Publications of D Koenig

Seymour, D.; Chae, E.; Arioz, B.; Koenig, D.; Weigel, D.: Transmission ratio distortion is frequent in Arabidopsis thaliana controlled crosses. Heredity 122 (3), pp. 294 - 304 (2019)

Koenig, D.; Hagmann, J.; Li, R.; Bemm, F.; Slotte, T.; Neuffer, B.; Wright, S.; Weigel, D.: Long-term balancing selection drives evolution of immunity genes in Capsella. eLife 8, e43606 (2019)

Seymour, D.; Chae, E.; Grimm, D.; Martín Pizarro, C.; Habring, A.; Vasseur, F.; Rakitsch, B.; Borgwardt, K.; Koenig, D.; Weigel, D.: Genetic architecture of nonadditive inheritance in Arabidopsis thaliana hybrids. Proceedings of the National Academy of Sciences of the United States of America 113 (46), pp. E7317 - E7326 (2016)

Steige, K.; Reimegård, J.; Koenig, D.; Scofield, D.; Slotte, T.: Cis-Regulatory Changes Associated with a Recent Mating System Shift and Floral Adaptation in Capsella. Molecular Biology and Evolution 32 (10), pp. 2501 - 2514 (2015)

Rawat, V.; Abdelsamad, A.; Pietzenuk, B.; Seymour, D.; Koenig, D.; Weigel, D.; Pecinka, A.; Schneeberger, K.: Improving the Annotation of Arabidopsis lyrata Using RNA-Seq Data. PLoS One 10 (9), e0137391 (2015)

Koenig, D.; Weigel, D.: Beyond the thale: comparative genomics and genetics of Arabidopsis relatives. Nature Reviews Genetics 16 (5), pp. 285 - 298 (2015)

Seymour, D.; Koenig, D.; Hagmann, J.; Becker, C.; Weigel, D.: Evolution of DNA methylation patterns in the Brassicaceae is driven by differences in genome organization. PLoS Genetics 10 (11), e1004785 (2014)

Agren, A.; Wang, W.; Koenig, D.; Neuffer, B.; Weigel, D.; Wright, S.: Mating system shifts and transposable element evolution in the plant genus Capsella. BMC Genomics 15, 602 (2014)

Koenig, D.; Jimenez-Gomez, J.; Kimura, S.; Fulop, D.; Chitwood, D.; Headland, L.; Kumar, R.; Covington, M.; Devisetty, U.; Tat, A. et al.; Tohge, T.; Bolger, A.; Schneeberger, K.; Ossowski, S.; Lanz, C.; Xiong, G.; Taylor-Teeples, M.; Brady, S.; Pauly, M.; Weigel, D.; Usadel, B.; Fernie, A.; Peng, J.; Sinha, N.; Maloof, J.: Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato. Proceedings of the National Academy of Sciences of the United States of America 110 (28), pp. E2655 - E2662 (2013)

Slotte, T.; Hazzouri, K.; Agren, J.; Koenig, D.; Maumus, F.; Guo, Y.-L.; Steige, K.; Platts, A.; Escobar, J.; Newman, K. et al.; Wang, W.; Mandáková, T.; Vello, E.; Smith, L.; Henz, S.; Steffen, J.; Takuno, S.; Brandvain, Y.; Coop, G.; Andolfatto, P.; Hu, T.; Blanchette, M.; Clark, R.; Quesneville, H.; Nordborg, M.; Gaut, B.; Lysak, M.; Jenkins, J.; Grimwood, J.; Chapman, J.; Prochnik, S.; Shu, S.; Rokhsar, D.; Schmutz, J.; Weigel, D.; Wright, S.: The Capsella rubella genome and the genomic consequences of rapid mating system evolution. Nature Genetics 45 (7), pp. 831 - 835 (2013)

Grimm, D.; Hagmann, J.; Koenig, D.; Weigel, D.; Borgwardt, K.: Accurate indel prediction using paired-end short reads. BMC Genomics 14, 132 (2013)

Manavella, P.; Koenig, D.; Rubio-Somoza, I.; Burbano, H.; Becker, C.; Weigel, D.: Tissue-specific silencing of Arabidopsis SU(VAR)3-9 HOMOLOG8 by miR171a. Plant Physiology 161 (2), pp. 805 - 812 (2013)

Manavella, P.; Koenig, D.; Weigel, D.: Plant secondary siRNA production determined by microRNA-duplex structure. Proceedings of the National Academy of Sciences of the United States of America 109 (7), pp. 2461 - 2466 (2012)

Becker, C.; Hagmann, J.; Müller, J.; Koenig, D.; Stegle, O.; Borgwardt, K.; Weigel, D.: Spontaneous epigenetic variation in the Arabidopsis thaliana methylome. Nature 480 (7376), pp. 245 - 249 (2011)

Cao, J.; Schneeberger, K.; Ossowski, S.; Günther, T.; Bender, S.; Fitz, J.; König, D.; Lanz, C.; Stegle, O.; Lippert, C. et al.; Wang, X.; Ott, F.; Müller, J.; Alonso-Blanco, C.; Borgwardt, K.; Schmid, K.; Weigel, D.: Whole-genome sequencing of multiple Arabidopsis thaliana populations. Nature Genetics 43 (10), pp. 956 - 963 (2011)

Rowan, B.; Weigel, D.; Koenig, D.: Developmental genetics and new sequencing technologies: the rise of nonmodel organisms. Developmental Cell 21 (1), pp. 65 - 76 (2011)

Koenig, D.; Wesse, C.; Exposito-Alonso, M.; Becker, C.; Neuffer, B.; Weigel, D.: Contrasting Recent, Continental Scale Invasions of the Americas by Arabidopsis thaliana and Capsella bursa-pastoris. In Plant & Animal Genome XXIV: Workshop Weedy and Invasive Plant Genomics, W989. Plant & Animal Genome XXIV: Workshop Weedy and Invasive Plant Genomics, San Diego, CA, USA, January 12, 2016. (2016)

Williamson, R.; Koenig, D.; Josephs, E.; Hazzouri, K.; Weigel, D.; Wright, S.: Quantifying the strength of positive & purifying selection across the whole genome of outcrossing & selfing Capsella species. In Evolution 2012. Evolution 2012: American Society of Naturalists, Canadian Society for Ecology and Evolution, European Society for Evolutionary Biology Society for the Study of Evolution, Society of Systematic Biologists, Ottawa, Canada, July 06, 2012 - July 10, 2012. (2012)

Wright, S.; Platts, A.; Haudry, A.; Williamson, R.; Hazzouri, K.; Vello, E.; Forczek, E.; Chantha, S.-C.; Joly, S.; Koenig, D. et al.; Mitchell-Olds, T.; Wing, R.; Weigel, D.; Schumaker, A.; Town, C.; Wang, X.; Schranz, W.; Pires, J.; Clark, R.; Steffen, J.; Toomajian, C.; Prochnik, S.; Jenkins, J.; Schmutz, J.; Rokhsar, D.; Harmsen, E.; Stinchcombe, J.; Harrison, P.; Bureau, T.; Schoen, D.; Moses, A.; Blanchette, M.: Comparative and Population Genomics in the Brassicaceae. In Plant & Animal Genome XX: Workshop Brassicas, W099. Plant & Animal Genome XX: Workshop Brassicas, San Diego, CA, USA, January 14, 2012. (2012)

Koenig, D.; Slotte, T.; Hagmann, J.; Neuffer, B.; Weigel, D.: Population genomic analysis of speciation and radiation in Capsella rubella. 13th Congress of the European Society for Evolutionary Biology (ESEB 2011), Tübingen, Germany (2011)