advanced cancer--I. Self-reported depressive symptoms. Psychosom Med (1977) 2.28

Lack of evolutionary stasis during alternating replication of an arbovirus in insect and mammalian cells. J Mol Biol (1999) 2.28

Virus mutation frequencies can be greatly underestimated by monoclonal antibody neutralization of virions. J Virol (1989) 2.27

Response of foot-and-mouth disease virus to increased mutagenesis: influence of viral load and fitness in loss of infectivity. J Virol (2000) 2.26

Agriculture. Increased food and ecosystem security via perennial grains. Science (2010) 2.25

Genome size reduction through multiple events of gene disintegration in Buchnera APS. Trends Genet (2001) 2.22

Lack of evidence for proofreading mechanisms associated with an RNA virus polymerase. Gene (1992) 2.20

Size of genetic bottlenecks leading to virus fitness loss is determined by mean initial population fitness. J Virol (1995) 2.18

Evolution of cell recognition by viruses. Science (2001) 2.14

Behavioural interventions for HIV/AIDS prevention. AIDS (1995) 2.10

Subclonal components of consensus fitness in an RNA virus clone. J Virol (1994) 2.09

RNA virus quasispecies: significance for viral disease and epidemiology. Infect Agents Dis (1994) 2.08

KRAS and BRAF oncogenic mutations in MSS colorectal carcinoma progression. Oncogene (2006) 2.07

Determinants of the willingness to endorse assisted suicide. A survey of physicians, nurses, and social workers. Psychosomatics (1997) 2.06

The two species of the foot-and-mouth disease virus leader protein, expressed individually, exhibit the same activities. Virology (1993) 2.05

Molecular heterogeneity of the fragile X syndrome. Nucleic Acids Res (1991) 2.00

Multiple molecular pathways for fitness recovery of an RNA virus debilitated by operation of Muller's ratchet. J Mol Biol (1999) 2.00

Genetic variability of Hong Kong (H3N2) influenza viruses: spontaneous mutations and their location in the viral genome. Gene (1980) 1.95

Cost of host radiation in an RNA virus. Genetics (2000) 1.95

Diminishing returns of population size in the rate of RNA virus adaptation. J Virol (2000) 1.94

Rapid selection of genetic and antigenic variants of foot-and-mouth disease virus during persistence in cattle. J Virol (1988) 1.92

Coevolution of cells and viruses in a persistent infection of foot-and-mouth disease virus in cell culture. J Virol (1988) 1.90

Fitness alteration of foot-and-mouth disease virus mutants: measurement of adaptability of viral quasispecies. J Virol (1991) 1.89

Sexually transmitted diseases in homosexual relationships. J Ir Med Assoc (1972) 1.89

Efficient virus extinction by combinations of a mutagen and antiviral inhibitors. J Virol (2001) 1.86

Drastic fitness loss in human immunodeficiency virus type 1 upon serial bottleneck events. J Virol (1999) 1.85

Establishment of cell lines persistently infected with foot-and-mouth disease virus. Virology (1985) 1.84

The evolution of RNA viruses: A population genetics view. Proc Natl Acad Sci U S A (2000) 1.84

Extreme fitness differences in mammalian and insect hosts after continuous replication of vesicular stomatitis virus in sandfly cells. J Virol (1995) 1.84

The red queen reigns in the kingdom of RNA viruses. Proc Natl Acad Sci U S A (1994) 1.83

Clonality assessment and clonal ordering of individual neoplastic crypts shows polyclonality of colorectal adenomas. Gastroenterology (2010) 1.83

The structure and antigenicity of a type C foot-and-mouth disease virus. Structure (1994) 1.82

Mechanism of rejection of virus persistently infected tumor cells by athymic nude mice. J Exp Med (1979) 1.81

RNA virus evolution and the control of viral disease. Prog Drug Res (1989) 1.74

In vitro site-directed mutagenesis: generation and properties of an infectious extracistronic mutant of bacteriophage Qbeta. Gene (1976) 1.72

Evolution of the capsid protein genes of foot-and-mouth disease virus: antigenic variation without accumulation of amino acid substitutions over six decades. J Virol (1992) 1.72

Implications of a quasispecies genome structure: effect of frequent, naturally occurring amino acid substitutions on the antigenicity of foot-and-mouth disease virus. Proc Natl Acad Sci U S A (1989) 1.71

Memory in viral quasispecies. J Virol (2000) 1.70

Evolution of the nucleotide sequence of influenza virus RNA segment 7 during drift of the H3N2 subtype. Gene (1983) 1.64

Molecular indetermination in the transition to error catastrophe: systematic elimination of lymphocytic choriomeningitis virus through mutagenesis does not correlate linearly with large increases in mutant spectrum complexity. Proc Natl Acad Sci U S A (2002) 1.60

Exponential fitness gains of RNA virus populations are limited by bottleneck effects. J Virol (1999) 1.60

A single amino acid substitution affects multiple overlapping epitopes in the major antigenic site of foot-and-mouth disease virus of serotype C. J Gen Virol (1990) 1.57

Origin and evolution of viruses. Virus Genes (1998) 1.56

Is quality of life predictive of the survival of patients with advanced nonsmall cell lung carcinoma? Cancer (1999) 1.53

Fixation of mutations in the viral genome during an outbreak of foot-and-mouth disease: heterogeneity and rate variations. Gene (1986) 1.53

Multiple virulence determinants of foot-and-mouth disease virus in cell culture. J Virol (1998) 1.52

A single nucleotide substitution in the internal ribosome entry site of foot-and-mouth disease virus leads to enhanced cap-independent translation in vivo. J Virol (1993) 1.50

Foot-and-mouth disease virus lacking the VP1 G-H loop: the mutant spectrum uncovers interactions among antigenic sites for fitness gain. Virology (2001) 1.50

Discovery and molecular characterization of a plasmid localized in Buchnera sp. bacterial endosymbiont of the aphid Rhopalosiphum padi. J Mol Evol (1995) 1.46

The proportion of tumor-stroma as a strong prognosticator for stage II and III colon cancer patients: validation in the VICTOR trial. Ann Oncol (2012) 1.46

The second-look operation improves survival in suboptimally debulked stage III ovarian cancer patients. Int J Gynecol Cancer (2005) 1.46

Structure of the major antigenic loop of foot-and-mouth disease virus complexed with a neutralizing antibody: direct involvement of the Arg-Gly-Asp motif in the interaction. EMBO J (1995) 1.45

Negative effects of chemical mutagenesis on the adaptive behavior of vesicular stomatitis virus. J Virol (1997) 1.45

A real-time RT-PCR assay for quantifying the fitness of tobacco etch virus in competition experiments. J Virol Methods (2006) 1.45

Human immunodeficiency virus type 1 reverse transcriptase: role of Tyr115 in deoxynucleotide binding and misinsertion fidelity of DNA synthesis. EMBO J (1996) 1.44