| THURSDAY, 17 JUNE |
| 3:00-7:00 |
Registration (Nittany Lion Inn
Rotunda, Penn State Campus) |
| 5:30-7:30 |
Welcome reception (Nittany Lion
Inn Ballroom) |
| 7:30 |
Dinner (on your own) |
| FRIDAY, 18 JUNE |
| 7:30 a.m.-6:30 p.m. |
Registration and information (lobby
of 100 Thomas Building) |
| 7:30 a.m.-6:30 p.m. |
Speaker Ready Room and Internet
(Room 122 Thomas Building) |
| 7:30 a.m.-2:30 p.m. |
Set up of posters (Alumni Hall
of Hetzel Union Building) |
| 2:30 p.m.-11:00 p.m. |
Viewing of posters (Alumni Hall
of Hetzel Union Building) |
| 8:30-10:30 a.m. |
Session 1 (18 June): Opening (100 Thomas) PLENARY |
| 8:30 a.m. |
Welcome and opening remarks: Blair Hedges (Pennsylvania
State University) |
| 8:40 a.m. |
Introduction of Keynote Lecturer: Masatoshi Nei
(Pennsylvania State University) |
| 8:45 a.m. |
Keynote Lecture: Leroy Hood (Institute
of Systems Biology)
Systems Biology and Evolution |
| 9:35 a.m. |
Introduction of AGA Key Lecturer: Shozo Yokoyama
(Emory University) |
| 9:40 a.m. |
AGA Key Lecture: Walter Gehring
(University of Basel, Switzerland)
Development and evolution of eyes and photoreceptors |
| 10:30-11 a.m. |
Break |
| 11 a.m.-1 p.m. |
Session 2A (18 June): Phylogeny and Molecular
Clocks (100 Thomas) |
| |
Session Chair: Blair Hedges (Penn State) |
| 11:00 a.m. |
Rytas Vilgalys (Duke University)
Molecular phylogeny of fungi |
| 11:30 a.m. |
Joel Cracraft (American Museum of Natural History)
A molecular timescale for avian diversification |
| 12:00 p.m. |
Stephen J. O'Brien (National Cancer Institute)
Mammalian genomes and phylogeny |
| 12:30 p.m. |
Sudhir Kumar (Arizona State University)
Precision and robustness of genomic timescales |
| 11 a.m.-1 p.m. |
Session 2B (18 June): Walter M. Fitch Symposium
(101 Thomas) |
| |
Session Chair: Jeffrey Powell (Yale University) |
| 11:00 a.m. |
Rebecca Zufall (Smith College)
The genetic basis of parallel evolution in flower
color in Ipomoea |
| 11:15 a.m. |
Elizabeth Turner (University of California, Berkeley)
Reproductive isolation and reinforcement in Neurospora:
mapping complex traits in a model filamentous fungus |
| 11:30 a.m. |
Dara Torgerson (McMaster University, Canada)
Enhanced Adaptive Evolution of Sperm-Expressed
Genes on the Mammalian X Chromosome |
| 11:45 a.m. |
Jeroen Raes (Ghent University - VIB, Belgium)
The role of frame shift mutations in the evolution
of new gene functions after gene duplication |
| 12:00 p.m. |
Jing Cai (University of Hong Kong, Hong Kong)
Dependence of protein evolutionary rate on gene
lineage specificity in ascomycetes |
| 12:15 p.m. |
Lee Bofkin (European Bioinformatics Institute,
England)
Measuring heterogeneity in evolutionary processes
within and between genomes: novel applications
of nucleotide substitution models to large multiple-alignments |
| 12:30 p.m. |
Scott Roy (Harvard University)
Resolution of a very deep animal divergence by
the pattern of intron conservation |
| 12:45 p.m. |
Barbara Engelhardt (University of California,
Berkeley)
Protein function prediction using a Bayesian model
of molecular function evolution |
| 11 a.m.-1 p.m. |
Session 2C (18 June): Genome Evolution in Primates
(102 Thomas) |
| |
Session Chair: Kateryna Makova (Penn State) |
| 11:00 a.m. |
Svante Paabo (Max-Planck Institute for Evolutionary
Anthropology, Germany)
Genetic differences between humans and other hominoids |
| 11:30 a.m. |
Evan Eichler (University of Washington)
Gene duplication in primates |
| 12:00 p.m. |
Ajit Varki (University of California, San Diego)
Multiple differences in sialic acid biology between
humans and great apes |
| 12:30 p.m. |
Naruya Saitou (National Institute of Genetics,
Japan)
Human and hominoid specific changes and conservation
during primate evolution |
| 1-2:30 p.m. |
Lunch (on your own) |
| 2:30-4:30 p.m. |
Session 3A (18 June): Phylogeny and Molecular
Clocks: Organisms (100 Thomas) |
| |
Session Chair: Scott Edwards (Harvard University) |
| 2:30 p.m. |
Cynthia Gibas (Virginia Polytechnic Institute
and State University)
A Phylogeny of Land Plants Based on Whole-Genome
Analysis of Chloroplast Using Correlated Peptide
Motifs |
| 2:45 p.m. |
Jim Leebens-Mack (Pennsylvania State University)
The utility of whole chloroplast genome sequencing
for reconstructing deep nodes in plant phylogenies
with an example from basal angiosperms |
| 3:00 p.m. |
Naoko Takezaki (National Institute of Genetics,
Japan)
The phylogenetic relationship of tetrapod, coelacanth,
and lungfish revealed by the sequences of 44 nuclear
genes |
| 3:15 p.m. |
Kim Roelants (Vrije Universiteit Brussel, Belgium)
Multi-gene evidence for Pangaean diversification
of crown-group frogs |
| 3:30 p.m. |
Keith Barker (University of Minnesota)
A molecular time scale for avian diversification: the largest avian order
(Passeriformes) |
| 3:45 p.m. |
Matthew Fain (New Mexico State University)
Parallel radiations in the primary clades of birds,
as inferred from intron 7 of beta-fibrinogen |
| 4:00 p.m. |
Ole Madsen (University of Nijmegen, Netherlands)
Timing and pattern of the mammalian colonization
of Madagascar as assessed by nuclear gene phylogenies |
| 4:15 p.m. |
David Ray (Louisiana State University)
Platyrrhine phylogenetics as revealed by mobile
element insertions |
| 2:30-4:30 p.m. |
Session 3B (18 June): Adaptive Evolution (101
Thomas) |
| |
Session Chair: Shozo Yokoyama (Emory University) |
| 2:30 p.m. |
William Jeffery (University of Maryland)
Evolution of eye degeneration in cavefish |
| 3:00 p.m. |
Rachel O'Neill (University of Connecticut)
Centromere dynamics, karyotypic diversification,
and speciation in mammals |
| 3:30 p.m. |
Thomas Kocher (University of New Hampshire)
Rapid speciation of cichlid fishes in African lakes |
| 4:00 p.m. |
Jianzhi Zhang (University of Michigan)
Parallel gene duplication and adaptive evolution of a digestive enzyme
in leaf-eating monkeys |
| 2:30-4:30 p.m. |
Session 3C (18 June): Genome Evolution in Primates
(102 Thomas) |
| |
Session Chair: Evan Eichler (University of Washington) |
| 2:30 p.m. |
Bing Su (Kunming Institute of Zoology - CAS,
China)
Accelerated evolution of the PACAP precursor gene
during human origin |
| 2:45 p.m. |
Henrik Kaessmann (University of Lausanne, Switzerland)
Birth and adaptive evolution of a hominoid gene
supporting high neurotransmitter flux |
| 3:00 p.m. |
Yasuhiro Go (Graduate University of Advanced
Studies, Japan)
Lineage-dependent loss of function and diversification
of bitter taste receptor genes in primates |
| 3:15 p.m. |
Julien Meunier (University Lyon)
Recombination Drives GC-content in the Human Genome |
| 3:30 p.m. |
Derek Wildman (Wayne State University)
Coincident amino acid and gene expression changes
in nuclear encoded subunits of primate aerobic
energy metabolism genes |
| 3:45 p.m. |
David Rand (Brown University)
The human mitochondrial genome and proteome show
opposing departures from neutral evolution |
| 4:00 p.m. |
Stephane Boissinot (Queens College, CUNY)
Molecular Evolution of LINE-1 retrotransposons
since the origin of primates |
| 4:15 p.m. |
William Murphy (SAIC-Frederick, Inc. - Laboratory
of Genomic Diversity)
A rhesus macaque genome map reveals recent rearrangements
in human genomic evolution |
| 4:30-5 p.m. |
Break |
| 5-6:30 p.m. |
Session 4A (18 June): Phylogeny and Molecular
Clocks: Methods (100 Thomas) |
| |
Session Chair: Sudhir Kumar (Arizona State University) |
| 5:00 p.m. |
Jaime Blair (Pennsylvania State University)
Molecular clock methodology and impact on time
estimation |
| 5:15 p.m. |
Marcel van Tuinen (Stanford University)
Using genetics to study effect of environmental
change on biotic evolution: from micro to macro |
| 5:30 p.m. |
Jennifer Hay (Massey University, New Zealand)
Fossil molecular outgroup for a phylogenetically
isolated taxon, Sphenodon |
| 5:45 p.m. |
Koichiro Tamura (Tokyo Metropolitan University,
Japan)
Accuracy of extra-large NJ trees with simultaneous
estimation of pairwise distances |
| 6:00 p.m. |
Antonis Rokas (University of Wisconsin, Madison)
More sequence or more taxa? The effect of taxon
sampling on genome-scale datasets |
| 6:15 p.m. |
Jonathan Moore (Pomona College)
The Number and Distribution of Unrooted Binary
Tree Shapes |
| 5-6:30 p.m. |
Session 4B (18 June): Adaptive Evolution (101
Thomas) |
| |
Session Chair: Thomas Kocher (University of
New Hampshire) |
| 5:00 p.m. |
Norihiro Okada (Tokyo Institute of Technology)
Looking for the molecular basis of adaptive evolution
in cichlid fishes |
| 5:30 p.m. |
Walter Salzburger (University of Konstanz, Germany)
Adaptive evolution and color genes in cichlid fishes |
| 5:45 p.m. |
Anthony Greenberg (University of Chicago)
Ecological Adaptation During Incipient Speciation
Revealed by Precise Gene Replacement |
| 6:00 p.m. |
Jeffrey Thorne (North Carolina State University)
Protein evolution with dependence among codons
due to tertiary structure |
| 6:15 p.m. |
Cesar Perez-Gonzalez (National Institutes of
Health)
Studies of Line-1 Element Interactions with the
Human Genome |
| 5-6:30 p.m. |
Session 4C (18 June): Genome Evolution in Primates:
Insights from the Chimpanzee Genome (102 Thomas) |
| |
Session Chair: Naruya Saitou (National Institute
of Genetics, Japan) |
| 5:00 p.m. |
Dale Hedges (Louisiana State University)
Differential Alu Mobilization and Polymorphism
Among the Human and Chimpanzee Lineages |
| 5:15 p.m. |
Yoav Gilad (Yale University)
A comparison of the olfactory receptor gene repertoires
of human and chimpanzee |
| 5:30 p.m. |
Susan Ptak (Max Planck Institute for Evolutionary
Anthropology, Germany)
Absence of the TAP2 recombination hotspot in chimpanzees |
| 5:45 p.m. |
Xiaoxia Wang (University of Michigan)
Testing the chromosomal speciation hypothesis for
humans and chimpanzees |
| 6:00 p.m. |
Laurent Abi-Rached (Stanford University)
Emergence of the KIR genes and haplotypes in primates |
| 6:15 p.m. |
Yoko Satta (Graduate University of Advanced Studies,
Japan)
Out of Africa with a human specific pseudogene |
| 6:30 p.m. |
Dinner (on your own) |
| 8-11 p.m. |
Viewing of posters in Alumni Hall of Hetzl Union
Building (all posters also available for viewing
throughout duration of meeting) |
| 8-9 p.m. |
Poster presenters of even-numbered posters available
for discussion |
| 9-10 p.m. |
Poster presenters of odd-numbered posters available
for discussion |
| 10-11 p.m. |
General viewing |
| SATURDAY, 19 JUNE |
| 7:30 a.m.-6:30 p.m. |
Registration and information (lobby
of 100 Thomas Building) |
| 7:30 a.m.-6:30 p.m. |
Speaker Ready Room and Internet
(Room 122 Thomas Building) |
| 7:30 a.m.-6:30 p.m. |
Viewing of posters (Alumni Hall
of Hetzel Union Building) |
| 8:30-10:30 a.m. |
Session 5A (19 June): Genome Evolution (100 Thomas) |
| |
Session Chair: Ken Wolfe (Trinity College, Ireland) |
| 8:30 a.m. |
Jeffrey Palmer (Indiana University)
Plants as a model system for studying horizontal
gene transfer |
| 9:00 a.m. |
Susan Wessler (University of Georgia)
Transposable elements: make new genes and change
the old |
| 9:30 a.m. |
Eric Green (National Human Genome Research Institute)
Decoding the human genome by multi-species sequence
comparisons |
| 10:00 a.m. |
Siv Andersson (University of Uppsala, Sweden)
Evolution of mitochondrial genome and proteome |
| 8:30-10:30 a.m. |
Session 5B (19 June): Adaptive Evolution (101
Thomas) |
| |
Session Chair: William Jeffery (University of
Maryland) |
| 8:30 a.m. |
Vera Zupunski (Jozef Stefan Institute, Slovenia)
Adaptive evolution in snake venom Kunitz/BPTI protein
family |
| 8:45 a.m. |
Yael Salzman (Stanford University)
Adaptation by gene disruption in D.melanogaster:
gene loss leads to pesticide resistance |
| 9:00 a.m. |
Yoshiyuki Suzuki (National Institute of Genetics,
Japan)
New methods for detecting positive selection at single amino acid sites |
| 9:15 a.m. |
Leonard Nunney (University of California, Riverside)
Detecting natural selection at the molecular level: re-examining some "classic" examples |
| 9:30 a.m. |
Matthew Saunders (University of Arizona)
G6PD Deficiency, A high-frequency enzymeopathy in Kurdish Jews: Effects
of demography or natural selection by malaria? |
| 9:45 a.m. |
David Irwin (University of Toronto)
Evolution of new hormone function - loss and gain of a receptor |
| 10:00 a.m. |
Carine Guillet-Claude (Universite Laval, Canada)
Duplication and adaptive evolution of knox-I genes in conifers |
| 10:15 a.m. |
Li Yan (Kunming Institute of Zoology, CAS, P.R.
China)
Rapid Diversification of Antimicrobial Peptides in Bombina Toads |
| 8:30-10:30 a.m. |
Session 5C (19 June): Phylogeny and Molecular
Clocks: Genes and Rates (102 Thomas) |
| |
Session Chair: Michael Sorenson (Boston University) |
| 8:30 a.m. |
Leonardo Martins (University of Tokyo, Japan)
Distribution of Rate and Rate Variability in Yeast Genomes |
| 8:45 a.m. |
Megan Woolfit (University of Sussex, United Kingdom)
Population size and molecular evolution on islands |
| 9:00 a.m. |
Tomoko Steen (The Library of Congress)
Co-evolution of Controversial Theories |
| 9:15 a.m. |
Rose Hoberman (Carnegie Mellon University)
Using physical-chemical properties of amino acids to model site-specific
substitution propensities |
| 9:30 a.m. |
Tae-Kun Seo (Bioinformatics Research Center,
North Carolina State University)
The changing pattern of absolute rates of synonymous and nonsynonymous
substitution during mammalian evolution: Analysis of mitochondrial protein-coding
genes |
| 9:45 a.m. |
Yasuhiro Kitazoe (Kochi University, Japan)
A unified index for estimation of homoplasy and molecular phylogeny with
application to mammalian genomes |
| 10:00 a.m. |
Javier Sampedro Jimenez (Pennsylvania
State University)
Microsynteny as a tool to study the comparative evolution of the expansin
superfamily in Arabidopsis and rice |
| 10:15 a.m. |
Michael Sorenson (Boston University)
Accelerated mtDNA rate in brood parasitic finches: a case of nearly neutral
evolution? |
| 10:30-11 a.m. |
Break |
| 11 a.m.-1 p.m. |
Session 6A (19 June): Genome Evolution: Gene
and Genome Duplication (100 Thomas) |
| |
Session Chair: Jeffrey Palmer (Indiana University) |
| 11:00 a.m. |
Kenneth Wolfe (Trinity College, Ireland)
Evolution by gene and genome duplication |
| 11:30 a.m. |
Shin-Han Shiu (University of Chicago)
Global Patterns of Gene Family Expansion in the Human Lineage After Its
Divergence from Mouse |
| 11:45 a.m. |
Peng Zhang (University of Chicago)
Different Evolutionary Patterns between Young Duplicate Genes in the
Human Genome |
| 12:00 p.m. |
Georgia Panopoulou (Max Planck Institute For
Molecular Genetics, Germany)
How often duplicates adopt a novel role? Views from a WMISH screen of
amphioxus genes and their duplicated zebrafish orthologs |
| 12:15 p.m. |
Axel Meyer (University of Konstanz, Germany)
Evidence for the fish-specific genome duplication |
| 12:30 p.m. |
Jill Ricker (Pennsylvania State University)
Strong evidence for extensive regulatory subfunctionalization driving
the maintenance of duplicated genes in regulatory gene families of
Arabidopsis thaliana |
| 12:45 p.m. |
Keith Adams (Iowa State University)
Genome evolution and gene silencing in polyploids |
| 11 a.m.-1 p.m. |
Session 6B (19 June): Development and Evolution
(101 Thomas) |
| |
Session Chair: Douglas Cavener (Penn State) |
| 11:00 a.m. |
Sean Carroll (University of Wisconsin)
Homeobox Gene Evolution in Animals |
| 11:30 p.m. |
Michael Levine (University of California, Berkeley):
Transcription Regulation and Animal Diversity |
| 12:00 a.m. |
Gunther Theissen (Jena University, Germany):
Evolution of MADS-Box genes controlling flowering in plants |
| 12:30 p.m. |
Neelima Sinha (University of California, Davis)
The role of KNOX and PHAN in compound leaf development |
| 11 a.m.-1 p.m. |
Session 6C (19 June): Early Evolution of Life
(102 Thomas) |
| |
Session Chair: Rosalind Grymes (NASA Astrobiology
Institute) |
| 11:00 a.m. |
Ford Doolittle (Dalhousie University, Canada)
Tree of life, web of life |
| 11:30 a.m. |
Howard Ochman (University of Arizona)
Horizontal transfer and the cohesion of bacterial genomes |
| 12:00 p.m. |
Eugene Koonin (NCBI, National Institutes of
Health)
Reconstruction of evolutionary scenarios and ancestral life forms |
| 12:30 p.m. |
Sandie Baldauf (University of York, United Kingdom)
Phylogeny and early evolution of protists |
| 1-2:30 p.m. |
Lunch (on your own) |
| 2:30-4:30 p.m. |
Session 7A (19 June): Genome Evolution: Transposons
(100 Thomas) |
| |
Session Chair: Susan Wessler (University of
Georgia) |
| 2:30 p.m. |
Dominique Anxolabehere (Institut Jacques Monod
Université, France)
Transposable element domestication: recurrent recruitments of the DNA
binding THAP domain |
| 2:45 p.m. |
Valer Gotea (Pennsylvania State University)
Transposable Elements Contributed to our Proteome |
| 3:00 p.m. |
Shintaro Iwashita (Mitsubishi Kagaku Institute
of Life Sciences, Japan)
Process of Retrotransposable Element-1-Involved Gene Duplication in the
Creation of Protein Divergence: A Ruminant-Specific p97bcnt gene |
| 3:15 p.m. |
Cedric Feschotte (University of Georgia)
Cross-mobilization as a mechanism contributing to the amplification of
miniature inverted-repeat transposable elements (MITEs) |
| 3:30 p.m. |
Daniel Neafsey (Harvard University)
Different regulatory mechanisms underlie similar transposable element
profiles in the Drosophila and pufferfish genomes |
| 3:45 p.m. |
Teresa Crease (University of Guelph, Canada)
Insertion site variation in the DNA transposon Pokey in Daphnia pulicaria. |
| 4:00 p.m. |
Hadi Quesneville (Institut Jacques Monod 2, France)
In silico detection of new transposable
element families in genomic sequences |
| 4:15 p.m. |
J.J. Emerson (University of Chicago)
Extensive Gene Traffic on the Mammalian X Chromosome |
| 2:30-4:30 p.m. |
Session 7B (19 June): Development and Evolution
(101 Thomas) |
| |
Session Chair: Aleksander Popadic (Wayne State
University, Michigan) |
| 2:30 p.m. |
Simona Santini (Stazione Zoologica, Naples,
Italy)
Organization and nucleotide composition of Tilapia Hox genes: implications
for the evolution of Hox clusters in fish |
| 2:45 p.m. |
Aleksandar Popadic (Wayne State University,
Michigan)
Developmental basis of hind leg evolution in insects |
| 3:00 p.m. |
Patricia Wittkopp (Cornell University, New York)
The genetic basis of divergent gene expression: cis and trans |
| 3:15 p.m. |
Daniel Pollard (UC Berkeley/Lawrence Berkeley
National Lab)
Evolutionary Properties of Early-Embryonic Enhancers in Drosophila |
| 3:30 p.m. |
Asher Cutter (University of Arizona)
Sexual and temporal dynamics of molecular evolution in C. elegans development |
| 3:45 p.m. |
Kazuho Ikeo (National Institute of Genetics,
Japan)
Molecular evolution of the nervous system from gene expression profiles |
| 4:00 p.m. |
Shigehiro Kuraku (RIKEN, Japan)
Identification of gene co-option involved in turtle shell evolution |
| 4:15 p.m. |
Annette Becker (Monash University, Australia)
Evolutionary genetics of carpels: using California poppy (Eschscholzia
californica Cham.) as a basal eudicot model system |
| 2:30-4:30 p.m. |
Session 7C (19 June): Early Evolution of Life:
Genomes and HGT (102 Thomas) |
| |
Session Chair: Howard Ochman (University of
Arizona) |
| 2:30 p.m. |
Yoji Nakamura (National Institute of Genetics,
Japan)
Horizontally transferred gene candidates detected in over 100 prokaryotic
complete genomes |
| 2:45 p.m. |
Alexandra Calteau (Université Claude Barnard,
France)
Horizontal transfer of two operons coding for hydrogenases between bacteria
and archaea |
| 3:00 p.m. |
Jan O. Andersson (Uppsala University, Sweden)
Gene transfers from Nanoarchaeota to an ancestor of diplomonads and parabasalids |
| 3:15 p.m. |
Joana Silva (The Institute for Genomic Research)
Recent Expansion of Transposable Elements Leads to Dramatic Increase
in Genome Size |
| 3:30 p.m. |
John Archibald (Dalhousie University, Canada)
Genome reduction in eukaryotes: nucleomorph genomes as a case study |
| 3:45 p.m. |
Hwan Su Yoon (University of Iowa)
The Origin of Minicircle Genes in the Dinoflagellate Algae |
| 4:00 p.m. |
Michael Gaunt (London School of Hygiene and Tropical
Medicine, United Kingdom)
The evolutionary implications of genetic exchange via genome fusion in Trypanosoma
cruzi |
| 4:15 p.m. |
Oona Snoeyenbos-West (Smith College)
Understanding Genome Complexity and Protein Evolution in Ciliates: insights
from Mitochondria and Nuclei |
| 4:30-5 p.m. |
Break |
| 5-6:30 p.m. |
Session 8: Plenary (100 Thomas) |
| 5-5:05 p.m. |
Announcement of the Walter M. Fitch Prize: Jeffrey
Powell (Yale University) (100 Thomas) |
| 5:05 p.m. |
Introduction of the SMBE Nei Lecturer: Naoyuki
Takahata (The Graduate University for Advanced
Studies, Japan) (100 Thomas) |
| 5:05-6 p.m. |
SMBE Nei Lecture: John C. Avise (University
of Georgia) (100 Thomas)
Good and Bad Times for Evolutionary Biology |
| 6-6:30 p.m. |
SMBE Business Meeting (100 Thomas) |
| 6:30-7 p.m. |
Reception (Hintz Alumni Center) |
| 7-10 p.m. |
Barbecue Dinner (Hintz Alumni Center)
|
| SUNDAY, 20 JUNE |
| 7:30 a.m.-6:30 p.m. |
Registration and information (lobby
of 100 Thomas Building) |
| 7:30 a.m.-6:30 p.m. |
Speaker Ready Room and Internet
(Room 122 Thomas Building) |
| 7:30 a.m.-6:30 p.m. |
Viewing of posters (Alumni Hall
of Hetzel Union Building) |
| 8:30-10:30 a.m. |
Session 9A (20 June): Molecular Polymorphisms
and Evolution (100 Thomas) |
| |
Session Chair: Charles Aquadro (Cornell University) |
| 8:30 a.m. |
Daniel Hartl (Harvard University)
Molecular evolution of Plasmodium genomes |
| 9:00 a.m. |
Andrew Clark (Cornell University)
Single nucleotide polymorphisms in human populations |
| 9:30 a.m. |
Michael Nachman (University of Arizona)
The genetic basis of adaptive melanism in pocket
mice |
| 10:00 a.m. |
Mark Batzer (Louisiana State University)
Mobile elements and primate genomic diversity |
| 8:30-10:30 a.m. |
Session 9B (20 June): Early Evolution of Life:
Proteins and Introns (101 Thomas) |
| |
Session Chair: Brian Golding (McMaster University) |
| 8:30 a.m. |
Dawn Brooks (Washington University School of
Medicine)
Inferred Thermophilic Amino Acid Compostion of
Proteins in the Last Universal Ancestor of Life |
| 8:45 a.m. |
Orna Man (The Weizmann Institute of Science,
Israel)
Trends in amino acid usage in fully sequenced genomes |
| 9:00 a.m. |
Steven Brenner (University of California, Berkeley)
Phylogeny of Ancient Proteins Ywis Reconstructed
Using Structure (PAPYRUS) |
| 9:15 a.m. |
David Penny (Massey University, New Zealand)
RNA processing in the Eukaryotic Ancestor |
| 9:30 a.m. |
Gustavo Caetano-Anolles (University of Illinois)
Universal sharing patterns in the evolution of
proteins |
| 9:45 a.m. |
Jason Stajich (Duke University)
A Comparative Study of Fungal Introns |
| 10:00 a.m. |
Brad Friedman (Massachusetts Institute of Technology)
Evolutionary Patterns of Intron Gain and Loss |
| 10:15 a.m. |
Kira S. Makarova (National Center for Biotechnology
Information)
Reconstruction of duplication events in early evolution
of eukaryotes |
| 8:30-10:30 a.m. |
Session 9C (20 June): Origins and Evolution of
Genetic Systems (102 Thomas) |
| |
Session Chair: Masatoshi Nei (Penn State) |
| 8:30 a.m. |
Takashi Gojobori (National Institute of Genetics,
Japan)
Origins and evolution of the central nervous system
in animals: gene expression profiles in hydra neural
cells and planarian brain |
| 9:00 a.m. |
Jan Klein (Pennsylvania State University)
Origins of the adaptive immune system in vertebrates |
| 9:30 a.m. |
Peter Parham (Stanford University)
Co-evolution of MHC class I and NK-cell receptors
in primates |
| 10:00 a.m. |
Stuart Firestein (Columbia University)
Vertebrate olfactory receptors |
| 10:30-11 a.m. |
Break |
| 11 a.m.-1 p.m. |
Session 10A (20 June): Molecular Polymorphisms
and Evolution (100 Thomas) |
| |
Session Chair: Andrew Clark (Cornell University) |
| 11:00 a.m. |
Marcy K. Uyenoyama (Duke University)
Maximum-likelihood estimation of rates of recombination
within mating type regions |
| 11:15 a.m. |
Xavier Vekemans (Université de Lille 1,
France)
Identification of the targets of balancing selection
through analyses of trans-specific polymorphisms
at the self-incompatibility gene SRK in genus Arabidopsis |
| 11:30 a.m. |
Soochin Cho (University of Michigan)
Testing the balancing selection hypothesis on the
complementary sex-determination gene of honeybees |
| 11:45 a.m. |
Kelly Dyer (University of Rochester)
Molecular evolution of X-chromosome drive in Drosophila
recens |
| 12:00 p.m. |
Marta Pascual (University of Barcelona)
Polymorphism in autosomal and X-linked neutral
loci. What does a recent colonization process
tell us? |
| 12:15 p.m. |
Santosh Jagadeeshan (McMaster University, Canada)
Characterization of rapidly evolving genes in Drosophila:
sex genes evolve faster. |
| 12:30 p.m. |
Chau-Ti Ting (Tsing-Hua University, Republic
of China)
Evolution of the male accessory gland protein gene
Acp26Aa in Drosophila mauritiana |
| 12:45 p.m. |
Yong-Jin Won (Rutgers University)
Cichlids of Lake Malawi |
| 11 a.m.-1 p.m. |
Session 10B (20 June): Genome Evolution: Gene
Expression (101 Thomas) |
| |
Session Chair: Siv Andersson (University of Uppsala,
Sweden |
| 11:00 a.m. |
Nancy Moran (University of Arizona)
Evolution of gene expression in the reduced genome
of a bacterial symbiont(Buchnera) |
| 11:15 a.m. |
Scott Rifkin (Yale University)
The neutral rate of genome-wide gene expression
evolution in Drosophila melanogaster |
| 11:30 a.m. |
Marie Sémon (Université Claude
Bernard, France)
No evidence of selection on the clustering of co-expressed
genes in vertebrate genomes. |
| 11:45 a.m. |
Emmanouil Dermitzakis (The Wellcome Trust Sanger
Institute, United Kingdom)
Polymorphis, Divergence and Genomic Distribution
of Conserved Non-genic Sequences (CNGs) in Humans |
| 12:00 p.m. |
Scott Doniger (Washington University)
Identification of functionally constrained and
unconstrained cis-regulatory sequences in Saccharomyces species |
| 12:15 p.m. |
Guillaume Achaz (Harvard University)
Cis-regulatory and Protein Evolution in Orthologous
and Duplicate Genes |
| 12:30 p.m. |
Dee Denver (Indiana University)
The transcriptional consequences of mutation accumulation |
| 12:45 p.m. |
Xun Gu (Iowa State University)
Phylogenomic Microarray Analysis Shows Rapid Expression
Divergence in the Early Stage after Gene Duplication |
| 11 a.m.-1 p.m. |
Session 10C (20 June): Origins and Evolution
of Genetic Systems (102 Thomas) |
| |
Session Chair: Takashi Gojobori (National Institute
of Genetics, Japan) |
| 11:00 a.m. |
Hilary Miller (Victoria University of Wellington,
New Zealand)
The Major Histocompatibility Complex (MHC) of an
Ancient Reptile Lineage, Sphenodon (Tuatara) |
| 11:15 a.m. |
Yoshihito Niimura (Pennsylvania State University)
Evolutionary Changes of the Olfactory Receptor
Gene Family in the Human and Mouse Lineages |
| 11:30 a.m. |
Julien Grassot (Université de Lyon 1,
France)
Molecular Evolution of Receptor Tyrosine Kinases
with Immunoglobulin-like Modules |
| 11:45 a.m. |
Katherine Belov (Australian Museum, Australia)
Evolution of the mammalian MHC class II region
and genetic diversity of the platypus DZB gene |
| 12:00 p.m. |
Pedro Esteves (Campus Agrário de Vairão,
Portugal)
Allelic variation at the Vha locus in natural populations
of rabbit (Oryctolagus cuniculus, L) from
Iberian Peninsula |
| 12:15 p.m. |
Wen Wang (Kunming Institute of Zoology, CAS,
China)
Origin of new genes revealed by young genes |
| 12:30 p.m. |
Helen Piontkivska (University of South Carolina)
Between-Host Evolution of CTL Epitopes in Human Immunodeficiency Virus
Type 1 (HIV-1): an Approach Based on Phylogenetically Independent Comparisons |
| 12:45 p.m. |
Kazuhiko Kawasaki (Pennsylvania State University)
Genetic basis for the evolution of vertebrate mineralized tissue |
| 1-2:30 p.m. |
Lunch (on your own) |
| 2:30-4:30 p.m. |
Session 11A (20 June): Molecular Polymorphisms
and Evolution (100 Thomas) |
| |
Session Chair: Steve Schaeffer (Penn State) |
| 2:30 p.m. |
Doris Bachtrog (Cornell University)
Positive selection drives Y-chromosome degeneration
in Drosophila |
| 2:45 p.m. |
Peter Andolfatto (University of Toronto, Canada)
Distinguishing between selection and demography in genome wide scans
of variability |
| 3:00 p.m. |
Francesco Catania (Institut für Tierzucht
und Genetik, Austria)
Evidence for an ongoing local selective sweep in a European D. melanogaster population |
| 3:15 p.m. |
Scott Williamson (Cornell University)
Inferring selection from the frequency spectrum of polymorphic sites
using non-stationary population genetic models |
| 3:30 p.m. |
Matthew Webster (Uppsala University, Sweden)
Fixation biases affecting human SNPs |
| 3:45 p.m. |
Adriana Briscoe (University of California, Irvine)
The spectrum of human rhodopsin disease mutations through the lens of
interspecific variation |
| 4:00 p.m. |
Hitoshi Araki (University of Chicago)
Molecular evolution of alternative pathogenicity islands in Pseudomonas
viridiflava, a natural pathgen of Arabidopsis |
| 4:15 p.m. |
Angela Burk-Herrick (University of California,
Riverside)
Molecular Evolution of BRCA2 exon 11 in Mammalia: A comparative phylogenetic
approach |
| 2:30-4:30 p.m. |
Session 11B (20 June): Genome Evolution: Codon
and Gene Order (101 Thomas) |
| |
Session Chair: Laura Katz (Smith College) |
| 2:30 p.m. |
Michael Tillich (Philipps-Universität Marburg,
Germany)
Plant Organellar RNA Editing - On the Evolution of Editing Sites and
trans Factors |
| 2:45 p.m. |
Jeffery Boore (DOE Joint Genome Institute and
UC Berkeley)
Bizarre Observations in Mitochondrial Genomics |
| 3:00 p.m. |
Nick Goldman (EMBL - European Bioinformatics
Institute, United Kingdom)
Estimating the frequency of events that cause multiple nucleotide changes |
| 3:15 p.m. |
Cedric Simillion (Ghent University, Belgium)
Building genomic profiles for uncovering segmental homology in the twilight
zone |
| 3:30 p.m. |
Han Liang (Princeton University)
Tandom Stop Codon Analysis in Yeasts |
| 3:45 p.m. |
Claude Rispe (Institut National de la Recherche
Agronomique, France)
Comparative study of the evolution of codon usage in endosymbiotic bacteria
(hosted by insects) and their free-living relatives. |
| 4:00 p.m. |
Julia Hartling (Yale University)
Relationship between local packing and sequence diversity in protein
structures |
| 4:15 p.m. |
Samir Wadhawan (Pennsylvania State University)
Overlapping Coding Regions in Mammalian Genomes |
| 2:30-4:30 p.m. |
Session 11C (20 June): Molecules and Biodiversity
(102 Thomas) |
| |
Session Chair: David Lambert (Massey University,
New Zealand) |
| 2:30 p.m. |
Leslie Real (Emory University)
Molecular ecology and dynamics of RNA viruses |
| 3:00 p.m. |
Sarah Mathews (Harvard University)
Photoreceptor evolution in plants: patterns of phytochrome divergence
in green and non-green species |
| 3:30 p.m. |
Chris Cheng (University of Illinois)
Diversity and molecular evolution of antifreeze proteins |
| 4:00 p.m. |
Loren Rieseberg (Indiana University)
Hybridization and the evolution of phenotypic diversity in sunflowers |
| 4:30-5 p.m. |
Break |
| 5-6:30 p.m. |
Session 12A (20 June): Molecular Polymorphisms
and Evolution (100 Thomas) |
| |
Session Chair: Hiroshi Akashi (Penn State) |
| 5:00 p.m. |
Barry Williams (University of Wisconsin)
Understanding the meaning of protein sequence evolution |
| 5:15 p.m. |
Justin Fay (Washington University)
Segregation of gene expression differences among recombinant strains
of S. cerevisiae |
| 5:30 p.m. |
Douglas Crawford (University of Miami)
Microarray Studies on the Functional Importance of Quantitative Variation:
most etabolic genes are different and correlated with function |
| 5:45 p.m. |
Teresa Pawlowska (University of California,
Berkeley)
Organization of individual genetic variation in arbuscular mycorrhizal
fungi |
| 6:00 p.m. |
Todd Schlenke (Cornell University)
QTL analysis of DDT and malathion resistance in Drosophila melanogaster |
| 6:15 p.m. |
Eric Ganko (University of Georgia)
A role for retrotransposons in D. melanogaster gene evolution |
| 5-6:30 p.m. |
Session 12B (20 June): Genome Evolution: Evolutionary
Patterns (101 Thomas) |
| |
Session Chair: Wojciech Makalowski (Penn State) |
| 5:00 p.m. |
Kateryna Makova (Pennsylvania State University)
Insertions and deletions are male biased too: a whole-genome analysis
in rodents |
| 5:15 p.m. |
John Parsch (University of Munich, Germany)
Molecular evolution of sex-biased genes in Drosophila |
| 5:30 p.m. |
Nadia Singh (Stanford University)
Genomic Heterogeneity in Neutral Substitutional Patterns in Drosophila
melanogaster |
| 5:45 p.m. |
Gabriel Marais (University of Edinburgh, Scotland)
A gradual and ongoing process of recombination restriction in the evolutionary
history of the sex chromosomes in dioecious plants |
| 6:00 p.m. |
Yuri Wolf (NCBI, National Institutes of Health)
Quantitative genomics: connections between phenotypic and evolutionary
measures |
| 6:15 p.m. |
Evgueny Kroll (The Molecular Sciences Institute)
Starvation-associated genomic rearrangements and speciation in yeast |
| 5-6:30 p.m. |
Session 12C (20 June): Molecules and Biodiversity
(102 Thomas) |
| |
Session Chair: Alfred Roca (SAIC-Frederick and
National Cancer Institute) |
| 5:00 p.m. |
Heather Rissler (University of New Brunswick,
Canada)
High-light stress responses in Euglena gracilis: evolution of photoprotective
and light-harvesting strategies in secondarily derived plastids |
| 5:15 p.m. |
Alfred Roca (SAIC-Frederick and National Cancer
Institute)
Mesozoic Origin for West Indian Insectivores |
| 5:30 p.m. |
Teena Browning (Australian Museum and Macquarie
University, Australia)
Life or death - is it in the genes? |
| 5:45 p.m. |
David Lambert (Massey University, New Zealand)
DNA barcoding ancient life |
| 6:00 p.m. |
Nadia Aubin-Horth (Harvard University)
Neurogenomics of a Short-circuited Life in Wild Salmon |
| 6:15 p.m. |
Tatsuya Ota (The Graduate University for Advanced
Studies, Japan)
Characterization of major histocompatibility complex (MHC) class II beta
genes in the Antarctic toothfish, Dissostichus mawsoni |
| 6:30 p.m. |
End of meeting |
| 6:30-7:30 p.m. |
Removal of posters |
