ATOL Projects

Project Title	Organism	Year
AFTOL: Resolving the Evolutionary History of the Fungi PIs: • Joseph Spatafora • Meredith Blackwell • David Hibbett • Peter Letcher • Francois Lutzoni • David McLaughlin • Robert Roberson	Fungi	2007
Assembling the Euteleost Tree of Life - Addressing the Major Unresolved Problem in Vertebrate Phylogeny PIs: • Richard Broughton • Kent Carpenter • Terry Grande • J. Andres Lopez • Guoqing Lu • Guillermo Orti • Wm. Leo Smith • Edward Wiley	Euteleost Fishes	2007
Phylogeny on the Half-shell -- Assembling the Bivalve Tree of Life PIs: • Rudiger Bieler • Gonzalo Giribet • Paula Mikkelsen	Bivalves	2007
Large-scale Simultaneous Multiple Alignment and Phylogeny Estimation PIs: • Mark Holder • Jim Leebens-Mack • Etsuko Moriyama • Tandy Warnow	Computational Approaches	2007
Resolving Mammalian Phylogeny with Genomic and Morphological Approaches PIs: • Michael Novacek • Maureen O'Leary • David Ferguson • Jonathan Bloch • Eric Sargis • Mary Silcox • Nancy Simmons • John Flynn • Jin Meng • Robert Asher • Xijun Ni • Rodney Honeycutt • William Murphy • John Bickham • Tiffani Williams • Eduardo Eizirik • Michael Kamal • Jean Chang • Mark Springer • John Gatesy • Marc Allard • Oliver Ryder • Zhe-Xi Luo • John Wible • Timothy Gaudin • Guillermo Rougier	Mammals	2006
Assembling the Liverwort Tree of Life: A Window into the Evolution and Diversification of Early Land Plants PIs: • Jonathan Shaw • Reed Beaman • Barbara Crandall-Stotler • J. John Engel • Bernard Goffinet • Yin-Long Qiu • Karen Renzaglia	Liverwort	2005
Phylogeny of Lepidoptera: A Genomics-inspired, Community Collaboration PIs: • Michael P. Cummings • Donald Davis • Charles Mitter • Jerome Regier • Cynthia Parr • Susan Weller	Lepidoptera	2005
3-D Phylo-informatics PI: • Julian Humphries • Daniel Miranker • Tim Rowe	Infrastructure	2005
Assembling the Protostome Tree of Life PIs: • Gonzalo Giribet • Mark Martindale • Ward Wheeler	Protostome	2005
Assembling the Beetle Tree of Life PIs: • Brian Farrell • David Maddison • Michael Whiting	Beetle	2005
Morphological and Molecular Phylogeny of the Decapod Crustaceans PIs: • Keith Crandall • Darryl Felder • Joel Martin	Decapod Crustaceans	2005
An Integrative Approach to Investigating Cnidarian Phylogeny PIs: • Paulyn Cartwright • Neil Blackstone • Cliff Cunningham • Marymegan Daly • Daniel Martinez • Catherine McFadden • Sandra Romano	Cnidarian Phylogeny	2005
Ant Phylogeny: A Comprehensive Evolutionary Tree for the World's Premier Social Organisms PI: • Phillip Ward	Ants	2004
Reconstructing Eukaryotic Phylogeny through Multigene Analyses of Microbial Eukaryotes PIs: • Donald Burgess • Debashish Bhattacharya • Laura Katz	Microbial Eukaryotes	2004
The Angiosperm Tree of Life: Resolving the Trunk of the Tree and 12 of its Thorniest Nodes PIs: • Douglas Soltis • Richard Olmstead • Kennth Sytsma• Yin-Long Qiu • Michael Donoghue • Khidir Hilu • Michael Sanderson• Charles Davis	Angiosperms	2004
Systematics of Cypriniformes, Earth's Most Diverse Clade of Freshwater Fishes PIs: • Richard Mayden • Andrew Simons • Henry Bart • Phillip Harris • Miles Coburn • Gloria Arratia • Paula Mabee	Bony Fishes	2004
Building the Dipteran Tree: Cooperative Research in Phylogenetics and Bioinformatics of True Flies (Insecta: Diptera) PI: • Brian Wiegmann	Flies	2004
The Deep Scaly Project: Resolving Higher Level Squamate Phylogeny Using Genomic and Morphological Approaches PIs: • Tod Reeder • John Wiens • Maureen Kearney • Jack Sites	Squamate	2004
An Integrated Approach to the Origin and Diversification of Protostomes PIs: • Gonzalo Giribet • Mark Martindale • Ward Wheeler	Protostomes	2004
AmphibiaTree--An Integrated Phylogenetic and Bioinformatics Approach to the Tree of Amphibians PIs: • David Cannatella • James Hanken • Linda Trueb • David Wake	Amphibians	2004
The Tree of Life Project: A Digital Library of Biodiversity Information PI: • David R. Maddison	Infrastructure	2003
HymAtol PIs: • Michael Sharkey • James Carpenter. • Michael Engel • John Heraty	Hymenoptera	2003
A Phylogenomic Toolbox for Assembling the Tree of Life Molecular Sequence Databases PIs: • Michael Sanderson • Oliver Eulenstein • Junhyong Kim	Infrastructure	2003
Coevolutionary Relationships in a New Marine Symbiosis PI: • Mary Saffo	Nephromyces	2003
Historical Inference in the Emberizinae (Aves: Passeriformes) Using a Complete Species-Level Phylogeny PIs: • John Klicka • Kevin Burns • Scott Lanyon	Birds	2003
Archosaur Phylogeny – A Total Evidence Approach at Fine Taxonomic Levels PIs: • Norell, Mark • Bradley Livezey • James Clark • Christopher Brochu • John Gatesy • Peter J. Makovicky	Archosaurs	2002
Early Bird: A Collaborative Project to Resolve the Deep Nodes of Avian Phylogeny PIs: • Shannon Hackett • Rebecca Kimball • William Moore • Fred Sheldon	Birds	2002
Phylogeny of Spiders PI: • Ward Wheeler	Spiders	2002
Assembling the Fungal Tree of Life PI: • Joseph Spatafora • David S Hibbett • Francois Lutzoni • David McLaughlin	Fungi	2002
Phylum Nematoda: Integrating Multidisciplinary Expertise and Infrastructure for resolving Relationships in a Major Branch of the Tree of Life PIs: • William Thomas	Nematodes	2002
Deep Green Plant Phylogenetics: Novel Analytical Methods for Scaling from Genomics to Morphology PIs: • Charles O’Kelly • Michael Donoghue • Dina Mandoli • Brent Mishler • Karen Renzaglia • Paul Wolf	Plants	2002
Phylogenomics: A Genome Level Approach to Assembling the Bacterial Branches of the Tree of Life PI: • Jonathan Eisen	Bacterial	2002
Wormnet: Reconstructing The Early Evolution Of Segmented Annelid Worms PIs: • Kenneth Halanych • Mark Martindale • Jeffrey Boore • Damhnait McHugh	Annelids	2001
Hexapod Phylogenomics - Bringing Phylogenetic Supercomputing to the Masses PI: • Michael Whiting	Hexapod	2001
Deep Arthropods PI: • Cliff Cunningham	Arthropods	2001
Chloroplast genomics PIs: • Robert Jansen • Tandy Warnow	Plants/Organelle	2001