The analysis of polyploid genetic data

PG Meirmans, S Liu, PH van Tienderen - Journal of Heredity, 2018 - academic.oup.com
Though polyploidy is an important aspect of the evolutionary genetics of both plants and
animals, the development of population genetic theory of polyploids has seriously lagged …

Beyond the thale: comparative genomics and genetics of Arabidopsis relatives

D Koenig, D Weigel - Nature Reviews Genetics, 2015 - nature.com
For decades a small number of model species have rightly occupied a privileged position in
laboratory experiments, but it is becoming increasingly clear that our knowledge of biology is …

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

T Slotte, KM Hazzouri, JA Ågren, D Koenig, F Maumus… - Nature …, 2013 - nature.com
The shift from outcrossing to selfing is common in flowering plants,, but the genomic
consequences and the speed at which they emerge remain poorly understood. An excellent …

Long-term balancing selection drives evolution of immunity genes in Capsella

D Koenig, J Hagmann, R Li, F Bemm, T Slotte… - Elife, 2019 - elifesciences.org
Genetic drift is expected to remove polymorphism from populations over long periods of
time, with the rate of polymorphism loss being accelerated when species experience strong …

Evidence for Widespread Positive and Negative Selection in Coding and Conserved Noncoding Regions of Capsella grandiflora

RJ Williamson, EB Josephs, AE Platts… - PLoS …, 2014 - journals.plos.org
The extent that both positive and negative selection vary across different portions of plant
genomes remains poorly understood. Here, we sequence whole genomes of 13 Capsella …

EggLib: processing, analysis and simulation tools for population genetics and genomics

S De Mita, M Siol - BMC genetics, 2012 - Springer
Background With the considerable growth of available nucleotide sequence data over the
last decade, integrated and flexible analytical tools have become a necessity. In particular …

Association mapping reveals the role of purifying selection in the maintenance of genomic variation in gene expression

EB Josephs, YW Lee… - Proceedings of the …, 2015 - National Acad Sciences
The evolutionary forces that maintain genetic variation in quantitative traits within
populations remain poorly understood. One hypothesis suggests that variation is under …

Paternally expressed imprinted genes associate with hybridization barriers in Capsella

C Lafon-Placette, MR Hatorangan, KA Steige… - Nature plants, 2018 - nature.com
Hybrid seed lethality is a widespread type of reproductive barrier among angiosperm taxa,
that contributes to species divergence by preventing gene flow between natural …

Rapid evolution of genomic imprinting in two species of the Brassicaceae

MR Hatorangan, B Laenen, KA Steige, T Slotte… - The Plant …, 2016 - academic.oup.com
Genomic imprinting is an epigenetic phenomenon occurring in mammals and flowering
plants that causes genes to adopt a parent-of-origin-specific mode of expression. While the …

Genomic Identification of Founding Haplotypes Reveals the History of the Selfing Species Capsella rubella

Y Brandvain, T Slotte, KM Hazzouri, SI Wright… - PLoS …, 2013 - journals.plos.org
The shift from outcrossing to self-fertilization is among the most common evolutionary
transitions in flowering plants. Until recently, however, a genome-wide view of this transition …