Taxon-rich phylogenomic analyses resolve the eukaryotic tree of life and reveal the power of subsampling by sites (Q28254627)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

title

Taxon-rich phylogenomic analyses resolve the eukaryotic tree of life and reveal the power of subsampling by sites (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

1 reference

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

2

Jessica R Grant

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

language of work or name

English

0 references

publication date

23 December 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

volume

64

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

issue

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

page(s)

406-415

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

The New Higher Level Classification of Eukaryotes with Emphasis on the Taxonomy of Protists

26 February 2020

cites work

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

The Revised Classification of Eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Lateral gene transfer in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

The puzzle of plastid evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Performance, accuracy, and Web server for evolutionary placement of short sequence reads under maximum likelihood

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Universal trees based on large combined protein sequence data sets.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Historical biogeography of the land snail Cornu aspersum: a new scenario inferred from haplotype distribution in the Western Mediterranean basin

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

The evolutionary history of haptophytes and cryptophytes: phylogenomic evidence for separate origins

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Origin of the cell nucleus, mitosis and sex: roles of intracellular coevolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Phylogeny of Choanozoa, Apusozoa, and Other Protozoa and Early Eukaryote Megaevolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Eukaryotic genes of archaebacterial origin are more important than the more numerous eubacterial genes, irrespective of function

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Magic bullets and golden rules: data sampling in molecular phylogenetics

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Genes and other samples of DNA sequence data for phylogenetic inference

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

A method for inferring the rate of evolution of homologous characters that can potentially improve phylogenetic inference, resolve deep divergence and correct systematic biases

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Microsporidian genome analysis reveals evolutionary strategies for obligate intracellular growth.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Analyses of RNA Polymerase II genes from free-living protists: phylogeny, long branch attraction, and the eukaryotic big bang

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

ProtTest 3: fast selection of best-fit models of protein evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Phylogenomics and the reconstruction of the tree of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Tracing the Thread of Plastid Diversity through the Tapestry of Life.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Broad phylogenomic sampling improves resolution of the animal tree of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Modeling compositional heterogeneity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Reevaluating the arthropod tree of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic "supergroups"

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Assessing the root of bilaterian animals with scalable phylogenomic methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

A higher-level phylogenetic classification of the Fungi

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Phylogenetic distributions and histories of proteins involved in anaerobic pyruvate metabolism in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Origin and diversification of eukaryotes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Turning the crown upside down: gene tree parsimony roots the eukaryotic tree of life.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Subulatomonas tetraspora nov. gen. nov. sp. is a member of a previously unrecognized major clade of eukaryotes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Horizontal gene transfer in eukaryotic evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Eukaryotic organisms in Proterozoic oceans

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Statistics and truth in phylogenomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Eocytes: a new ribosome structure indicates a kingdom with a close relationship to eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Evidence for a chimeric nature of nuclear genomes: eubacterial origin of eukaryotic glyceraldehyde-3-phosphate dehydrogenase genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Endosymbiotic associations within protists

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Molecular phylogeny and description of the novel katablepharid Roombia truncata gen. et sp. nov., and establishment of the Hacrobia taxon nov

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Broadly sampled multigene analyses yield a well-resolved eukaryotic tree of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Estimating the timing of early eukaryotic diversification with multigene molecular clocks

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

GUIDANCE: a web server for assessing alignment confidence scores.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Deep relationships of Rhizaria revealed by phylogenomics: a farewell to Haeckel's Radiolaria

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Comprehensive multigene phylogenies of excavate protists reveal the evolutionary positions of "primitive" eukaryotes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

A rapid bootstrap algorithm for the RAxML Web servers

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Rooting the eukaryote tree by using a derived gene fusion

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Mosaic origin of the mitochondrial proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

An evolutionary network of genes present in the eukaryote common ancestor polls genomes on eukaryotic and mitochondrial origin

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single-copy protein domains

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Accounting for evolutionary rate variation among sequence sites consistently changes universal phylogenies deduced from rRNA and protein-coding genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Ultrastructural description of Breviata anathema, n. gen., n. sp., the organism previously studied as "Mastigamoeba invertens".

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Highly incomplete taxa can rescue phylogenetic analyses from the negative impacts of limited taxon sampling

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

An archaeal origin of eukaryotes supports only two primary domains of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

A congruent phylogenomic signal places eukaryotes within the Archaea.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Broadly sampled multigene trees of eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Collodictyon--an ancient lineage in the tree of eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

Can Incomplete Taxa Rescue Phylogenetic Analyses from Long-Branch Attraction?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU126

21 January 2018

Identifiers

DOI

10.1093/SYSBIO/SYU126

2 references

Consolidated OpenCitations Corpus – April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

1 reference

Consolidated OpenCitations Corpus – April 2017

2 references

Consolidated OpenCitations Corpus – April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25540455%20AND%20SRC:MED&resulttype=core&format=json