Organization Acknowledgements
Senior Personnel Postdocs/Grad Students All Personnel by Institution
Collaborations
Presentations Publications
Community Software Morphology Databases Sequence Databases ATol

ATOL Projects

Project Title Organism Year
AFTOL: Resolving the Evolutionary History of the Fungi

PIs: Joseph SpataforaMeredith BlackwellDavid Hibbett Peter LetcherFrancois LutzoniDavid McLaughlinRobert Roberson

Fungi 2007
Assembling the Euteleost Tree of Life - Addressing the Major Unresolved Problem in Vertebrate Phylogeny

PIs: Richard BroughtonKent CarpenterTerry GrandeJ. Andres LopezGuoqing Lu Guillermo OrtiWm. Leo SmithEdward Wiley

Euteleost Fishes 2007
Phylogeny on the Half-shell -- Assembling the Bivalve Tree of Life

PIs: Rudiger BielerGonzalo GiribetPaula Mikkelsen

Bivalves 2007
Large-scale Simultaneous Multiple Alignment and Phylogeny Estimation

PIs: Mark HolderJim Leebens-MackEtsuko MoriyamaTandy Warnow

Computational
Approaches
2007
Resolving Mammalian Phylogeny with Genomic and Morphological Approaches

PIs: Michael NovacekMaureen O'LearyDavid FergusonJonathan BlochEric SargisMary SilcoxNancy SimmonsJohn FlynnJin MengRobert AsherXijun NiRodney HoneycuttWilliam MurphyJohn BickhamTiffani WilliamsEduardo EizirikMichael KamalJean ChangMark SpringerJohn GatesyMarc AllardOliver RyderZhe-Xi LuoJohn WibleTimothy GaudinGuillermo Rougier

Mammals 2006
Assembling the Liverwort Tree of Life: A Window into the Evolution and Diversification of Early Land Plants

PIs: Jonathan ShawReed BeamanBarbara Crandall-StotlerJ. John EngelBernard GoffinetYin-Long QiuKaren Renzaglia

Liverwort 2005
Phylogeny of Lepidoptera: A Genomics-inspired, Community Collaboration

PIs: Michael P. CummingsDonald DavisCharles MitterJerome Regier Cynthia ParrSusan Weller

Lepidoptera 2005
3-D Phylo-informatics

PI: Julian HumphriesDaniel MirankerTim Rowe

Infrastructure 2005
Assembling the Protostome Tree of Life

PIs: Gonzalo GiribetMark MartindaleWard Wheeler

Protostome 2005
Assembling the Beetle Tree of Life

PIs: Brian FarrellDavid MaddisonMichael Whiting

Beetle 2005
Morphological and Molecular Phylogeny of the Decapod Crustaceans

PIs: Keith CrandallDarryl FelderJoel Martin

Decapod Crustaceans 2005
An Integrative Approach to Investigating Cnidarian Phylogeny

PIs: Paulyn CartwrightNeil BlackstoneCliff CunninghamMarymegan DalyDaniel MartinezCatherine McFaddenSandra 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 BurgessDebashish 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 SytsmaYin-Long Qiu Michael Donoghue Khidir Hilu Michael SandersonCharles 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 GiribetMark MartindaleWard 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 EngelJohn 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 BrochuJohn GatesyPeter 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’KellyMichael DonoghueDina Mandoli Brent MishlerKaren RenzagliaPaul 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