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A phylogenomics approach for selecting robust sets of phylogenetic markers

forfatter

Toni Gabaldón

2000 -

Salvador Capella-Gutierrez

Frank Kauff

1969 -

udgivet i: Nucleic Acids Research

dato for udgivelse: 2014-04

sprog: engelsk

main subject: phylogenomics, Fylogenetisk systematik

Cites articles 34

Date

Titel

Forfattere

2013-03-21

A phylum-level bacterial phylogenetic marker database
2013-05-08

Inferring ancient divergences requires genes with strong phylogenetic signals

Antonis Rokas
2013-07-09

Naive binning improves phylogenomic analyses

Tandy Warnow
2012-12-31

Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing

Jonathan A. Eisen, Tanja Woyke, Seth D Axen, Alexandra Calteau, David P. Fewer, Cliff Han, Kaarina Sivonen, Rosmarie Rippka, Edward Rubin, Cheryl A Kerfeld, Lynne A. Goodwin, Matt Nolan, Karen W Davenport
2012-05-31

Phylogenomics supports microsporidia as the earliest diverging clade of sequenced fungi

Salvador Capella-Gutierrez, Toni Gabaldón, Marina Marcet-Houben
2012-05-22

New molecular markers for fungal phylogenetics: two genes for species-level systematics in the Sordariomycetes (Ascomycota).

James F. White, Amy Yarnell Rossman, Lisa A. Castlebury
2011-01

PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralogy predictions

Toni Gabaldón, Jaime Huerta-Cepas, Ivan Denisov, Leszek P Pryszcz, Salvador Capella-Gutierrez, Marina Marcet-Houben
2011-11-22

A consistent phylogenetic backbone for the fungi

Erika Kothe
2010-05

New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0
2009

A fungal phylogeny based on 82 complete genomes using the composition vector method

Hao Wang, Lei Gao
2009-06-08

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

Salvador Capella-Gutierrez, Toni Gabaldón
2009-04-01

The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits

Alga Zuccaro, Anja Amtoft Wynns, Paul Dyer, Soili Kristina Stenroos, Cécile Gueidan, Burkhard Büdel, François Lutzoni, Jolanta Miądlikowska, Jeffrey P. Townsend, Mike Wingfield, Zheng Wang, Rebecca Yahr, Robert Lücking, Johannes Z. Groenewald, Pedro Willem Crous, Helge Thorsten Lumbsch, Meredith Blackwell, Peter Crittenden, James Trappe, André Aptroot, Henricus Johannes Maria Sipman, Amy Yarnell Rossman, Junta Sugiyama, Lisa A. Castlebury, Valérie Hofstetter, Conrad Lamoraal Schoch, Damien Ertz, Kentaro Hosaka, Paul Diederich, Peter R. Johnston, Barbara Robbertse, Wendy A Untereiner, Patrick Matheny, Kerry O'Donnell, David M. Geiser, Karen Hansen, Marieka Gryzenhout
2009-02-03

The tree versus the forest: the fungal tree of life and the topological diversity within the yeast phylome

Toni Gabaldón, Marina Marcet-Houben
2008-03-27

Recent developments in the MAFFT multiple sequence alignment program

Kazutaka Katoh
2008-05-27

DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment

Burkhard Morgenstern, Michael Kaufmann
2008-08-01

Assessing the performance of single-copy genes for recovering robust phylogenies

Tatiana Giraud, Marc-Henri Lebrun
2008-02-01

Testing congruence in phylogenomic analysis

Andrew J. Roger
2007-09-22

The K tree score: quantification of differences in the relative branch length and topology of phylogenetic trees

Javier Igea, Victor Soria-Carrasco, Gerard Talavera, Jose Castresana
2007-04-01

Profiling phylogenetic informativeness.

Jeffrey P. Townsend
2007-04-25

TOPD/FMTS: a new software to compare phylogenetic trees.

Santiago Garcia-Vallvé, James O. McInerney
2007-03-25

Heads or tails: a simple reliability check for multiple sequence alignments

Giddy Landan
2006-10-19

Reconstructing the early evolution of Fungi using a six-gene phylogeny

David S. Hibbett, Rebecca Yahr, Valérie Reeb, Joseph B. Morton, Conrad Lamoraal Schoch, Jolanta Miądlikowska, Paul Diederich, Manfred Binder, Matthias Schultz, Jan Kohlmeyer, Joseph W. Spatafora, André Aptroot, Ewald Langer, Martha J. Powell, Brigitte Volkmann-Kohlmeyer, Cécile Gueidan, Burkhard Büdel, Kentaro Hosaka, Arthur Schüssler, Anja Amtoft Wynns, Robert Lücking, Valérie Hofstetter, Cymon John Cox, Kenji Matsuura, Rytas J. Vilgalys, François Lutzoni, Helge Thorsten Lumbsch, Amy Yarnell Rossman, Junta Sugiyama, David M. Geiser, Karen Hansen
2006-03-23

M-Coffee: combining multiple sequence alignment methods with T-Coffee

Iain M Wallace, Desmond G. Higgins, Cedric Notredame
2006-02-22

Visualizing and assessing phylogenetic congruence of core gene sets: a case study of the gamma-proteobacteria
2005-05

Phylogenomics and the reconstruction of the tree of life

Frédéric Delsuc, Hervé Philippe
2005-04-05

Evolutionary origins of genomic repertoires in bacteria

Vincent Daubin, Nancy A. Moran, Howard Ochman
2004-10

Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits

Cécile Gueidan, Jolanta Miądlikowska, Valérie Reeb, Valérie Hofstetter, Robert Lücking, Rebecca Yahr, Mahajabeen Padamsee, Cymon John Cox, Rytas J. Vilgalys, Helge Thorsten Lumbsch, François Lutzoni, David S. Hibbett, Manfred Binder, Henricus Johannes Maria Sipman, Amy Yarnell Rossman, Junta Sugiyama, Conrad Lamoraal Schoch, Damien Ertz, Kentaro Hosaka, Paul Diederich, Bryn Dentinger, Karen Hansen
2004-08-19

MUSCLE: a multiple sequence alignment method with reduced time and space complexity
2004-04-01

The evolutionary history of nitrogen fixation, as assessed by NifD
2003-06-01

The phylogenetic relationships of cyanobacteria inferred from 16S rRNA, gyrB, rpoC1 and rpoD1 gene sequences.
2001-01-01

Genomic approaches to typing, taxonomy and evolution of bacterial isolates
1997-07

BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data

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