GroEL dependency affects codon usage--support for a critical role of misfolding in gene evolution (Q33668518)

28 July 2017

GroEL dependency affects codon usage--support for a critical role of misfolding in gene evolution (English)

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28 July 2017

2

1 reference

28 July 2017

Tobias Warnecke

1

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publication date

19 January 2010

1 reference

Molecular Systems Biology

28 July 2017

1 reference

28 July 2017

6

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28 July 2017

340

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Stochastic noise in splicing machinery

28 July 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

An atlas of chaperone-protein interactions in Saccharomyces cerevisiae: implications to protein folding pathways in the cell

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Chaperonin overexpression promotes genetic variation and enzyme evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Converging concepts of protein folding in vitro and in vivo

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mRNA decay

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Coding-sequence determinants of gene expression in Escherichia coli

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Translationally optimal codons associate with structurally sensitive sites in proteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Evolutionary genomics and the reach of selection

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Fidelity at the molecular level: lessons from protein synthesis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

The interaction network of the chaperonin CCT

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

GroEL stimulates protein folding through forced unfolding

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Phenotypic mutation rates and the abundance of abnormal proteins in yeast

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Positive selection for unpreferred codon usage in eukaryotic genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

The effects of differential gene expression on coding sequence features: analysis by one-way ANOVA.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Synonymous codon usage in Escherichia coli: selection for translational accuracy.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Global aggregation of newly translated proteins in an Escherichia coli strain deficient of the chaperonin GroEL.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Protein misfolding and human disease

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Pathways of chaperone-mediated protein folding in the cytosol

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Molecular evolutionary relationships of enteroinvasive Escherichia coli and Shigella spp

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Integrating high-throughput and computational data elucidates bacterial networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Mutational and selective pressures on codon and amino acid usage in Buchnera, endosymbiotic bacteria of aphids.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Unexpected correlations between gene expression and codon usage bias from microarray data for the whole Escherichia coli K-12 genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

TRiC/CCT cooperates with different upstream chaperones in the folding of distinct protein classes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Reductive genome evolution in Buchnera aphidicola

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

The evolution of the heat-shock protein GroEL from Buchnera, the primary endosymbiont of aphids, is governed by positive selection

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Silent mutations affect in vivo protein folding in Escherichia coli

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Endosymbiotic bacteria: groEL buffers against deleterious mutations

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

The evolution of isochores

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Quality control of mRNA function

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

tRNA gene number and codon usage in the C. elegans genome are co-adapted for optimal translation of highly expressed genes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Protein folding: versatility of the cytosolic chaperonin TRiC/CCT.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Posttranslational quality control: folding, refolding, and degrading proteins.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Global unfolding of a substrate protein by the Hsp100 chaperone ClpA.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Evidence for genetic drift in endosymbionts (Buchnera): analyses of protein-coding genes.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Ribosome-mediated translational pause and protein domain organization

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Synonymous codon bias is related to gene length in Escherichia coli: selection for translational accuracy?

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Accelerated evolution and Muller's rachet in endosymbiotic bacteria

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: A proposal for a synonymous codon choice that is optimal for the E. coli translational system

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

Codon preferences in free-living microorganisms

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824523

The temporal dynamics of slightly deleterious mutations in Escherichia coli and Shigella spp.

21 June 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Genomic determinants of protein folding thermodynamics in prokaryotic organisms.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Integration of horizontally transferred genes into regulatory interaction networks takes many million years.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Comparative molecular evolution of primary (Buchnera) and secondary symbionts of aphids based on two protein-coding genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Tracing specific synonymous codon-secondary structure correlations through evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Specific correlations between relative synonymous codon usage and protein secondary structure.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

DNA repeats lead to the accelerated loss of gene order in bacteria

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Proteome-wide Analysis of Chaperonin-Dependent Protein Folding in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Translational control of intron splicing in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

Low folding propensity and high translation efficiency distinguish in vivo substrates of GroEL from other Escherichia coli proteins

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20087338

12 December 2020

inferred from PubMed ID database lookup

Synonymous codon substitutions affect ribosome traffic and protein folding during in vitro translation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20087338

12 December 2020

inferred from PubMed ID database lookup

Structure and function in GroEL-mediated protein folding

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20087338

12 December 2020

inferred from PubMed ID database lookup

Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2009.94

7 January 2021

inferred from DOI database lookup

Identifiers

DOI

10.1038/MSB.2009.94

1 reference

28 July 2017

1 reference

28 July 2017

1 reference

PubMed ID

20087338