C.R.O.P is our weekly journal club for anyone interested in evolution. We meet on Thursdays at 4.00 pm at Theatercafe Filmdose for an open discussion about the weekly paper in a relaxed atmosphere.

Until further notice we will meet in the seminar room on the 4th floor of the Biocenter

Anybody is welcome to join us. The idea is that everyone reads the paper before and we dive directly in without formal presentation of the paper. If you would like to suggest a paper please email Markus.

November

Thursday November 24

Díaz-Valenzuela, et al preprint The role of non-additive gene action on gene expression variation in plant domestication

Thursday November 17

Pucker, et al preprint Evolutionary blocks to anthocyanin accumulation and the loss of an anthocyanin carrier protein in betalain-pigmented Caryophyllales

October

Thursday October 13

Muleta, et al 2022 The recent evolutionary rescue of a staple crop depended on over half a century of global germplasm exchange

Thursday October 6

Exposito-Alonso, et al 2022 Genetic diversity loss in the Anthropocene

September

Thursday September 29

Lopez-Valdivia, et al 2022 Gradual domestication of root traits in the earliest maize from Tehuacán

Thursday September 22

Todd, et al 2022 The genomic history and global expansion of domestic donkeys

Thursday September 15

Vourlaki, et al preprint Detection of Domestication Signals through the Analysis of the Full Distribution of Fitness Effects using Forward Simulations and Polygenic Adaptation

Thursday September 8

Buckley, et al 2022 Variation in intraspecific demography drives localised concordance but species-wide discordance in response to past climatic change

Thursday September 1

Bieker, et al 2022 Uncovering the genomic basis of an extraordinary plant invasion

August

Thursday August 25

Lian, et al 2022 The megabase-scale crossover landscape is largely independent of sequence divergence

July

Thursday July 28

Hu, et al preprint Allele-specific expression reveals multiple paths to highland adaptation in maize

June

Thursday June 23

Liao, et al 2022 The 3D architecture of the pepper genome and its relationship to function and evolution

Thursday June 9

Fu, et al 2022 Genome-wide analyses of introgression between two sympatric Asian oak species

Thursday June 2

Kivikoski, et al preprint Low heritability of crossover rate in wild sticklebacks

May

Thursday May 12

No C.R.O.P

Thursday May 5

Fulgione, et al 2022 Parallel reduction in flowering time from de novo mutations enable evolutionary rescue in colonizing lineages

April

Thursday April 28

Li, et al 2022 CsMYB1 integrates the regulation of trichome development and catechins biosynthesis in tea plant domestication

Thursday April 21

Liu, et al 2022 A transposon insertion drove the loss of natural seed shattering during foxtail millet domestication

Thursday April 14

Manuscript in progress (contact Markus for access)

Thursday April 7

Solares, et al preprint Insights into the domestication of avocado and potential genetic contributors to heterodichogamy

March

Thursday March 17

Wohns, et al 2022 A unified genealogy of modern and ancient genomes

Thursday March 10

no C.R.O.P

Thursday March 3

Kreiner, et al preprint Rapid adaptation and range expansion in response to agriculture over the last two centuries

February

Thursday February 17

Battlay, et al 2021 Pleiotropy drives repeatability in the genetic basis of adaptation

Thursday February 10

Novo, et al 2022 The estimates of effective population size based on linkage disequilibrium are virtually unaffected by natural selection

Thursday February 3

Monroe, et al 2022 Mutation bias reflects natural selection in Arabidopsis thaliana

January

Thursday January 27

Dahan-Meir, et al preprint The genetic structure of a wild wheat population has remained associated with microhabitats over 36 years

Thursday January 13

Cai et al 2021 Genomic analyses provide insights into spinach domestication and the genetic basis of agronomic traits

2021

December

Thursday December 9

Monnahan, et al, 2021 Predicting evolutionary change at the DNA level in a natural Mimulus population

Thursday December 2

Gibson, et al, 2021 Introgression shapes fruit color convergence in invasive Galápagos tomato

November

Thursday November 25

Wrightsman, et al, preprint Modeling chromatin state from sequence across angiosperms using recurrent convolutional neural networks

Thursday November 18

Naish, et al, 2021 The genetic and epigenetic landscape of the Arabidopsis centromeres

Thursday November 4

Ye, et al, 2021 Genomic evidence of human selection on Vavilovian mimicry

October

Thursday October 28

Grover, et al, preprint Dual domestication, diversity, and differential introgression in Old World cotton diploids

Thursday October 21

Fuentes et al, 2021 Domestication shapes recombination patterns in tomato

Thursday October 7

Tittes et al, preprint Not so local: the population genetics of convergent adaptation in maize and teosinte

September

Thursday September 30

Morales-Cruz et al, 2021 Introgression among North American wild grapes (Vitis) fuels biotic and abiotic adaptation

Thursday September 9

Hämälä et al, 2021 Genomic structural variants constrain and facilitate adaptation in natural populations of Theobroma cacao, the chocolate tree

Thursday September 2

Schaefer et al, 2021 An ancestral recombination graph of human, Neanderthal, and Denisovan genomes

August

Thursday August 26

Aguirre-Liguori et al, 2021 The evolutionary genomics of species’ responses to climate change

Thursday August 19

Sachdeva et al, preprint Genetic load and extinction in peripheral populations: the roles of migration, drift and demographic stochasticity

Thursday August 12

Katz et al., 2021 Genetic variation, environment and demography intersect to shape Arabidopsis defense metabolite variation across Europe

Thursday August 5

Milla and Osborne, 2021 Crop origins explain variation in global agricultural relevance

July

Thursday July 29

Todesco et al, preprint Genetic basis and dual adaptive role of floral pigmentation in sunflowers

Thursday July 22

Szukala et al, preprint Polygenic routes lead to parallel altitudinal adaptation in Heliosperma pusillum (Caryophyllaceae)

May

Thursday May 27

Ma et al 2021 A chromosome-level Amaranthu cruentus genome assembly highlights gene family evolution and biosynthetic gene clusters that may underpin the nutritional value of this traditional crop

Thursday May 20

Groen et al preprint Fitness costs and benefits of gene expression plasticity in rice under drought

Thursday May 6

Berdan et al 2021 Deleterious mutation accumulation and the long-term fate of chromosomal inversions

April

Thursday April 29

Chen et al preprint Portrait of a genus: the genetic diversity of Zea

Thursday April 15

Mabry et al preprint The Evolutionary History of Wild, Domesticated, and Feral Brassica oleracea (Brassicaceae)

Thursday April 8

Burban et al preprint Gene network simulations provide testable predictions for the molecular domestication syndrome

March

Thursday March 25

Zhong et al 2021 DNA methylation-linked chromatin accessibility affects genomic architecture in Arabidopsis

Thursday March 18

Huang et al 2020 Genotype by environment interaction for gene expression in Drosophila melanogaster

Thursday March 11

MGM2021

Thursday March 4

Meyer et al 2012 Patterns and processes in crop domestication: an historical review and quantitative analysis of 203 global food crops

February

Thursday Febraury 25

Crouse et al 2020 Inferring the Allelic Series at QTL in Multiparental Populations

Thursday Febraury 18

Lovell et al 2021 Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass

Thursday Febraury 11

Liu et al 2021 Genomic basis of geographical adaptation to soil nitrogen in rice

Thursday Febraury 4

Shirsekar et al preprint Fine-scale Population Structure of North American Arabidopsis thaliana Reveals Multiple Sources of Introduction from Across Eurasia

January

Thursday January 28

Migicovsky et al 2021 Genomic consequences of apple improvement

Thursday January 21

Desbiez-Piat et al preprint Interplay between high-drift and high-selection limits the genetic load in small selfing maize populations

Thursday January 14

Kistler et al 2020 Archaeological Central American maize genomes suggest ancient gene flow from South America

2020

December

Thursday December 10

Pérez-Escobar et al, preprint Archaeogenomics of a ~2,100-year-old Egyptian leaf provides a new timestamp on date palm domestication

Thursday December 3

James et al, preprint A framework to quantify phenotypic and genotypic parallel evolution

November

Thursday November 26

Mooney et al, preprint The impact of identity-by-descent on fitness and disease in natural and domesticated Canid populations

Thursday November 19

Zhang et al, preprint Evolution of the genetic architecture of local adaptations under genetic rescue is determined by mutational load and polygenicity

Thursday November 12

Mayer et al, 2020 Discovery of beneficial haplotypes for complex traits in maize landraces

Thursday November 5

Tusso et al, preprint Experimental evolution of adaptive divergence under varying degrees of gene flow

October

Thursday October 29

Zhou et al 2020 Triticum population sequencing provides insights into wheat adaptation

Thursday October 22

No meeting!
Barton and Keightley 2002 Understanding quantitative genetic variation

Thursday October 15

No meeting!
Purugganan 2019 Evolutionary Insights into the Nature of Plant Domestication

Thursday October 8

Kreiner et al preprint The genetic architecture and genomic context of glyphosate resistance

Thursday October 1

Le Corre et al. 2020 Adaptive introgression from maize has facilitated the establishment of teosinte as a noxious weed in Europe

September

Thursday September 24

Vianna et al. 2020 Genome-wide analyses reveal drivers of penguin diversification

Thursday September 17

Alonge et al. 2020 Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato

Thursday September 10

Muyle, preprint Investigation Gene body methylation is under selection in Arabidopsis thaliana

Thursday September 3

Dreissig et al 2020 Natural variation in meiotic recombination rate shapes introgression patterns in intraspecific hybrids between wild and domesticated barley

July

Thursday July 16

Zhang et al 2020 The Impact of Recessive Deleterious Variation on Signals of Adaptive Introgression in Human Populations

Thursday July 9

Choi and Purugganan preprint Telomere lengths in plants are correlated with flowering time variation

Thursday July 2

Razifrad et al 2020 Genomic Evidence for Complex Domestication History of the Cultivated Tomato in Latin America

June

Thursday June 18

Leder et al 2014 The Evolution and Adaptive Potential of Transcriptional Variation in Sticklebacks—Signatures of Selection and Widespread Heritability

Thursday June 4

Voichek and Weigel 2020 Identifying genetic variants underlying phenotypic variation in plants without complete genomes

May

Thursday May 28

Gutaker et al. 2020 Genomic history and ecology of the geographic spread of rice

Thursday May 21

Holiday

Thursday May 14

Molin et al. 2020 The eccDNA Replicon: A Heritable, Extra-Nuclear Vehicle that Enables Gene Amplification and Glyphosate Resistance in Amaranthus palmeri

Thursday May 7

Mathieson and Scally 2020 What is ancestry?

March

Thursday March 19

No C.R.O.P.

Thursday March 12

Vasseur et al. 2020 Nonlinear phenotypic variation uncovers the emergence of heterosis in Arabidopsis thaliana

Thursday March 5

Price et al. 2020 In the presence of population structure: From genomics to candidate genes underlying local adaptation

February

Thursday February 27

Groen et al. 2020 The strength and pattern of natural selection on gene expression in rice

Thursday February 20

No C.R.O.P - Carnaval

Thursday February 12

Albers and McVean 2020 Dating genomic variants and shared ancestry in population-scale sequencing data

Thursday February 6

Baduel et al. 2019 Relaxed purifying selection in autopolyploids drives transposable element over-accumulation which provides variants for local adaptation

January

Thursday January 30

Gilbert et al. 2020 Transition from Background Selection to Associative Overdominance Promotes Diversity in Regions of Low Recombination

2019

December

Thursday December 12

Dreissig et al. 2019 Variation in Recombination Rate Is Shaped by Domestication and Environmental Conditions in Barley

Thursday December 5

No C.R.O.P

November

Thursday November 28

No C.R.O.P

Thursday November 21

Lu et al 2019 The prevalence, evolution and chromatin signatures of plant regulatory elements

Thursday November 14

Ostevik et al preprint Asymmetric gene flow causes cascading reproductive isolation

Thursday November 7

Wisser et al 2019 The Genomic Basis for Short-Term Evolution of Environmental Adaptation in Maize

October

Thursday October 31

Grossen et al preprint Accumulation and purging of deleterious mutations through severe bottlenecks in ibex

Thursday October 24

Samuk et al preprint Natural selection shapes variation in genome-wide recombination rate in Drosophila pseudoobscura

Thursday October 17

Rojas-Barrera et al 2019 Contemporary evolution of maize landraces and their wild relatives influenced by gene flow with modern maize varieties

Thursday October 10

Todesco et al preprint Massive haplotypes underlie ecotypic differentiation in sunflowers

Thursday October 3

Holiday - No C.R.O.P

September

Thursday September 26

No C.R.O.P

Thursday September 19

No C.R.O.P

Thursday September 12

Exposito-Alonso et al 2019 Natural selection on the Arabidopsis thaliana genome in present and future climates

Thursday September 5

Mattila et al 2019 Impact of demography on linked selection in two outcrossing Brassicaceae species

August

Thursday August 29

Yang et al 2019 The genetic architecture of teosinte catalyzed and constrained maize domestication

Thursday August 22

Christodoulaki et al preprint Distance to trait optimum is a crucial factor determining the genomic signature of polygenic adaptation

Thursday August 15

Rougemont et al preprint Demographic history, linked selection, and recombination shape the genomic landscape of a broadly distributed Pacific salmon.

Thursday August 8

Therkildsen et al 2019 Contrasting genomic shifts underlie parallel phenotypic evolution in response to fishing

Thursday August 1

Apuli et al preprint Constructing a high-density linkage map to infer the genomic landscape of recombination rate variation in European Aspen (Populus tremula)

July

Thursday July 25

Hermisson and Pennings 2017 Soft sweeps and beyond: understanding the patterns and probabilities of selection footprints under rapid adaptation

Thursday July 18

Gutaker et al 2019 The origins and adaptation of European potatoes reconstructed from historical genomes

Thursday July 11

Moest et al preprint Classic and introgressed selective sweeps shape mimicry loci across a butterfly adaptive radiation

Thursday July 4

Marin et al preprint Evolutionary inference from QST-FST comparisons: disentangling local adaptation from altitudinal gradient selection in snapdragon plants

June

Thursday June 27

Oziolor et al 2019 Adaptive introgression enables evolutionary rescue from extreme environmental pollution

Thursday June 20

Holiday

Thursday June 13

Marand et al 2019 Historical Meiotic Crossover Hotspots Fueled Patterns of Evolutionary Divergence in Rice

Thursday June 6

Stankowski et al preprint Widespread selection and gene flow shape the genomic landscape during a radiation of monkeyflowers

May

We took a little break to set up the lab and find a place

April

Thursday April 18

Roessler et al preprint The Genomics of Selfing in Maize (Zea mays ssp. mays): Catching Purging in the Act

Thursday April 4

Xue et al preprint Hybrid decay: a transgenerational epigenetic decline in vigor and viability triggered in backcross populations of teosinte with maize

March

Thursday March 28

Athanasiadis et al preprint Estimating narrow-sense heritability from genome-wide data in admixed populations

Thursday March 21

Marand et al 2019 Residual Heterozygosity and Epistatic Interactions Underlie the Complex Genetic Architecture of Yield in Diploid Potato

Thursday March 14

Break

Thursday March 7

Buffalo and Coop preprint The Linked Selection Signature of Rapid Adaptation in Temporal Genomic Data

February

Thursday February 28

Mackintosh, et al preprint The determinants of genetic diversity in butterflies - Lewontin’s paradox revisited

Thursday February 21

Haenel, et al 2018 Meta‐analysis of chromosome‐scale crossover rate variation in eukaryotes and its significance to evolutionary genomics

Thursday February 14

Yeaman, et al 2018 Quantifying how constraints limit the diversity of viable routes to adaptation

Thursday February 7

Chen, et al 2019 Allele frequency dynamics in a pedigreed natural population

January

Thursday January 31

Albert, et al 2019 Whole-chromosome paints in maize reveal rearrangements, nuclear domains, and chromosomal relationships

Thursday January 24

Ashander, et al preprint Demographic inference in a spatially-explicit ecological model from genomic data: a proof of concept for the Mojave Desert Tortoise

Thursday January 17

Chen, et al 2018 Allele frequency dynamics in a pedigreed natural population

Thursday January 10

Schwarzkopf, et al preprint Genetic differentiation and intrinsic genomic features explain variation in recombination hotspots among cocoa tree populations

Thursday January 3

Kistler et al 2018 Multiproxy evidence highlights a complex evolutionary legacy of maize in South America

2018

December

Thursday December 27

Kreiner et al preprint Multiple modes of convergent adaptation in the spread of glyphosate-resistant Amaranthus tuberculatus

Thursday December 20

Shah et al preprint Extreme genetic signatures of local adaptation during plant colonization

Thursday December 13

Weng et al 2018 Fine-Grained Analysis of Spontaneous Mutation Spectrum and Frequency in Arabidopsis thaliana

Thursday December 6

Mieulet et al. 2018 Unleashing meiotic crossovers in crops

November

Thursday November 29

Kelleher et al preprint Inferring the ancestry of everyone

© Markus Stetter 2020 Impressum