R.E.H.A.B.

Science and beer on a Friday afternoon seem to make a good combination. Nobody presents or defends the papers. We assume everyone has read the paper and jump right in to discussion without introduction. This allows for a very informal discussion, and with beer involved even the worst papers are much more manageable. Sometimes we're done at 5 and sometimes not until 6, depending on the paper and the crowd and interest and amount of beer being consumed. Anybody is welcome to suggest a paper (email Jeff), but your initials will get stuck up on the website along with the paper for all eternity. There is no email list; articles are posted below along with the date. An RSS feed is also available.

We meet Fridays at
3rd and U at about 4:15 (on rare occasions when 3rd and U is closed we improvise; email or call to find out the location).

And no, I won’t tell you what R.E.H.A.B. stands for, so don’t ask.

Review!

Fri Nov 08 2013
Second paper for review. Pick up hard copy in 262 Robbins.More

Lohmueller 2013

Fri Nov 01 2013
The impact of population demography and selection on the genetic architecture of complex traitsMore

Parker et al. 2013

Fri Oct 25 2013
Genome-wide signatures of convergent evolution in echolocating mammals
More

Tags: OA, Mammals, Parallel evolution

Peischl et al. arxiv

Fri Oct 18 2013
On the accumulation of deleterious mutations during range expansions
More

Tags: AO, Load, demographic water

Ronen et al. 2013

Fri Oct 11 2013
Learning Natural Selection from the Site Frequency Spectrum
More

Tags: PMG, selection, theory, Methods

Szovenyi et al. 2013

Fri Oct 04 2013
Selection Is No More Efficient in Haploid than in Diploid Life Stages of an Angiosperm and a Moss
More

Tags: JMB, selection, Moss

Tsai et al. 2013

Fri Sep 27 2013
The genomes of four tapeworm species reveal adaptations to parasitism
More

Tags: OA, worms, adaptation, genomics

Review!

Fri Sep 20 2013
First in what hopefully becomes a series of papers we review as part of journal club. Pick up hard copy in 262 Robbins.More

Long et al. 2013

Fri Sep 13 2013
Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden
More

Tags: Arabidopsis, JRI, genome scan, selection, centromeres, genetic diversity

Marí-Ordóñez et al. 2013

Fri Sep 06 2013
Reconstructing de novo silencing of an active plant retrotransposon
More

Tags: JRI, TEs, Arabidopsis, Epigenetics

Enard et al. 2013

Fri Aug 30 2013
Genome wide signals of pervasive positive selection in human evolution
More

Tags: adaptation, human, background selection, JRI

Tenaillon et al. 2012

Fri Aug 23 2013
THE MOLECULAR DIVERSITY OF ADAPTIVE CONVERGENCE
More

Tags: E. coli, adaptation, VB, experimental evolution

Schmitz et al. 2013

Fri Aug 16 2013
Patterns of population epigenomic diversity
More

Tags: JRI, Arabidopsis, Epigenetics

Heckman et al. 2013

Fri Aug 09 2013
Predicting C4 Photosynthesis Evolution: Modular, Individually Adaptive Steps on a Mount Fuji Fitness Landscape
More

Tags: theory, simulation, adaptation, VB

Orlando et al. 2013

Fri Aug 02 2013
Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse
More

Tags: JRI, horse, aDNA

Prado-Martinez 2013

Fri Jul 26 2013
Great ape genetic diversity and population history
More

Tags: chimp, gene flow, structure, DV

Koenig et al. 2013

Fri Jul 19 2013
Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato
More

Tags: Tomato, RNAseq, JRI, domestication

Lawrie et al. 2013

Fri Jul 12 2013
Strong Purifying Selection at Synonymous Sites in D. melanogaster
More

Tags: VB, Drosophila, draft

Romnay et al. 2013

Fri Jul 05 2013
Comprehensive genotyping of the USA national maize inbred seed bankMore

Tags: Maize, JRI

Every dog has its day

Fri Jun 28 2013
Freedman et al. 2013 AND Axelsson et al. 2013 AND Wang et al. 2013 … it’s a dog eat dog world.More

Tags: dog, dog, dog, domestication, JRI, genome scan

Peischl et al. 2013

Fri Jun 21 2013
A sequential coalescent algorithm for chromosomal inversions
More

Tags: simulation, JRI, inversion, theory

Stanton-Geddes et al. 2013

Fri Jun 14 2013
Candidate Genes and Genetic Architecture of Symbiotic and Agronomic Traits Revealed by Whole-Genome, Sequence-Based Association Genetics in Medicago truncatula
More

Tags: AO, medicago

Hermani et al. 2013

Fri Jun 07 2013
An Evolutionary Perspective on Epistasis and the Missing Heritability
More

Tags: VB, theory, Epistasis, GWAS

Peiffer et al. 2013

Fri May 31 2013
Diversity and heritability of the maize rhizosphere microbiome under field conditions
More

Tags: Maize, metagenomics, JRI

Cavanagh et al. 2013

Fri May 24 2013
Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars
More

Tags: VB, domestication, wheat, genome scan

Wall et al. 2013

Fri May 17 2013
Higher Levels of Neanderthal Ancestry in East Asians Than in Europeans
More

Tags: MBH, gene flow, human, admixture

Gayral et al. 2013

Fri May 10 2013
Reference-Free Population Genomics from Next-Generation Transcriptome Data and the Vertebrate–Invertebrate Gap
More

Tags: VB, Nonmodel, Transcriptome

Fraser 2013

Fri May 03 2013
Gene expression drives local adaptation in humansMore

Tags: human, adaptation, expression, JRI, VB

Neher preprint

Fri Apr 26 2013
Genetic draft, selective interference, and population genetics of rapid adaptation
More

Tags: draft, VB, theory

Banaei-Moghaddama et al. 2012

Fri Apr 19 2013
Nondisjunction in Favor of a Chromosome: The Mechanism of Rye B Chromosome Drive during Pollen MitosisMore

Tags: MBH, drive, centromeres, rye

No REHAB -- Symposium!

Fri Apr 12 2013
No REHAB, instead attend the Plant Breeding Symposium!

Stahl et al. 1999

Fri Apr 05 2013
Dynamics of disease resistance polymorphism at the Rpm1 locus of Arabidopsis
More

Tags: VB, Arabidopsis

Larsson et al. 2013

Fri Mar 29 2013
Lessons from Dwarf8 on the Strengths and Weaknesses of Structured Association Mapping
More

Tags: GWAS, JRI, structure, Maize

Thornton et al. 2013

Fri Mar 22 2013
Properties and Modeling of GWAS when Complex Disease Risk Is Due to Non-Complementing, Deleterious Mutations in Genes of Large Effect
More

Tags: GWAS, Methods, PLM

MGC -- no R.E.H.A.B.

Fri Mar 15 2013
No R.E.H.A.B. today, as many of us will be heading out to beautiful St. Charles, Illinois for the Maize Genetics Conference.

Garud et al. preprint

Fri Mar 08 2013
Soft selective sweeps are the primary mode of recent adaptation in Drosophila melanogaster
More

Tags: JRI, ST, Drosophila, sweeps, adaptation

Leffler et al. 2013

Fri Mar 01 2013
Multiple Instances of Ancient Balancing Selection Shared Between Humans and Chimpanzees
More

Tags: human, chimp, balancing selection, genome scan, DV

Axelsson et al. 2013 AND Groenen et al. 2012

Fri Feb 22 2013
The genomic signature of dog domestication reveals adaptation to a starch-rich diet

AND

Analyses of pig genomes provide insight into porcine demography and evolution.More

Tags: dog, Pig, genome scan, JRI, domestication

Peter et al. 2013

Fri Feb 15 2013
Distinguishing between Selective Sweeps from Standing Variation and from a De Novo MutationMore

Tags: TP, human, sweeps

Kirkpatrick and Peischl 2013

Tue Feb 12 2013
Evolutionary rescue by beneficial mutations in environments that change in space and time 
More

Paape et al. 2013

Fri Feb 08 2013
Selection, genome wide fitness effects, and evolutionary rates in the model legume Medicago truncatula (email Jeff for print copy)More

Tags: JRI, AO

Turchin et al. 2012

Fri Feb 01 2013
Evidence of widespread selection on standing variation in Europe at height-associated SNPs
More

Tags: JRI, human, standing variation

Fu et al. 2013

Fri Jan 25 2013
Analysis of 6,515 exomes reveals the recent origin of most human protein-coding variants
More

Tags: JRI, human, genetic diversity

Corbett-Detig and 2012

Fri Jan 18 2013
Population Genomics of Inversion Polymorphisms in Drosophila melanogaster
More

Tags: MBH, JRI, Drosophila, inversion

Huang et al. 2012

Fri Jan 11 2013
A map of rice genome variation reveals the origin of cultivated rice
More

Tags: MBH, rice, QTL, domestication, GWAS, genome scan

Breiman 2001

Fri Jan 04 2013
Statistical Modeling: The Two Cultures (with comments and a rejoinder by the author)
More

Tags: VB, Modeling, theory

R.E.H.A.B. holiday break.

Fri Dec 28 2012
R.E.H.A.B. is taking a rest for the holidays, but will return on Jan. 4.

Schnable et al. 2012

Fri Dec 21 2012
Genome-Wide Analysis of Syntenic Gene Deletion in the GrassesMore

Tags: JRI, Maize, genomics

Wang and Bennetzen 2012

Fri Dec 14 2012
Centromere retention and loss during the descent of maize from a tetraploid ancestor
More

Tags: PB, Maize, centromeres, genome scan

Prasad et al. 2012

Fri Dec 07 2012
A Gain-of-Function Polymorphism Controlling Complex Traits and Fitness in Nature
More

Tags: JRI, QTL

(2 PAPERS) Rockman 2011 AND Travisano and Shaw 2012

Fri Nov 30 2012
Lost in the map


AND

The QTN program and the alleles that matter for evolution: All that’s gold does not glitterMore

Tags: MBH, adaptation, QTL

TurkeyDay, no R.E.H.A.B.

Fri Nov 23 2012
Turkey Day Break, no R.E.H.A.B. But if you’re really anxious to read something…More

Beleza et al. 2012

Fri Nov 16 2012
The timing of pigmentation lightening in Europeans
More

Tags: PB, human, sweeps

(2 PAPERS) Slavov et al. 2012 AND Stölting et al. 2012

Fri Nov 09 2012
Genome resequencing reveals multiscale geographic structure and extensive linkage disequilibrium in the forest tree Populus trichocarpa

AND

Genomic scan for single nucleotide polymorphisms reveals patterns of divergence and gene flow between ecologically divergent species
More

Tags: MBH, TP, populus, genome scan, structure

Leffler et al. 2012

Fri Nov 02 2012
Revisiting an Old Riddle: What Determines Genetic Diversity Levels within Species?
More

Tags: JRI, Conservation, genetic diversity

Lundberge et al. 2012 AND Bulgarelli et al. 2012

Fri Oct 26 2012
Defining the core Arabidopsis thaliana root microbiome

AND

Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiotaMore

Tags: AO, Arabidopsis, metagenomics

Blumenstiel et al. 2012

Fri Oct 19 2012
An age-of-allele test of neutrality for transposable element insertions not at equilibrium
More

Tags: JRI, Drosophila, TEs

Cancelled

Fri Oct 12 2012
No R.E.H.A.B. today. A sad day.More

Wang et al. 2012

Fri Oct 05 2012
A Quantitative Comparison of the Similarity between Genes and Geography in Worldwide Human Populations
More

Tags: human, MBH

Yelina et al. 2012

Fri Sep 28 2012
Epigenetic Remodeling of Meiotic Crossover Frequency in Arabidopsis thaliana DNA Methyltransferase Mutants
More

Tags: JRI, Arabidopsis, recombination, Epigenetics

Staubach et al. 2012

Fri Sep 21 2012
Genome Patterns of Selection and Introgression of Haplotypes in Natural Populations of the House Mouse (Mus musculus)
More

Tags: Mouse, MBH, gene flow, adaptation, genome scan

Lauer et al. 2012

Fri Sep 14 2012
Morphological Changes in Parental Lines of Pioneer Brand Maize Hybrids in the U.S. Central Corn Belt
More

Tags: PB, Maize, heterosis

Zhang and Dawe 2012

Fri Sep 07 2012
Total centromere size and genome size are strongly correlated in ten grass species
More

Tags: centromeres, genomics, MBH

Liu et al. 2012

Fri Aug 31 2012
Changes in Genome Content Generated via Segregation of Non-allelic Homologs
More

Tags: Maize, genomics, CNV, JRI

Yu et al. 2012

Fri Aug 24 2012
Genic and non-genic contributions to natural variation of quantitative traits in maize
More

Tags: Maize, genomics, QTL, JRI

Wilson et al. 2011

Fri Aug 17 2012
A Population Genetics-Phylogenetics Approach to Inferring Natural Selection in Coding Sequences
More

Tags: MBH, adaptation, theory

Lee & Mitchell-Olds 2012

Fri Aug 10 2012
Environmental adaptation contributes to gene polymorphism across the Arabidopsis thaliana genomeMore

Tags: Arabidopsis, adaptation, JRI

Prunier et al. 2012

Fri Aug 03 2012
Parallel and lineage-specific molecular adaptation to climate in boreal black spruce
More

Tags: TP, Conifers, adaptation, phylogeography

Coop and Ralph 2012

Fri Jul 27 2012
Patterns of Neutral Diversity Under General Models of Selective Sweeps
More

Tags: sweeps, JRI, theory, demographic water

Neumann et al. 2012

Fri Jul 20 2012
Stretching the Rules: Monocentric Chromosomes with Multiple Centromere Domains
More

Tags: JRI, centromeres, Pisum

Jay et al. 2012

Fri Jul 13 2012
Forecasting changes in population genetic structure of alpine plants in response to global warming
More

Tags: climate change, adaptation, AO

Garrigan et al. 2012

Fri Jul 06 2012
Genome sequencing reveals complex speciation in the Drosophila simulans clade
More

Tags: MBH, speciation, Drosophila

Langley et al. 2012

Fri Jun 29 2012
Genomic Variation in Natural Populations of Drosophila melanogaster
More

Tags: JRI, Drosophila, genomics

Slotte et al. 2012

Fri Jun 22 2012
GENETIC ARCHITECTURE AND ADAPTIVE SIGNIFICANCE OF THE SELFING SYNDROME IN CAPSELLA
More

Tags: TP, capsella, mapping, mating system

Aylward et al. 2012

Fri Jun 15 2012
Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens
More

Tags: AO, metagenomics

Nelson et al. 2012 and Tennesen et al. 2012

Fri Jun 08 2012
An Abundance of Rare Functional Variants in 202 Drug Target Genes Sequenced in 14,002 People

AND

Evolution and Functional Impact of Rare Coding Variation from Deep Sequencing of Human ExomesMore

Tags: JRI, human

Hey and Pinho 2012

Fri Jun 01 2012
POPULATION GENETICS AND OBJECTIVITY IN SPECIES DIAGNOSIS
More

Tags: AO, speciation, structure

Morrell et al. 2012

Fri May 25 2012
Crop genomics: advances and applications
More

Tags: PB, review, genomics

Le Corre and Kremer 2012

Fri May 18 2012
The genetic differentiation at quantitative trait loci under local adaptation
More

Tags: TP, adaptation, theory, review

Presgraves 2010

Fri May 11 2012
The molecular evolutionary basis of species formation
More

Tags: PB, review, speciation

Li et al. 2012

Fri May 04 2012
Evidence for Positive Selection on a Number of MicroRNA Regulatory Interactions during Recent Human Evolution
More

Tags: TP, human, adaptation

Hoban et al. 2012

Fri Apr 27 2012
Computer simulations: tools for population and evolutionary genetics
More

Tags: PB, review, simulation

Pioneer Symposium -- no REHAB

Fri Apr 20 2012
In lieu of REHAB on April 20, we suggest you attend the Modern Tools in Plant Breeding symposium.

Clotault et al. 2012

Fri Apr 13 2012
Evolutionary History of Pearl Millet (Pennisetum glaucum [L.] R. Br.) and Selection on Flowering Genes since Its Domestication
More

Tags: JRI, Millet, demographic water, domestication

Moeller et al. 2011

Fri Apr 06 2012
Population genetics and the evolution of geographic range limits in an annual plant.More

Tags: MBH, Clarkia, ecology, gene flow, adaptation

Mathieson and McVean 2012

Fri Mar 30 2012
Differential confounding of rare and common variants in spatially structured populationsMore

Tags: MBH, association, GWAS, Modeling, theory, simulation

Andersen et al. 2012

Fri Mar 23 2012
Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversityMore

Tags: JRI, worms, sweeps

Maize Meeting -- no REHAB

Fri Mar 16 2012

Zhang et al. 2011

Fri Mar 09 2012
Genetic architecture of regulatory variation in Arabidopsis thaliana
More

Tags: MBH, Arabidopsis, GWAS

Guerrero et al. 2012

Fri Mar 02 2012
Coalescent patterns for chromosomal inversions in divergent populations
More

Tags: TP, inversion, Coalescent, adaptation

He et al. 2011

Fri Feb 24 2012
Next-generation sequencing-based transcriptomic and proteomic analysis of the common reed, Phragmites australis (Poaceae), reveals genes involved in invasiveness and rhizome specificityMore

Tags: CS, Transcriptome

Horten 2012 & Mackay 2012

Fri Feb 17 2012
Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
AND
The Drosophila melanogaster Genetic Reference Panel
More

Tags: JRI, Arabidopsis, genome scan, Drosophila, association

Buschiazzo et al. 2012

Fri Feb 10 2012
Slow but not low: genomic comparisons reveals slower evolutionary rate and higher dN/dS in conifers compared to angiospermsMore

Tags: Conifers, Molecular evolution, TP

Larièpe et al. 2011

Fri Feb 03 2012
The Genetic Basis of Heterosis: Multiparental QTL Mapping Reveals Contrasted Levels of Apparent Overdominance Among Traits of Agronomical Interest in Maize (Zea mays L.)More

Tags: Maize, JRI, heterosis

Hinch et al. 2011

Fri Jan 27 2012
The landscape of recombination in African Americans
More

Tags: human, MBH

Brown et al. 2011

Fri Jan 20 2012
Distinct Genetic Architectures for Male and Female Inflorescence Traits of MaizeMore

Tags: Maize, association, JRI

Qiu et al. 2011

Fri Jan 13 2012
Reduced efficacy of natural selection on codon usage bias in selfing Arabidopsis and Capsella species
More

Tags: MBH, capsella, Arabidopsis, mating system

Bouffaud et al. 2011

Fri Jan 06 2012
Is diversification history of maize influencing selection of soil bacteria by roots?
More

Tags: JRI, Maize

Happy New Year (NO REHAB)

Fri Dec 30 2011

Eichten et al. 2011

Fri Dec 23 2011
Heritable Epigenetic Variation among Maize Inbreds
More

Tags: Maize, Epigenetics, JRI

Smith et al. 2011

Fri Dec 16 2011
Comparative Phylogeography of a Coevolved Community: Concerted Population Expansions in Joshua Trees and Four Yucca MothsMore

Tags: LV, Jtree, phylogeography

Alkan et al. 2011

Fri Dec 09 2011
Genome structural variation discovery and genotyping
More

Tags: PB, genomics, review, human

Rushworth et al. 2011

Fri Dec 02 2011
Boechera, a model system for ecological genomicsMore

Tags: TP, review

No REHAB

Fri Nov 25 2011
No REHAB — but follow the link for your 2011 Turkey genetics articleMore

Mendiburo et al. 2011

Fri Nov 18 2011
Drosophila CENH3 Is Sufficient for Centromere Formation
More

Tags: Drosophila, MBH, centromeres

Lowry and Willis 2010

Fri Nov 11 2011
A Widespread Chromosomal Inversion Polymorphism Contributes to a Major Life-History Transition, Local Adaptation, and Reproductive IsolationMore

Tags: JRI, Mimulus, adaptation

Lohmueller et al. 2011

Fri Nov 04 2011
Natural Selection Affects Multiple Aspects of Genetic Variation at Putatively Neutral Sites across the Human Genome
More

Tags: human, TP

Li et al. 2011

Fri Oct 28 2011
Joint analysis of demography and selection in population genetics: where do we stand and where could we go?
More

Tags: review, demographic water, TP

Yang and Gaut 2011

Fri Oct 21 2011
Factors that contribute to variation in evolutionary rate among Arabidopsis genes
More

Tags: MBH, Arabidopsis, genomics

Hancock/Fournier-Level 2011

Fri Oct 14 2011
An Arabdopsis local adaptation double editionMore

Tags: Arabidopsis, adaptation, genome scan, sweeps, JRI

Charlesworth and Willis 2009

Fri Oct 07 2011
The genetics of inbreeding depression
More

Tags: JRI, review, Load

Ellison et al. 2011

Fri Sep 30 2011
Population genomics and local adaptation in wild isolates of a model microbial eukaryote
More

Tags: Neurospora, adaptation, genome scan, JRI

Cao/Gan 2011

Fri Sep 23 2011
An Arabidopsis genome special double-edition

More

Tags: Arabidopsis, genomics, CAM

Jensen and Bachtrog 2011

Fri Sep 16 2011
Characterizing the Influence of Effective Population Size on the Rate of Adaptation: Gillespie’s Darwin DomainMore

Tags: demographic water, sweeps, MBH, Drosophila

Takuno and Gaut 2011

Fri Sep 09 2011
Body-methylated genes in Arabidopsis thaliana are functionally important and evolve slowly
More

Tags: Arabidopsis, Epigenetics, JRI

He et al. 2011

Fri Sep 02 2011
Two Evolutionary Histories in the Genome of Rice: the Roles of Domestication Genes
More

Tags: rice, genome scan, demographic water, domestication, MBH

REHAB cancelled

Fri Aug 26 2011

Mariac et al. 2011

Fri Aug 19 2011
Genetic basis of pearl millet adaptation along an environmental gradient investigated by a combination of genome scan and association mapping
More

Tags: Millet, genome scan, association, JRI

Feder et al. 2011

Fri Aug 12 2011
Adaptive chromosomal divergence driven by mixed geographic mode of evolution
More

Tags: AJE, simulation, adaptation, gene flow

Yotova et al. 2011

Fri Aug 05 2011
An X-linked haplotype of Neandertal origin is present among all non-African populations
More

Tags: PB, gene flow, human

Li et al. 2011

Fri Jul 29 2011
Chromosome Size in Diploid Eukaryotic Species Centers on the Average Length with a Conserved Boundary

More

Tags: meta-analysis, DV

Li & Durbin 2011

Fri Jul 22 2011
Inference of human population history from individual whole-genome sequences
More

Tags: human, demographic water, JRI

Novembre(s) 2008

Fri Jul 15 2011
Interpreting principal component analyses of spatial population genetic variation

AND

Genes mirror geography within Europe
More

Tags: human, structure, JRI

Price et al. 2009

Fri Jul 08 2011
Sensitive Detection of Chromosomal Segments of Distinct Ancestry in Admixed Populations
More

Tags: human, MBH, gene flow

Salome et al. 2011

Fri Jul 01 2011
Genetic Architecture of Flowering-Time Variation in Arabidopsis thaliana
More

Tags: Arabidopsis, association, TP

Turner et al. 2011

Fri Jun 24 2011

Population-Based Resequencing of Experimentally Evolved Populations Reveals the Genetic Basis of Body Size Variation in Drosophila melanogaster
More

Tags: Drosophila, MBH, genome scan

McEvoy et al. 2011

Fri Jun 17 2011
Human population dispersal ''Out of Africa'' estimated from linkage disequilibrium and allele frequencies of SNPs
More

Tags: JPG, human, demographic water

Buckler et al. 2006

Fri Jun 10 2011
PHYLOGEOGRAPHY OF THE WILD SUBSPECIES OF ZEA MAYS
More

Tags: JRI, Maize, phylogeography

Kim To et al. 2011

Fri Jun 03 2011
Arabidopsis HDA6 Regulates Locus-Directed Heterochromatin Silencing in Cooperation with MET1
More

Tags: Arabidopsis, PB

Hancock et al. 2011

Fri May 27 2011
Adaptations to Climate-Mediated Selective Pressures in HumansMore

Tags: TP, human, adaptation

Moorjani et al. 2011

Fri May 20 2011
The History of African Gene Flow into Southern Europeans, Levantines, and Jews
More

Tags: MBH, human, gene flow

Hu et al. 2011

Fri May 13 2011
The Arabidopsis lyrata genome sequence and the basis of rapid genome size change
More

Tags: TP, Arabidopsis, genomics

Sattath et al. 2011

Fri May 06 2011
Pervasive Adaptive Protein Evolution Apparent in Diversity Patterns around Amino Acid Substitutions in Drosophila simulansMore

Tags: Drosophila, sweeps, adaptation, genome scan, JRI

Warnefors & Eyre-Walker 2011

Fri Apr 29 2011
The accumulation of gene regulation through time
More

Tags: MBH, genomics

Prunier et al. 2011

Fri Apr 22 2011
Scanning the genome for gene SNPs related to climate adaptation and estimating selection at the molecular level in boreal black spruceMore

Tags: MBH, spruce, adaptation, genome scan

Woods et al. 2011

Fri Apr 15 2011
Second-Order Selection for Evolvability in a Large Escherichia coli Population
More

Tags: JRI, E. coli, adaptation, experimental evolution

Brito & Edwards 2009

Fri Apr 08 2011
Multilocus phylogeography and phylogenetics using sequence-based markers
More

Tags: DV, phylogenetics, phylogeography

Moses and Durbin 2009

Fri Apr 01 2011
Inferring Selection on Amino Acid Preference in Protein Domains
More

Tags: JRI, Load

Hernandez et al. 2011

Fri Mar 25 2011
Classic Selective Sweeps Were Rare in Recent Human Evolution
More

Tags: JRI, sweeps, human, genome scan, adaptation

Maize Meeting: No REHAB

Fri Mar 18 2011

Loh et al. 2011

Fri Mar 11 2011
Evolution of MicroRNAs and the Diversification of Species
More

Tags: MBH, cichlid

Du et al. 2010

Fri Mar 04 2011
DNA Binding of Centromere Protein C (CENPC) Is Stabilized by Single-Stranded RNA
More

Tags: JRI, Maize, centromeres

Wright on time

Fri Feb 25 2011
Two papers to prepare for S. Wright’s visit on Feb. 28:

Foxe et al. 2010

Reconstructing origins of loss of self-incompatibility and selfing in north american Arabidopsis lyrata: a population genetic context

Siol et al. 2010

The population genomics of plant adaptation
More

Tags: MBH, Arabidopsis

Casto and Feldman 2011

Fri Feb 18 2011
Genome-Wide Association Study SNPs in the Human Genome Diversity Project Populations: Does Selection Affect Unlinked SNPs with Shared Trait Associations?More

Tags: AJE, association, human

Goff 2010

Fri Feb 11 2011
A unifying theory for general multigenic heterosis: energy efficiency, protein metabolism, and implications for molecular breedingMore

Tags: JRI, theory

Chun and Fay 2009

Fri Feb 04 2011
Identification of deleterious mutations within three human genomes
More

Tags: JRI, human, genome scan, Load

Chen et al. 2010

Fri Jan 28 2011
New Genes in Drosophila Quickly Become Essential
More

Tags: Drosophila, genomics, TP

Li and Chetelat 2010

Fri Jan 21 2011
A Pollen Factor Linking Inter- and Intraspecific Pollen Rejection in TomatoMore

Tags: YB, Tomato

Reich et al. 2010

Fri Jan 14 2011
Genetic history of an archaic hominin group from Denisova Cave in Siberia
More

Tags: human, MBH, AJE

Renaut et al. 2010

Fri Jan 07 2011
SNP signatures of selection on standing genetic variation and their association with adaptive phenotypes along gradients of ecological speciation in lake whitefish species pairs (Coregonus spp.)More

Tags: whitefish, TP

Kim et al. 2010

Fri Dec 17 2010
Whole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb.
and Zucc.) genome
More

Tags: genomics, soybean, JRI

Ma et al. 2010

Fri Dec 10 2010
Genetic Differentiation, Clinal Variation and Phenotypic Associations With Growth Cessation Across the Populus tremula Photoperiodic Pathway
More

Tags: populus, AJE, association

Hufford et al. In Prep

Fri Dec 03 2010
The domestication and improvement of maize: full-genome re-sequencing of teosinte, landraces, and inbred lines of maize.More

Tags: Maize, genome scan, domestication

Dalloul et al. 2010

Fri Nov 26 2010
NO REHAB on Friday 11/26... But in honor of Turkey Day:

Multi-Platform Next-Generation Sequencing of the Domestic Turkey (Meleagris gallopavo): Genome Assembly and Analysis
More

Tags: genomics, Turkey, JRI, domestication

Wright et al. 2010

Fri Nov 19 2010
The genetic architecture of domestication in the chicken: effects of pleiotropy and linkage
More

Tags: chicken, MBH, domestication

Rockman et al. 2010

Fri Nov 12 2010
Selection at Linked Sites Shapes Heritable Phenotypic Variation in C. elegans

AND (optionally)

Charlesworth 2009 Effective reading on effective size

Charlesworth 2010 Background reading on background selectionMore

Tags: JRI, worms

Sackton et al. 2009

Fri Nov 05 2010
Population Genomic Inferences from Sparse High-Throughput Sequencing
of Two Populations of Drosophila melanogaster
More

Tags: Drosophila, LV

Bigham et al. 2010 & Yi et al. 2010

Fri Oct 29 2010
Identifying Signatures of Natural Selection in Tibetan and Andean Populations Using Dense Genome Scan Data

AND

Sequencing of 50 Human Exomes Reveals Adaptation to High Altitude
More

Tags: adaptation, human, genome scan, MBH

Ralph and Coop 2010

Fri Oct 22 2010
Parallel Adaptation: One or Many Waves of Advance of an Advantageous Allele?


More

Tags: JvH, theory, sweeps

Elyashiv et al. 2010

Fri Oct 15 2010
Shifts in the intensity of purifying selection: An analysis of genome-wide polymorphism data from two closely related yeast species
More

Tags: JRI, yeast

Boyko et al. 2010

Fri Oct 08 2010
A Simple Genetic Architecture Underlies Morphological Variation in Dogs
More

Tags: dog, association, TP

Rieseberg and Blackman 2010

Fri Oct 01 2010
Speciation genes in plants.
More

Tags: speciation, YB

Barrett and Schluter 2008 & Durand et al. 2010

Fri Sep 24 2010
Adaptation from standing genetic variation

and

Standing variation and new mutations both contribute to a fast response to selection for flowering time in maize inbredsMore

Tags: NCE, Maize

Rosas et al 2010

Fri Sep 17 2010
Cryptic Variation between Species and the Basis of Hybrid Performance
More

Tags: DV, Antirrhinum

Whitney and Garland 2010

Fri Sep 10 2010
Did Genetic Drift Drive Increases in Genome Complexity?
More

Tags: phylogenetics, JRI, demographic water

North et al. 2010

Fri Sep 03 2010
LOCAL ADAPTATION IN A CHANGING WORLD: THE ROLES OF GENE-FLOW, MUTATION, AND SEXUAL REPRODUCTION

More

Tags: MBH, adaptation

Schmidt et al. 2010

Fri Aug 27 2010
Copy Number Variation and Transposable Elements Feature in Recent, Ongoing Adaptation at the Cyp6g1 Locus
More

Tags: MBH, Drosophila, adaptation

Gross et al. 2010 & Thurber et al. 2010

Fri Aug 20 2010
Molecular evolution of shattering loci in U.S. weedy rice

AND

Seeing red: the origin of grain pigmentation in US weedy riceMore

Tags: NCE, rice, domestication

Woodhouse et al. 2010

Fri Aug 13 2010
Following Tetraploidy in Maize, a Short Deletion Mechanism Removed Genes Preferentially from One of the Two Homeologs
More

Tags: genomics, Maize, JRI

Coate and Doyle 2010

Fri Aug 06 2010
Quantifying Whole Transcriptome Size, a Prerequisite for Understanding Transcriptome Evolution Across Species: An Example from a Plant Allopolyploid
More

Tags: genomics, JRI

Slotte et al. 2010 & Gossman et al. 2010 reprise

Fri Jul 23 2010
Genome-Wide Evidence for Efficient Positive and Purifying Selection in Capsella grandiflora, a Plant Species with a Large Effective Population Size

and Gossman et al. 2010 (at least read the discussion)More

Tags: capsella, AJE, adaptation

Bierne 2010

Fri Jul 23 2010
The distinctive footprints of local hitchhiking in a varied environment and global hitchhiking in a subdivided population
More

Tags: adaptation, JRI, sweeps, structure

Yang et al. 2010

Fri Jul 16 2010
Common SNPs explain a large proportion of the heritability for human height
More

Tags: human, JvH

Karasov et al. 2010

Fri Jul 09 2010
Evidence that Adaptation in Drosophila Is Not Limited by Mutation at Single Sites
More

Tags: JRI, Drosophila

Albrechtsen et al. 2010

Fri Jul 02 2010
Ascertainment biases in SNP chips affect measures of population divergence
More

Tags: structure, AJE

Zheng and Ge 2010

Fri Jun 25 2010
Ecological divergence in the presence of gene flow in two closely related Oryza species (Oryza rufipogon and O. nivara)
More

Tags: rice, MBH, speciation

Platt et al. 2010

Fri Jun 18 2010
The Scale of Population Structure in Arabidopsis thaliana

More

Tags: structure, Arabidopsis, JRI

Domestication showcase showdown

Fri Jun 11 2010

FOUR, yes count’em FOUR articles on domestication competing for the title prize. Dog vs. silkworm vs. maize vs. chicken. Now accepting wagers...More

Tags: JRI, Maize, chicken, dog, silkworm, domestication

Michel et al. 2010

Fri Jun 04 2010
Widespread genomic divergence during sympatric speciation
More

Tags: speciation, JRI

(Charlesworth) 2010

Fri May 28 2010
A pot-luck of CharlesworthMore

Tags: AJE

González et al. 2010

Fri May 21 2010
Genome-Wide Patterns of Adaptation to Temperate Environments Associated with Transposable Elements in Drosophila
More

Tags: TEs, Drosophila, adaptation, MBH

Gossmann et al. 2010

Fri May 14 2010
Genome wide analyses reveal little evidence for adaptive evolution in many plant species
More

Tags: adaptation, JRI

Heled and Drummond 2010

Fri May 07 2010
Bayesian Inference of Species Trees from Multilocus Data
More

Tags: phylogenetics, MRM, Methods

Buckler et al. 1999

Fri Apr 30 2010
Meiotic Drive of Chromosomal Knobs Reshaped the Maize Genome
More

Tags: Maize, centromeres, JRI

Rubin et al. 2010 & Pool et al. 2010

Fri Apr 23 2010
Whole-genome resequencing reveals loci under selection during chicken domestication

AND

Population genetic inference from genomic sequence variation
More

Tags: chicken, adaptation, genome scan, review, JRI, MBH, domestication

Ness et al. 2010

Fri Apr 16 2010
Mating-System Variation, Demographic History and Patterns of Nucleotide Diversity in the Tristylous Plant Eichhornia paniculata
More

Tags: LV, structure

Slotte et al 2010

Fri Apr 09 2010
Genome-wide evidence for efficient positive and purifying selection in Capsella grandiflora, a plant species with a large effective population sizeMore

Tags: JRI, adaptation

Jakob et al 2010

Fri Apr 02 2010
Population demography influences climatic niche evolution: evidence from diploid American Hordeum species (Poaceae)
More

Tags: TP, ecology, hordeum

Lusk and Eisen 2010

Fri Mar 12 2010
Evolutionary Mirages: Selection on Binding Site Composition Creates the Illusion of Conserved Grammars in Drosophila Enhancers
More

Tags: JvH, Drosophila

Ingvarsson 2010

Fri Mar 05 2010
Natural Selection on Synonymous and Nonsynonymous Mutations Shapes Patterns of Polymorphism in Populus tremula
More

Tags: Methods, sweeps, populus, JRI

Lee et al. 2010

Fri Feb 26 2010
Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana
More

Tags: Arabidopsis, DV, networks

Yamagata et al 2010

Fri Feb 19 2010
Mitochondrial gene in the nuclear genome induces reproductive barrier in rice
More

Tags: rice, JRI, speciation

Huff et al. 2010

Fri Feb 12 2010
Mobile elements reveal small population size in the ancient ancestors of Homo sapiens
More

Tags: TEs, JRI, human

Wasser et al. 2004

Fri Feb 05 2010
Assigning African elephant DNA to geographic region of origin: Applications to the ivory trade
More

Tags: JvH, Methods, structure, phylogeography

Bensasson et al. 2009

Fri Jan 29 2010
Rapid Evolution of Yeast Centromeres in the Absence of Drive
More

Tags: centromeres, yeast, JRI

Kim and Gulisija 2009

Fri Jan 22 2010
Signatures of Recent Directional Selection Under Different Models of Population Expansion During Colonization of New Selective EnvironmentsMore

Tags: Modeling, demographic water, JRI, domestication

Kebrom and Brutnell 2007 & Clark et al. 2006

Fri Jan 15 2010
The molecular analysis of the shade avoidance syndrome in the grasses has begun.

AND

A distant upstream enhancer at the maize domestication gene tb1 has pleiotropic effects on plant and inflorescent architecture.
More

Tags: Maize, MBH

Obbard et al. 2009

Fri Dec 18 2009
Quantifying Adaptive Evolution in the Drosophila Immune System
More

Tags: adaptation, JvH, networks

Ayroles et al. 2009

Fri Dec 11 2009
Systems genetics of complex traits in Drosophila melanogasterMore

Tags: JRI, networks

Latta 2009

Fri Dec 04 2009
Testing for local adaptation in Avena barbata: a classic example of ecotypic divergence

More

Tags: adaptation, MBH

Qiu et al. 2006

Fri Nov 20 2009
The deepest divergences in land plants inferred from phylogenomic evidence
More

Tags: phylogenetics, MRM

Wolf et al. 2009

Fri Nov 13 2009
Nonlinear Dynamics of Nonsynonymous (dN) and Synonymous (dS) Substitution Rates Affects Inference of Selection
More

Tags: AJE, adaptation, Methods

Barrick et al. 2009

Fri Nov 06 2009
Genome evolution and adaptation in a long-term experiment with Escherichia coli
More

Tags: SS, adaptation

Gutenkunst et al. 2009

Fri Oct 30 2009
Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data
More

Tags: Methods, human, JvH, demographic water

Stolzfus and Yampolsky 2009 & Nielsen 2009

Fri Oct 23 2009
Climbing Mount Probable: Mutation as a Cause of Nonrandomness in Evolution

AND

ADAPTIONISM—30 YEARS AFTER GOULD AND LEWONTINMore

Tags: AJE, adaptation, review, MBH

Nielsen et al. 2005

Fri Oct 16 2009
Genomic scans for selective sweeps using SNP data
More

Tags: Methods, human, JRI, sweeps, genome scan

Turner et al. 2008

Fri Oct 09 2009
Genomic Analysis of Differentiation between Soil Types Reveals Candidate Genes for Local Adaptation in Arabidopsis lyrataMore

Tags: Arabidopsis, AJE, adaptation, genome scan

Gilad et al. 2009

Tue Oct 06 2009
Characterizing natural variation using next-generation sequencing technologies.
More

Tags: review, Methods, JRI, genomics

Piperno et al 2009 & Ranere et al. 2009

Fri Oct 02 2009
Starch grain and phytolith evidence for early ninth millennium B.P. maize from the Central Balsas River Valley, Mexico

AND

The cultural and chronological context of early Holocene maize and squash domestication in the Central Balsas River Valley, MexicoMore

Tags: Maize, MBH, phylogeography, domestication

Sella et al. 2009

Tue Sep 29 2009
Pervasive Natural Selection in the Drosophila Genome?
More

Tags: JRI, adaptation, Drosophila

Kovach et al. 2009

Fri Sep 25 2009
The origin and evolution of fragrance in rice (Oryza sativa L.)More

Tags: JRI, rice, domestication

Slatkin 2008

Tue Sep 22 2009
Linkage disequilibrium — understanding the evolutionary past and mapping the medical future
More

Tags: primer, review, JRI

Itan et al. 2009

Fri Sep 18 2009
The Origins of Lactase Persistence in Europe
More

Tags: human, ABC, adaptation, AJE

Shih et al. 2010

Fri Sep 11 2009
High frequency gene conversion in centromere coresMore

Tags: centromeres, JRI, Maize

Orr 2009

Tue Sep 08 2009
Fitness and its role in evolutionary genetics
More

Tags: JRI, review, primer

Eyre-Walker and Keightley 2009

Fri Sep 04 2009
Estimating the Rate of Adaptive Molecular Evolution in the Presence of Slightly Deleterious Mutations and Population Size Change
More

Tags: JH, adaptation

Charlesworth 2009

Tue Sep 01 2009
Effective population size and patterns of molecular evolution and variation
More

Tags: JRI, primer, review

Buckler/McMullen & McMullen/Buckler

Fri Aug 28 2009
The Genetic Architecture of Maize Flowering Time and Genetic Properties of the Maize Nested Association Mapping PopulationMore

Tags: association, JRI, Maize

Holsinger and Weir

Tue Aug 25 2009
Genetics in geographically structured populations: defining, estimating and interpreting FST
More

Tags: review, structure, JRI, primer

Fishman and Saunders 2009

Fri Aug 21 2009
Centromere-Associated Female Meiotic Drive Entails Male Fitness Costs in MonkeyflowersMore

Tags: centromeres, JRI

Jones and Wakeley 2009

Tue Aug 18 2009
The Influence of Gene Conversion on Linkage Disequilibrium Around a Selective SweepMore

Tags: sweeps, JRI

Städler et al 2009

Fri Aug 14 2009
The Impact of Sampling Schemes on the Site Frequency Spectrum in Nonequilibrium Subdivided Populations
More

Tags: JRI, Methods

Harismendy et al. 2009

Tue Aug 11 2009
Evaluation of next generation sequencing platforms for population targeted sequencing studies
More

Tags: JRI, Methods

Hahn 2008

Fri Aug 07 2009
TOWARD A SELECTION THEORY OF MOLECULAR EVOLUTION
More

Tags: LV, review

Zhang et al. 2009

Tue Aug 04 2009
Selection on grain shattering genes and rates of rice domestication More

Tags: JRI, rice, ABC, domestication

Schneider et al. 2009

Fri Jul 31 2009
Estimates of Positive Darwinian Selection Are Inflated by Errors in Sequencing, Annotation, and Alignment
More

Tags: AJE, Methods

McNally et al. 2009

Tue Jul 28 2009
Genomewide SNP variation reveals relationships among landraces and modern varieties of riceMore

Tags: JRI, structure, rice

Chiang et al. 2009

Fri Jul 24 2009
Major flowering time gene, FLOWERING LOCUS C, regulates seed germination in Arabidopsis thalianaMore

Tags: JRI, Arabidopsis

van Heerwaarden et al. 2010

Fri Jul 17 2009
Fine scale genetic structure in the wild ancestor of maize (Zea mays spp. Parviglumis)
More

Tags: JvH, Maize, structure, Methods

Guillot 2009

Tue Jul 14 2009
On the inference of spatial structure from population genetics data
More

Tags: structure, JvH, Methods, Arabidopsis

de-Lucas et al. 2008

Fri Jul 10 2009
Mating system and pollen gene flow in Mediterranean maritime pine More

Tags: MBH, Methods

Price et al. 2009

Tue Jul 07 2009
Sensitive Detection of Chromosomal Segments of Distinct Ancestry in Admixed Populations
More

Tags: structure, JRI, human, Methods

Coop et al. 2009

Fri Jul 03 2009
The Role of Geography in Human Adaptation
More

Tags: structure, JRI, human, adaptation

Gore et al. 2009

Tue Jun 30 2009
A first generation haplotype map of maizeMore

Tags: association, Maize, JRI, genomics, domestication

Templeton 2009

Fri Jun 26 2009
Statistical hypothesis testing in intraspecific phylogeography: nested clade phylogeographical analysis vs. approximate Bayesian computation

More

Tags: JvH, phylogeography, Methods

Marshall et al. 2009

Fri Jun 19 2009
Glacial refugia in a maritime temperate climate: Cicada (Kikihia subalpina) mtDNA phylogeography in New ZealandMore

Tags: phylogeography, LV

Wolfgruber et al. 2009

Fri Jun 12 2009
Maize Centromere Structure and Evolution: Sequence Analysis of Centromeres 2 and 5 Reveals Dynamic Loci Shaped Primarily by Retrotransposons
More

Tags: centromeres, genomics, JRI

Jensen et al. 2008

Fri Jun 05 2009
An Approximate Bayesian Estimator Suggests Strong, Recurrent Selective Sweeps in Drosophila
More

Tags: JRI, ABC, sweeps

Tishkoff et al. 2009

Fri May 29 2009
The Genetic Structure and History of Africans and African AmericansMore

Tags: JRI, structure, human

Joyce and Marjoram 2008

Fri May 22 2009
Approximately sufficient statistics and bayesian computation.
More

Tags: ABC, JRI, Modeling, Methods

Flint and Mackay 2009

Fri May 15 2009
Genetic architecture of quantitative traits in mice, flies, and humans
More

Tags: review, JRI, Drosophila, human

Nosil 2009

Tue Apr 14 2009
ADAPTIVE POPULATION DIVERGENCE IN CRYPTIC COLOR-PATTERN FOLLOWING A REDUCTION IN GENE FLOW
More

Tags: JRI, adaptation, speciation

Zardoya and Meyer 1998

Tue Apr 07 2009
Complete mitochondrial genome suggests diapsid affinities of turtlesMore

Tags: MRM, phylogenetics

Maron et al. 2009

Wed Apr 01 2009
Clinical Outcome and Phenotypic Expression in LAMP2 CardiomyopathMore

Tags: JRI, phylogenetics

Hyten et al. 2006

Tue Mar 31 2009
Impacts of genetic bottlenecks on soybean genome diversity
More

Tags: JRI, demographic water, domestication

Wang et al. 2009

Tue Mar 24 2009
SNP deserts of Asian cultivated rice: genomic regions under domesticationMore

Tags: JRI, rice, genome scan, domestication

Li et al. 2008

Tue Mar 17 2009
An ancestral turtle from the Late Triassic of southwestern China
More

Tags: MRM, fossils

Paterson et al. 2009

Tue Mar 17 2009
The Sorghum bicolor genome and the diversification of grasses More

Tags: JRI, genomics

Kim et al. 2008

Mon Mar 09 2009
Regulatory Genes Control a Key Morphological and Ecological Trait Transferred Between Species
More

Tags: JRI, speciation

Maynard Smith and Price 1973

Mon Mar 02 2009
The Logic of Animal Conflict
More

Tags: theory

Boitard et al. 2009

Thu Feb 26 2009
Detecting Selective Sweeps: A New Approach Based on Hidden Markov ModelsMore

Tags: JvH, genome scan, Methods

Moyle et al. 2009

Mon Feb 23 2009
Explosive Pleistocene diversification and hemispheric expansion of a “great speciator”

More

Tags: JRI, speciation, phylogenetics

Patterson et al. 2006

Thu Feb 19 2009
Population Structure and EigenanalysisMore

Tags: JvH, structure, Methods, theory

Payne et al. 2004

Mon Feb 16 2009
Large Perturbations of the Carbon Cycle During Recovery from the End-Permian ExtinctionMore

Tags: MRM, fossils

Bouchez et al. 2002

Tue Feb 10 2009
Marker-Assisted Introgression of Favorable Alleles at Quantitative Trait Loci Between Maize Elite LinesMore

Tags: JRI, Maize, association

Bilkard et al 2009

Mon Feb 09 2009
Divergent Evolution of Duplicate Genes Leads to Genetic Incompatibilities Within A. thaliana More

Tags: JRI, speciation, Arabidopsis

Cartwright 2009

Thu Feb 05 2009
Antagonism between local dispersal and self-incompatibility systems in a continuous plant population

More

Tags: JRI, structure

Briggs et al. 2007

Tue Feb 03 2009
Linkage Mapping of Domestication Loci in a Large Maize–Teosinte Backcross Resource
More

Tags: JRI, Maize, association

Ward et al. 2009

Mon Feb 02 2009
Abrupt and Gradual Extinction Among Late Permian Land Vertebrates in the Karoo Basin, South AfricaMore

Tags: MRM, fossils

Vigouroux et al. 2008

Thu Jan 29 2009
Population structure and genetic diversity of New World maize races assessed by DNA microsatellites
More

Tags: JRI, Maize, structure, phylogeography

Saishho and Purugganan 2007

Tue Jan 27 2009
Molecular Phylogeography of Domesticated Barley Traces Expansion of Agriculture in the Old WorldMore

Tags: JRI, phylogeography, domestication

Felsenstein 1985

Mon Jan 26 2009
Phylogenies and the Comparative Method
More

Tags: JRI, phylogenetics, theory, Methods

Foll and Gaggiotti 2008

Thu Jan 22 2009
A Genome-Scan Method to Identify Selected Loci Appropriate for Both Dominant and Codominant Markers: A Bayesian Perspective
More

Tags: JRI, structure, genome scan, Methods

Namroud et al. 2008

Tue Jan 20 2009
Scanning the genome for gene single nucleotide polymorphisms involved in adaptive population differentiation in white spruce
More

Tags: JRI, genome scan, adaptation

Payne et al. 2009

Mon Jan 19 2009
Two-phase increase in the maximum size of life over 3.5 billion years reflects biological innovation and environmental opportunity
More

Tags: MRM, fossils

Miller et al. 2004

Mon Jan 12 2009
Sequencing the nuclear genome of the extinct woolly mammothMore

Tags: JRI, aDNA, genomics

Weber et al. 2008

Thu Jan 08 2009
The Genetic Architecture of Complex Traits in Teosinte (Zea mays ssp. parviglumis): New Evidence From Association Mapping
More

Tags: JRI, Maize

Sepkoski 1997

Mon Jan 05 2009
Rates of speciation in the fossil record
More

Tags: MRM, extinction, sampling, fossils

Le Thierry d'Ennequin et al 1999

Thu Dec 18 2008
Plant domestication: a model for studying the evolution of linkageMore

Tags: JvH, Modeling

Payne and Finnegan 2007

Mon Dec 08 2008
The effect of geographic range on extinction risk during background and mass extinction
More

Tags: extinction, MRM, fossils

Ma et al. 2006

Mon Dec 01 2008
Genetic Structure and Evolutionary History of a Diploid Hybrid Pine Pinus densata Inferred from the Nucleotide Variation at Seven Gene Loci More

Tags: JRI, speciation

Signor and Lipps 1982

Tue Nov 25 2008
Sampling bias, gradual extinction patterns ad catastrophes in the fossil record.
More

Tags: MRM, sampling, fossils

Sjodin et al 2005

Mon Nov 17 2008
On the meaning and existence of an effective population size
More

Tags: JRI, theory

Peters 2008

Mon Nov 10 2008
Environmental determinants of extinction selectivity in the fossil record
More

Tags: extinction, JRI, fossils

Peters and Foote 2002

Mon Nov 10 2008
Determinants of extinction in the fossil record
More

Tags: extinction, MRM, sampling, fossils

Organ et al 2007

Mon Nov 03 2008
Origin of avian genome size and structure in non-avian dinosaurs
More

Tags: JRI, phylogenetics

Organ and Shedlock 20008

Mon Oct 27 2008
Palaeogenomics of pterosaurs and the evolution of small genome size in flying vertebrates
More

Tags: phylogenetics, MRM

Raff 2007

Mon Oct 20 2008
Written in stone: fossils, genes and evo–devo
More

Tags: phylogenetics, review, JRI, fossils

Sahney and Benton 2008

Mon Oct 13 2008
Recovery from the most profound mass extinction of all time
More

Tags: extinction, MRM, fossils

Axelsson et al. 2008

Mon Oct 06 2008
The Effect of Ancient DNA Damage on Inferences of Demographic HistoriesMore

Tags: Modeling, JRI, aDNA

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