(Q34611860)

3 August 2017

title

Bacterial phylogenetic reconstruction from whole genomes is robust to recombination but demographic inference is not. (English)

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3 August 2017

0 references

1 reference

Jessica Hedge

1

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author name string

Daniel J Wilson

series ordinal

2

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3 August 2017

publication date

25 November 2014

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3 August 2017

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3 August 2017

volume

5

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3 August 2017

issue

6

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3 August 2017

page(s)

e02158

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Insights from genomics into bacterial pathogen populations

3 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

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7 July 2018

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Rapid typing of Coxiella burnetii

7 July 2018

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Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity

7 July 2018

1 reference

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Inference of homologous recombination in bacteria using whole-genome sequences

7 July 2018

1 reference

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Unifying vertical and nonvertical evolution: a stochastic ARG-based framework

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Phylogenetic inference using whole genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Noisy: identification of problematic columns in multiple sequence alignments

7 July 2018

1 reference

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7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Inconsistency of phylogenetic estimates from concatenated data under coalescence

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Application of phylogenetic networks in evolutionary studies

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

The effect of recombination on the accuracy of phylogeny estimation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Estimating recombination rates from population genetic data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Maximum likelihood estimation of recombination rates from population data.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Consequences of recombination on traditional phylogenetic analysis.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

7 July 2018

How clonal are bacteria?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Evolutionary trees from DNA sequences: A maximum likelihood approach

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

The neighbor-joining method: a new method for reconstructing phylogenetic trees

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Molecular evolution of the Escherichia coli chromosome. III. Clonal frames

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4251999

Approximating the coalescent with recombination

7 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1128%2FMBIO.02158-14

Potential impact of recombination on sitewise approaches for detecting positive natural selection

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1128%2FMBIO.02158-14

Detecting recombination from gene trees

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25425237

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1128/MBIO.02158-14

1 reference

3 August 2017

1 reference

3 August 2017

1 reference