Synonymous codon usage is subject to selection in thermophilic bacteria (Q24540514)

6 July 2017

title

Synonymous codon usage is subject to selection in thermophilic bacteria (English)

1 reference

6 July 2017

David J Lynn

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6 July 2017

Gregory A C Singer

series ordinal

1 reference

6 July 2017

Donal A Hickey

series ordinal

1 reference

6 July 2017

language of work or name

English

0 references

publication date

1 October 2002

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6 July 2017

published in

Nucleic Acids Research

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6 July 2017

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6 July 2017

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6 July 2017

page(s)

4272-4277

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Thermophilic bacteria strictly obey Szybalski's transcription direction rule and politely purine-load RNAs with both adenine and guanine

6 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Replicational and transcriptional selection on codon usage in Borrelia burgdorferi

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Lateral gene transfer and the nature of bacterial innovation

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Inferring genome trees by using a filter to eliminate phylogenetically discordant sequences and a distance matrix based on mean normalized BLASTP scores

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Analysis of codon usage diversity of bacterial genes with a self-organizing map (SOM): characterization of horizontally transferred genes with emphasis on the E. coli O157 genome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Identification of thermophilic species by the amino acid compositions deduced from their genomes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

How optimized is the translational machinery in Escherichia coli, Salmonella typhimurium and Saccharomyces cerevisiae?

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Codon usage in Caenorhabditis elegans: delineation of translational selection and mutational biases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Codon usage in bacteria: correlation with gene expressivity

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

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

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Codon frequencies in 119 individual genes confirm consistent choices of degenerate bases according to genome type.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

"Silent" sites in Drosophila genes are not neutral: evidence of selection among synonymous codons

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Synonymous codon usage in Bacillus subtilis reflects both translational selection and mutational biases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

The selection-mutation-drift theory of synonymous codon usage

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Using homolog groups to create a whole-genomic tree of free-living organisms: an update.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Analysis of codon usage patterns of bacterial genomes using the self-organizing map.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=140546

Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes

29 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/12364606

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in protein genes. Differences in synonymous codon choice patterns of yeast and Escherichia coli with reference to the abundance of isoaccepting tran

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/12364606

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/12364606

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKF546

1 reference

OpenCitations bibliographic resource ID

6 July 2017

3521444

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

6 July 2017

1 reference