Stability-mediated epistasis constrains the evolution of an influenza protein (Q21128791)

16 August 2022

2

Marc A Suchard

Marc A

Suchard

1 reference

16 August 2022

Lizhi Ian Gong

1

Lizhi Ian

Gong

1 reference

23682315

Bayesian phylogenetics with BEAUti and the BEAST 1.7

16 August 2022

language of work or name

English

0 references

publication date

2013

0 references

published in

eLife

0 references

volume

2

0 references

page(s)

e00631

0 references

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli

19 March 2017

1 reference

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The genomic and epidemiological dynamics of human influenza A virus

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Crystal structure of an ancient protein: evolution by conformational epistasis

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Protein stability promotes evolvability

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Biochemical and Structural Evidence in Support of a Coherent Model for the Formation of the Double-Helical Influenza A Virus Ribonucleoprotein

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

An epistatic ratchet constrains the direction of glucocorticoid receptor evolution

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Structure of the influenza virus A H5N1 nucleoprotein: implications for RNA binding, oligomerization, and vaccine design

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

The mechanism by which influenza A virus nucleoprotein forms oligomers and binds RNA

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Evolution of an antibiotic resistance enzyme constrained by stability and activity trade-offs

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

The rapid generation of mutation data matrices from protein sequences

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

A novel influenza A virus mitochondrial protein that induces cell death.

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Prevalence of epistasis in the evolution of influenza A surface proteins

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Pervasive cryptic epistasis in molecular evolution

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Thermodynamics of neutral protein evolution

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Experimental adaptation of an influenza H5 HA confers respiratory droplet transmission to a reassortant H5 HA/H1N1 virus in ferrets

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Darwinian evolution can follow only very few mutational paths to fitter proteins

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Mapping the antigenic and genetic evolution of influenza virus

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

A DNA transfection system for generation of influenza A virus from eight plasmids

7 April 2017

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

FUBAR: a fast, unconstrained bayesian approximation for inferring selection

22 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

The genomic rate of molecular adaptation of the human influenza A virus

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Initial mutations direct alternative pathways of protein evolution

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Immunity to seasonal and pandemic influenza A viruses

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Permissive secondary mutations enable the evolution of influenza oseltamivir resistance

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

NetCTLpan: pan-specific MHC class I pathway epitope predictions

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

The immune epitope database 2.0.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Stability effects of mutations and protein evolvability

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Learning to count: robust estimates for labeled distances between molecular sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Immunomic analysis of the repertoire of T-cell specificities for influenza A virus in humans

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Epochal evolution shapes the phylodynamics of interpandemic influenza A (H3N2) in humans

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Robustness-epistasis link shapes the fitness landscape of a randomly drifting protein.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Functional constraints of influenza A virus epitopes limit escape from cytotoxic T lymphocytes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Missense meanderings in sequence space: a biophysical view of protein evolution

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Perspective: Sign epistasis and genetic constraint on evolutionary trajectories

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Functional compensation of a detrimental amino acid substitution in a cytotoxic-T-lymphocyte epitope of influenza a viruses by comutations

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

A mutation in the HLA-B*2705-restricted NP383-391 epitope affects the human influenza A virus-specific cytotoxic T-lymphocyte response in vitro

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Population dynamics of rapid fixation in cytotoxic T lymphocyte escape mutants of influenza A

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Dobzhansky-Muller incompatibilities in protein evolution

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

The influenza virus nucleoprotein: a multifunctional RNA-binding protein pivotal to virus replication.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Antigenic drift in the influenza A virus (H3N2) nucleoprotein and escape from recognition by cytotoxic T lymphocytes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Identification of the peptide binding motif for HLA-B44, one of the most common HLA-B alleles in the Caucasian population

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Natural Selection and the Concept of a Protein Space

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Identification of broad binding class I HLA supertype epitopes to provide universal coverage of influenza A virus

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Accessory mutations maintain stability in drug-resistant HIV-1 protease.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Compensated pathogenic deviations: analysis of structural effects.

30 May 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Fitness costs limit escape from cytotoxic T lymphocytes by influenza A viruses

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Assessment of the extent of variation in influenza A virus cytotoxic T-lymphocyte epitopes by using virus-specific CD8+ T-cell clones

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Compensatory evolution in mitochondrial tRNAs navigates valleys of low fitness

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Counting labeled transitions in continuous-time Markov models of evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Sequence variation in the influenza A virus nucleoprotein associated with escape from cytotoxic T lymphocytes

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Influenza Escapes Immunity Along Neutral Networks

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Evolutionary Divergence and Convergence in Proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00631

Human immunogenic T cell epitopes in nucleoprotein of human influenza A (H5N1) virus.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3654441

Why are proteins marginally stable?

29 November 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/23682315

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.7554/ELIFE.00631

1 reference

release_fag5pjdahje6dmi6imjy5ybcie

Fatcat ID

0 references

1 reference

1 reference

23682315

1 reference