(Q28645797)

Cécile Gubry-Rangin

1

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Tom A. Williams

Tom A Williams

3

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Alice Carolyn McHardy

4

Alice C McHardy

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Martin Embley

5

T Martin Embley

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author name string

James I Prosser

6

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Daniel J Macqueen

Proceedings of the National Academy of Sciences of the United States of America

7

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language of work or name

English

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publication date

28 July 2015

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published in

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volume

112

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issue

30

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page(s)

9370-5

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cites work

Specialization and generalization in the diversification of phytophagous insects: tests of the musical chairs and oscillation hypotheses

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RidgeRace: ridge regression for continuous ancestral character estimation on phylogenetic trees

17 March 2017

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Automatic detection of key innovations, rate shifts, and diversity-dependence on phylogenetic trees

17 March 2017

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Insights into the phylogeny and coding potential of microbial dark matter

17 March 2017

1 reference

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Global ecological pattern of ammonia-oxidizing archaea

17 March 2017

1 reference

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Horizontal gene transfer of a chloroplast DnaJ-Fer protein to Thaumarchaeota and the evolutionary history of the DnaK chaperone system in Archaea

17 March 2017

1 reference

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Explosive radiation of a bacterial species group

17 March 2017

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Bayesian phylogenetics with BEAUti and the BEAST 1.7

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Estimating the timing of early eukaryotic diversification with multigene molecular clocks

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Relaxed phylogenetics and dating with confidence

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Isolation of an autotrophic ammonia-oxidizing marine archaeon

17 March 2017

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The timing of eukaryotic evolution: does a relaxed molecular clock reconcile proteins and fossils?

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

The universal ancestor and the ancestor of bacteria were hyperthermophiles

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Testing macro-evolutionary models using incomplete molecular phylogenies

17 March 2017

1 reference

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Diversitree : comparative phylogenetic analyses of diversification in R

17 March 2017

1 reference

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On the Genealogy of Large Populations

22 April 2017

1 reference

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Long-Term Experimental Evolution in Escherichia coli. I. Adaptation and Divergence During 2,000 Generations

22 April 2017

1 reference

https://api.crossref.org/works/10.1073/PNAS.1419329112

SYMPATRIC HOST RACE FORMATION AND SPECIATION IN FRUGIVOROUS FLIES OF THE GENUS RHAGOLETIS (DIPTERA, TEPHRITIDAE).

22 April 2017

1 reference

https://api.crossref.org/works/10.1073/PNAS.1419329112

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

22 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Search and clustering orders of magnitude faster than BLAST

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

The conditioned reconstructed process

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

An index of substitution saturation and its application

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

RDP3: a flexible and fast computer program for analyzing recombination

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Extinction rates should not be estimated from molecular phylogenies

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

LASER: a maximum likelihood toolkit for detecting temporal shifts in diversification rates from molecular phylogenies

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Explosive evolutionary radiations: decreasing speciation or increasing extinction through time?

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Characterisation of terrestrial acidophilic archaeal ammonia oxidisers and their inhibition and stimulation by organic compounds

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Niche filling slows the diversification of Himalayan songbirds

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Molecular phylogenetics and the diversification of hummingbirds

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Analysis and visualization of complex macroevolutionary dynamics: an example from Australian scincid lizards

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Rates of speciation and morphological evolution are correlated across the largest vertebrate radiation.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

The genome of the ammonia-oxidizing Candidatus Nitrososphaera gargensis: insights into metabolic versatility and environmental adaptations.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Archaeal and bacterial ammonia-oxidisers in soil: the quest for niche specialisation and differentiation

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Niche specialization of terrestrial archaeal ammonia oxidizers

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

amoA-based consensus phylogeny of ammonia-oxidizing archaea and deep sequencing of amoA genes from soils of four different geographic regions

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Thaumarchaeotes abundant in refinery nitrifying sludges express amoA but are not obligate autotrophic ammonia oxidizers

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Archaea rather than bacteria control nitrification in two agricultural acidic soils

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Thaumarchaeal ammonia oxidation in an acidic forest peat soil is not influenced by ammonium amendment

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Diversity dynamics: molecular phylogenies need the fossil record

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidizing archaea and bacteria

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

An Earth-system perspective of the global nitrogen cycle

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Archaea predominate among ammonia-oxidizing prokaryotes in soils

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Cladogenesis, coalescence and the evolution of the three domains of life

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

Speciation by host switch and adaptive radiation in a fish parasite genus Gyrodactylus (Monogenea, Gyrodactylidae).

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

HONO Emissions from Soil Bacteria as a Major Source of Atmospheric Reactive Nitrogen

3 June 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1419329112

phytools: an R package for phylogenetic comparative biology (and other things)

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1419329112

Phylogenomic dating--the relative antiquity of archaeal metabolic and physiological traits.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1419329112

Adaptation to environmental temperature is a major determinant of molecular evolutionary rates in archaea

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1419329112

Santa Rosalia revisited: why are there so many species of bacteria?

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1419329112

Population mixing accelerates coevolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1419329112

The rate and pattern of cladogenesis in microbes

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4522744

27 November 2018

Identifiers

DOI

10.1073/PNAS.1419329112

1 reference

ADS bibcode

2015PNAS..112.9370G

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1 reference

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PubMed publication ID

26170282

1 reference