Conserved genes, sampling error, and phylogenomic inference. (Q53131399)

11 May 2018

title

Conserved genes, sampling error, and phylogenomic inference. (English)

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11 May 2018

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author name string

Ricardo Betancur-R

series ordinal

1

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11 May 2018

Gavin J P Naylor

series ordinal

2

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11 May 2018

publication date

30 November 2013

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11 May 2018

published in

Systematic Biology

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volume

63

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issue

2

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11 May 2018

page(s)

257-262

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11 May 2018

Addressing gene tree discordance and non-stationarity to resolve a multi-locus phylogeny of the flatfishes (Teleostei: Pleuronectiformes).

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1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Accuracy and precision of species trees: effects of locus, individual, and base pair sampling on inference of species trees in lizards of the Liolaemus darwinii group (Squamata, Liolaemidae).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Choosing the best genes for the job: the case for stationary genes in genome-scale phylogenetics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Gene tree discordance, phylogenetic inference and the multispecies coalescent

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Is a new and general theory of molecular systematics emerging?

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

High-resolution species trees without concatenation

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Ultraconserved elements anchor thousands of genetic markers spanning multiple evolutionary timescales

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Dealing with incongruence in phylogenomic analyses

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Sources of Error Inherent in Species-Tree Estimation: Impact of Mutational and Coalescent Effects on Accuracy and Implications for Choosing among Different Methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Phylogenomics: the beginning of incongruence?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Resolving an ancient, rapid radiation in Saxifragales

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

STEM: species tree estimation using maximum likelihood for gene trees under coalescence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Phylogeny of bacterial and archaeal genomes using conserved genes: supertrees and supermatrices

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Anchored Hybrid Enrichment for Massively High-Throughput Phylogenomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Optimal data partitioning and a test case for ray-finned fishes (Actinopterygii) based on ten nuclear loci

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

A practical approach to phylogenomics: the phylogeny of ray-finned fish (Actinopterygii) as a case study

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Estimating species phylogenies using coalescence times among sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Heterotachy, an important process of protein evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

A phylogenetic mixture model for detecting pattern-heterogeneity in gene sequence or character-state data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

APE: Analyses of Phylogenetics and Evolution in R language

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Resolving difficult phylogenetic questions: why more sequences are not enough

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Phylogenomics revives traditional views on deep animal relationships

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Combined mitochondrial and nuclear DNA sequences resolve the interrelations of the major Australasian marsupial radiations

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Resolving arthropod phylogeny: exploring phylogenetic signal within 41 kb of protein-coding nuclear gene sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Less is more in mammalian phylogenomics: AT-rich genes minimize tree conflicts and unravel the root of placental mammals

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Discordance of species trees with their most likely gene trees: the case of five taxa.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Site-specific time heterogeneity of the substitution process and its impact on phylogenetic inference

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Inferring ancient divergences requires genes with strong phylogenetic signals.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

Nonstationary evolution and compositional heterogeneity in beetle mitochondrial phylogenomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/SYSBIO/SYT073

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/SYSBIO/SYT073

Highly conserved low-copy nuclear genes as effective markers for phylogenetic analyses in angiosperms

21 January 2018

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https://api.crossref.org/works/10.1093/SYSBIO/SYT073

21 January 2018

Identifiers

DOI

10.1093/SYSBIO/SYT073

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11 May 2018

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11 May 2018