Mapping the Evolutionary Potential of RNA Viruses.

scientific article published in April 2018

Mapping the Evolutionary Potential of RNA Viruses. is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1016/J.CHOM.2018.03.012
P932PMC publication ID5908228
P698PubMed publication ID29649440

P50authorPatrick T DolanQ56385493
Raul AndinoQ65508584
P2093author name stringZachary J Whitfield
P2860cites workStability-mediated epistasis constrains the evolution of an influenza proteinQ21128791
Global migration dynamics underlie evolution and persistence of human influenza A (H3N2)Q21131556
A single mutation in chikungunya virus affects vector specificity and epidemic potentialQ21131599
Quasispecies theory in the context of population geneticsQ21283965
Stochastic processes are key determinants of short-term evolution in influenza a virusQ21559513
Evolution of mutational robustness in an RNA virusQ21563619
Experimental illumination of a fitness landscapeQ22066261
A predictive fitness model for influenzaQ42235123
A comprehensive biophysical description of pairwise epistasis throughout an entire protein domainQ42551296
Predicting virus emergence amid evolutionary noiseQ42699151
Is the quasispecies concept relevant to RNA viruses?Q42803899
Single-Cell Virology: On-Chip Investigation of Viral Infection DynamicsQ43977684
Genetic bottlenecks in intraspecies virus transmissionQ45325228
Engineering attenuated virus vaccines by controlling replication fidelityQ45397402
On the nature of virus quasispeciesQ45768445
Molecular ensembles make evolution unpredictable.Q47112377
Contemporary H3N2 influenza viruses have a glycosylation site that alters binding of antibodies elicited by egg-adapted vaccine strains.Q47150783
Alternative evolutionary histories in the sequence space of an ancient protein.Q47193556
Genome-wide identification of interferon-sensitive mutations enables influenza vaccine designQ47551693
Influenza A virus hemagglutinin glycosylation compensates for antibody escape fitness costs.Q47551825
Evolution-informed forecasting of seasonal influenza A (H3N2).Q47600273
Mutation-Driven Parallel Evolution during Viral AdaptationQ47613442
Single-cell transcriptional dynamics of flavivirus infection.Q49933512
Extreme heterogeneity of influenza virus infection in single cellsQ49933555
When are pathogen genome sequences informative of transmission events?Q50114269
Rate of novel host invasion affects adaptability of evolving RNA virus lineages.Q50984313
Host shifts result in parallel genetic changes when viruses evolve in closely related species.Q52591813
VACCINE-DERIVED POLIOVIRUSES AND THE ENDGAME STRATEGY FOR GLOBAL POLIO ERADICATION *Q22255613
Brain-Region-Specific Organoids Using Mini-bioreactors for Modeling ZIKV ExposureQ24004552
Global rise in human infectious disease outbreaksQ24276928
Flavivirus NS1 protein in infected host sera enhances viral acquisition by mosquitoesQ24705181
Identifying hosts of families of viruses: a machine learning approachQ27312542
Group Selection and Contribution of Minority Variants during Virus Adaptation Determines Virus Fitness and PhenotypeQ27320149
Virological factors that increase the transmissibility of emerging human virusesQ27469130
Drivers of Inter-individual Variation in Dengue Viral Load DynamicsQ27882968
Selforganization of matter and the evolution of biological macromoleculesQ28248277
Thermodynamics of neutral protein evolutionQ28274517
Contingency and entrenchment in protein evolution under purifying selectionQ28647800
Detecting the impact of temperature on transmission of Zika, dengue, and chikungunya using mechanistic modelsQ29587261
Darwinian evolution can follow only very few mutational paths to fitter proteinsQ29616042
Quasispecies diversity determines pathogenesis through cooperative interactions in a viral populationQ29616266
Evolutionary enhancement of Zika virus infectivity in Aedes aegypti mosquitoesQ30145601
Mosquitoes Transmit Unique West Nile Virus Populations during Each Feeding EpisodeQ30145681
Characterization of Viral Populations by Using Circular SequencingQ30248883
Prediction, dynamics, and visualization of antigenic phenotypes of seasonal influenza viruses.Q30356476
High-throughput profiling of influenza A virus hemagglutinin gene at single-nucleotide resolutionQ30362478
Historical contingency and its biophysical basis in glucocorticoid receptor evolution.Q30363637
Influenza A virus transmission bottlenecks are defined by infection route and recipient host.Q30369231
Detecting ultralow-frequency mutations by Duplex SequencingQ30413211
Systematic identification of H274Y compensatory mutations in influenza A virus neuraminidase by high-throughput screeningQ30423620
How next-generation sequencing and multiscale data analysis will transform infectious disease managementQ30985718
An investigation of the statistical power of neutrality tests based on comparative and population genetic dataQ33376943
Quasispecies theory and the behavior of RNA virusesQ33641547
High-resolution mapping of protein sequence-function relationshipsQ33658465
Parallel evolution of influenza across multiple spatiotemporal scalesQ33842490
An experimentally determined evolutionary model dramatically improves phylogenetic fit.Q33923545
The inherent mutational tolerance and antigenic evolvability of influenza hemagglutininQ33943327
Mutational and fitness landscapes of an RNA virus revealed through population sequencingQ33953331
Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter DropletsQ34044099
Full-length haplotype reconstruction to infer the structure of heterogeneous virus populationsQ34044256
High-throughput identification of loss-of-function mutations for anti-interferon activity in the influenza A virus NS segmentQ34059442
A Balance between Inhibitor Binding and Substrate Processing Confers Influenza Drug ResistanceQ38812500
Rapid, targeted and culture-free viral infectivity assay in drop-based microfluidicsQ38841041
Epidemic dynamics revealed in dengue evolution.Q38904078
A high-throughput drop microfluidic system for virus culture and analysisQ38927241
Interim Estimates of 2016-17 Seasonal Influenza Vaccine Effectiveness - United States, February 2017.Q38957414
Artifact-Free Quantification and Sequencing of Rare Recombinant Viruses by Using Drop-Based MicrofluidicsQ38977086
Microbial evolution. Global epistasis makes adaptation predictable despite sequence-level stochasticityQ39169158
Emergence and transmission of arbovirus evolutionary intermediates with epidemic potentialQ39176758
Codon usage determines the mutational robustness, evolutionary capacity, and virulence of an RNA virusQ39243651
Natural genetic exchanges between vaccine and wild poliovirus strains in humans.Q39612254
Selection for mutational robustness in finite populationsQ39765259
Poliovirus intrahost evolution is required to overcome tissue-specific innate immune responses.Q40066010
Ebola Virus Glycoprotein with Increased Infectivity Dominated the 2013-2016 EpidemicQ40081157
Influenza Vaccine Effectiveness in the United States during the 2015-2016 SeasonQ40089214
RNA Recombination Enhances Adaptability and Is Required for Virus Spread and VirulenceQ40492307
Intermolecular epistasis shaped the function and evolution of an ancient transcription factor and its DNA binding sitesQ41342939
A single mutation in the prM protein of Zika virus contributes to fetal microcephaly.Q41352462
Duration of poliovirus excretion and its implications for acute flaccid paralysis surveillance: a review of the literatureQ41514776
Shifts in the selection-drift balance drive the evolution and epidemiology of foot-and-mouth disease virusQ41880685
Costs and benefits of mutational robustness in RNA virusesQ34079587
Visualizing fitness landscapesQ34190107
RNA virus population diversity, an optimum for maximal fitness and virulenceQ34396730
Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic ScreensQ34547509
A systematic survey of an intragenic epistatic landscape.Q34740848
From fitness landscapes to seascapes: non-equilibrium dynamics of selection and adaptation.Q34949551
Should evolutionary geneticists worry about higher-order epistasis?Q35035921
A biophysical protein folding model accounts for most mutational fitness effects in virusesQ35049281
Deep mutational scanning: assessing protein function on a massive scaleQ35175479
A new synthesis for dual use research of concernQ35416787
Experimental evolution of an RNA virus in wild birds: evidence for host-dependent impacts on population structure and competitive fitnessQ35629020
Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer IDQ35647691
Evolution of DNA specificity in a transcription factor family produced a new gene regulatory moduleQ35660386
Determinants of attenuation and temperature sensitivity in the type 1 poliovirus Sabin vaccineQ35845137
Coupling high-throughput genetics with phylogenetic information reveals an epistatic interaction on the influenza A virus M segmentQ35891196
Primer ID Validates Template Sampling Depth and Greatly Reduces the Error Rate of Next-Generation Sequencing of HIV-1 Genomic RNA PopulationsQ35914387
Single-cell barcoding and sequencing using droplet microfluidicsQ36215738
Deep mutational scanning identifies sites in influenza nucleoprotein that affect viral inhibition by MxAQ36324044
A fundamental protein property, thermodynamic stability, revealed solely from large-scale measurements of protein functionQ36342633
High-order epistasis shapes evolutionary trajectoriesQ36372082
Predictability of evolution depends nonmonotonically on population sizeQ36535179
Analyses of the effects of all ubiquitin point mutants on yeast growth rateQ36736277
What can we predict about viral evolution and emergence?Q36767215
Droplet barcoding for massively parallel single-molecule deep sequencingQ37061001
Single-cell mass cytometry for analysis of immune system functional statesQ37330089
Human Adaptation of Ebola Virus during the West African OutbreakQ37402042
Deep Sequencing of Influenza A Virus from a Human Challenge Study Reveals a Selective Bottleneck and Only Limited Intrahost Genetic DiversificationQ37448365
Dynamics of molecular evolution in RNA virus populations depend on sudden versus gradual environmental changeQ37739024
Virus population bottlenecks during within-host progression and host-to-host transmission.Q38037877
Viral quasispeciesQ38396578
phydms: software for phylogenetic analyses informed by deep mutational scanningQ38635802
Host and viral traits predict zoonotic spillover from mammalsQ38668458
A novel twelve class fluctuation test reveals higher than expected mutation rates for influenza A virusesQ38734385
The Evolutionary Pathway to Virulence of an RNA VirusQ38740160
P433issue4
P407language of work or nameEnglishQ1860
P921main subjectmicrofluidicsQ138845
parasitologyQ180502
experimental evolutionQ3592884
evolutionary dynamicsQ5418700
P304page(s)435-446
P577publication date2018-04-01
P1433published inCell Host & MicrobeQ5058153
P1476titleMapping the Evolutionary Potential of RNA Viruses
P478volume23

Reverse relations

cites work (P2860)
Q60916834An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar
Q66679163Effects of Arbovirus Multi-Host Life Cycles on Dinucleotide and Codon Usage Patterns
Q94660725Epidemiology and evolutionary analysis of Torque teno sus virus
Q101043805Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants
Q90632605Evolutionary Trajectory for the Emergence of Novel Coronavirus SARS-CoV-2
Q84315481Fitness Barriers Limit Reversion of a Proofreading-Deficient Coronavirus
Q63741188Functional Interplay between RNA Viruses and Non-Coding RNA in Mammals
Q58861509HIV-1 Protease Evolvability Is Affected by Synonymous Nucleotide Recoding
Q99411825Population genomics of louping ill virus provide new insights into the evolution of tick-borne flaviviruses
Q58861513Resistance of high fitness hepatitis C virus to lethal mutagenesis
Q57285533The phylogenomics of evolving virus virulence

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