A matter of phylogenetic scale: Distinguishing incomplete lineage sorting from lateral gene transfer as the cause of gene tree discord in recent versus deep diversification histories

Disentangling sources of gene tree discordance in phylogenomic datasets: testing ancient hybridizations in Amaranthaceae s.l.

Morales-Briones, Diego F.
Kadereit, Gudrun
Tefarikis, Delphine
Moore, Michael
Smith, Stephen
Brockington, Samuel
Timoneda, Alfonso
Yim, Won
Cushman, John
Yang, Ya

August 2020

Gene tree discordance in large genomic datasets can be caused by evolutionary processes such as inco...

Dissecting incongruence between concatenation- and quartet-based approaches in phylogenomic data

Shen, Xing-Xing
Steenwyk, Jacob
Rokas, Antonis

February 2021

Topological conflict or incongruence is widespread in phylogenomic data. Concatenation- and coalesce...

Phylogenetics, Reticulation and Evolution

Gallardo, Milton H.

September 2017

Incongruence between phylogenetic trees constructed from different gene sequences has bothered pract...

Phylogenetic trees and networks can serve as powerful and complementary approaches for analysis of genomic data

Blair, Christopher
Ané, Cécile

August 2019

Genomic data have had a profound impact on nearly every biological discipline. In systematics and ph...

Estimating phylogenetic trees from genome-scale data

Liu, Liang
Xi, Zhenxiang
Wu, Shaoyuan
Davis, Charles Cavender
Edwards, Scott V.

February 2017

The heterogeneity of signals in the genomes of diverse organisms poses challenges for traditional ph...

Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants

Smith, Stephen A
Moore, Michael J
Brown, Joseph W
Yang, Ya

August 2015

Abstract Background The use of transcriptomic and gen...

Data from: Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants

Smith, Stephen A.
Yang, Ya
Brown, Joseph W.
Moore, Michael J.

July 2015

Background: The use of transcriptomic and genomic datasets for phylogenetic reconstruction has becom...

Data from: Detecting hybridization by likelihood calculation of gene tree extra lineages given explicit models

Olave, Melisa
Avila, Luciano J.
Sites Jr., Jack W.
Morando, Mariana
Sites, Jack W.

June 2018

Explanations for gene tree discordance with respect to a species tree are commonly attributed to dee...

Testing for Treeness: Lateral Gene Transfer, Phylogenetic Inference, and Model Selection

Velasco, Joel D.
Sober, Elliott

May 2010

A phylogeny that allows for lateral gene transfer (LGT) can be thought of as a strictly branching tr...

Copyright c © Society of Systematic Biologists DOI:10.1093/sysbio/syp061 Estimating Species Trees: Methods of Phylogenetic Analysis When There Is Incongruence across Genes

L. Lacey Knowles

October 2016

Discord among the gene trees of multilocus data has motivated the development of phylogenetic approa...

Genome-Scale Phylogenetics: Inferring the Plant Tree of Life from 18,896 Gene Trees

Burleigh, J. Gordon
Bansal, Mukul S.
Eulenstein, Oliver
Hartmann, Stefanie
Wehe, André
Vision, Todd J.

January 2011

Phylogenetic analyses using genome-scale data sets must confront incongruence among gene trees, whic...

The consistent phylogenetic signal in genome trees revealed by reducing the impact of noise.

Dutilh, B.E.
Huynen, M.A.
Bruno, W.J.
Snel, B.

January 2004

Contains fulltext : 57457.pdf (publisher's version ) (Closed access)Phylogenetic t...

Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l

Morales-Briones, Diego F.
Kadereit, Gudrun
Tegarikis, Delphine T.
Moore, Michael J.
Smith, Stephen A.
Brockington, Samuel F.
Timoneda, Alfonso
Yim, Won C.
Cushman, John C.
Yang, Ya

March 2021

Gene tree discordance in large genomic data sets can be caused by evolutionary processes such as inc...

Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement

Charlebois Robert L
MacLeod Dave
Doolittle Ford
Bapteste Eric

April 2005

Abstract Background When organismal phylogenies based on sequences of single marker genes are poorly...

Estimating species trees: Methods of phylogenetic analysis when there is incongruence across genes. Systematic Biology 58:463–467

L. Lacey Knowles

October 2016

Discord among the gene trees of multilocus data has motivated the development of phylogenetic approa...

Disentangling sources of gene tree discordance in phylogenomic datasets: testing ancient hybridizations in Amaranthaceae s.l.

Morales-Briones, Diego F.
Kadereit, Gudrun
Tefarikis, Delphine
Moore, Michael
Smith, Stephen
Brockington, Samuel
Timoneda, Alfonso
Yim, Won
Cushman, John
Yang, Ya

August 2020

Gene tree discordance in large genomic datasets can be caused by evolutionary processes such as inco...

Dissecting incongruence between concatenation- and quartet-based approaches in phylogenomic data

Shen, Xing-Xing
Steenwyk, Jacob
Rokas, Antonis

February 2021

Topological conflict or incongruence is widespread in phylogenomic data. Concatenation- and coalesce...

Phylogenetics, Reticulation and Evolution

Gallardo, Milton H.

September 2017

Incongruence between phylogenetic trees constructed from different gene sequences has bothered pract...

Phylogenetic trees and networks can serve as powerful and complementary approaches for analysis of genomic data

Blair, Christopher
Ané, Cécile

August 2019

Genomic data have had a profound impact on nearly every biological discipline. In systematics and ph...

Estimating phylogenetic trees from genome-scale data

Liu, Liang
Xi, Zhenxiang
Wu, Shaoyuan
Davis, Charles Cavender
Edwards, Scott V.

February 2017

The heterogeneity of signals in the genomes of diverse organisms poses challenges for traditional ph...

Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants

Smith, Stephen A
Moore, Michael J
Brown, Joseph W
Yang, Ya

August 2015

Abstract Background The use of transcriptomic and gen...

Data from: Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants

Smith, Stephen A.
Yang, Ya
Brown, Joseph W.
Moore, Michael J.

July 2015

Background: The use of transcriptomic and genomic datasets for phylogenetic reconstruction has becom...

Data from: Detecting hybridization by likelihood calculation of gene tree extra lineages given explicit models

Olave, Melisa
Avila, Luciano J.
Sites Jr., Jack W.
Morando, Mariana
Sites, Jack W.

June 2018

Explanations for gene tree discordance with respect to a species tree are commonly attributed to dee...

Testing for Treeness: Lateral Gene Transfer, Phylogenetic Inference, and Model Selection

Velasco, Joel D.
Sober, Elliott

May 2010

A phylogeny that allows for lateral gene transfer (LGT) can be thought of as a strictly branching tr...

Copyright c © Society of Systematic Biologists DOI:10.1093/sysbio/syp061 Estimating Species Trees: Methods of Phylogenetic Analysis When There Is Incongruence across Genes

L. Lacey Knowles

October 2016

Discord among the gene trees of multilocus data has motivated the development of phylogenetic approa...

Genome-Scale Phylogenetics: Inferring the Plant Tree of Life from 18,896 Gene Trees

Burleigh, J. Gordon
Bansal, Mukul S.
Eulenstein, Oliver
Hartmann, Stefanie
Wehe, André
Vision, Todd J.

January 2011

Phylogenetic analyses using genome-scale data sets must confront incongruence among gene trees, whic...

The consistent phylogenetic signal in genome trees revealed by reducing the impact of noise.

Dutilh, B.E.
Huynen, M.A.
Bruno, W.J.
Snel, B.

January 2004

Contains fulltext : 57457.pdf (publisher's version ) (Closed access)Phylogenetic t...

Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l

Morales-Briones, Diego F.
Kadereit, Gudrun
Tegarikis, Delphine T.
Moore, Michael J.
Smith, Stephen A.
Brockington, Samuel F.
Timoneda, Alfonso
Yim, Won C.
Cushman, John C.
Yang, Ya

March 2021

Gene tree discordance in large genomic data sets can be caused by evolutionary processes such as inc...

Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement

Charlebois Robert L
MacLeod Dave
Doolittle Ford
Bapteste Eric

April 2005

Abstract Background When organismal phylogenies based on sequences of single marker genes are poorly...

Estimating species trees: Methods of phylogenetic analysis when there is incongruence across genes. Systematic Biology 58:463–467

L. Lacey Knowles

October 2016

Discord among the gene trees of multilocus data has motivated the development of phylogenetic approa...

Disentangling sources of gene tree discordance in phylogenomic datasets: testing ancient hybridizations in Amaranthaceae s.l.

Morales-Briones, Diego F.
Kadereit, Gudrun
Tefarikis, Delphine
Moore, Michael
Smith, Stephen
Brockington, Samuel
Timoneda, Alfonso
Yim, Won
Cushman, John
Yang, Ya

August 2020

Gene tree discordance in large genomic datasets can be caused by evolutionary processes such as inco...

Dissecting incongruence between concatenation- and quartet-based approaches in phylogenomic data

Shen, Xing-Xing
Steenwyk, Jacob
Rokas, Antonis

February 2021

Topological conflict or incongruence is widespread in phylogenomic data. Concatenation- and coalesce...

Phylogenetics, Reticulation and Evolution

Gallardo, Milton H.

September 2017

Incongruence between phylogenetic trees constructed from different gene sequences has bothered pract...

A matter of phylogenetic scale: Distinguishing incomplete lineage sorting from lateral gene transfer as the cause of gene tree discord in recent versus deep diversification histories

Abstract

Extracted data

A matter of phylogenetic scale: Distinguishing incomplete lineage sorting from lateral gene transfer as the cause of gene tree discord in recent versus deep diversification histories

Abstract

Extracted data

Related items

Related items