Publications of D Weigel

Du, K.; Deusch, O.; Bezrukov, I.; Lanz, C.; Guiguen, Y.; Hoffmann, M.; Habring, A.; Weigel, D.; Schartl, M.; Dreyer, C.: Identification of the male-specific region on the guppy Y Chromosome from a haplotype-resolved assembly. Genome Research Epub ahead (2025)

Wang, H.; Caetano-Andrade, V.; Boivin, N.; da Silva Costa, F.; Weigel, D.; Roberts, P.: Long-term human influence on the demography and genetic diversity of the hyperdominant Bertholletia excelsa in the Amazon Basin. Current Biology 35 (3), pp. 629 - 639 (2025)

Mencia, R.; Arce, A.; Houriet, C.; Xian, W.; Contreras, A.; Shirsekar, G.; Weigel, D.; Manavella, P.: Transposon-triggered epigenetic chromatin dynamics modulate EFR-related pathogen response. Nature Structural & Molecular Biology 32 (1), pp. 199 - 211 (2025)

Xian, W.; Bezrukov, I.; Bao, Z.; Vorbrugg, S.; Gautam, A.; Weigel, D.: TIPPo: A User-Friendly Tool for De Novo Assembly of Organellar Genomes with High-Fidelity Data. Molecular Biology and Evolution 42 (1), msae247 (2025)

Vasseur, F.; Baldrich, P.; Jiménez-Góngora, T.; Villar-Martin, L.; Weigel, D.; Rubio-Somoza, I.: miR472 deficiency enhances Arabidopsis thaliana defense without reducing seed production. Molecular Plant-Microbe Interactions 37 (12), pp. 819 - 827 (2024)

Vorbrugg, S.; Bezrukov, I.; Bao, Z.; Weigel, D.: Gretl: Variation GRaph Evaluation TooLkit. Bioinformatics 41 (1), btae755 (2024)

Garrison, E.; Guarracino, A.; Heumos, S.; Villani, F.; Bao, Z.; Tattini, T.; Hagmann, J.; Vorbrugg, S.; Marco-Sola, S.; Kubica, C. et al.; Ashbrook, G.; Thorell, K.; Rusholme-Pilcher, R.; Liti, G.; Rudbeck, E.; Golicz, A.; Nahnsen, S.; Yang, Z.; Mwaniki, M.; Nobrega, F.; Wu, Y.; Chen, H.; de Ligt, J.; Sudmant, P.; Huang, S.; Weigel, D.; Soranzo, N.; Colonna, V.; Williams, R.; Prins, P.: Building pangenome graphs. Nature Methods 21 (11), pp. 2008 - 2012 (2024)

Karasov, T.; Neumann, M.; Leventhal, L.; Symeonidi, E.; Shirsekar, G.; Hawks, A.; Monroe, G.; Pathodopsis Team; Exposito-Alonso, M.; Borgelsen, J. et al.; Weigel, D.; Schwab, R.: Continental-scale associations of Arabidopsis thaliana phyllosphere members with host genotype and drought. Nature Microbiology 9 (10), pp. 2748 - 2758 (2024)

Sunil, S.; Beeh, S.; Stöbbe, E.; Fischer, K.; Wilhelm, F.; Meral, A.; Paris, C.; Teasdale, L.; Jiang, Z.; Zhang, L. et al.; Urban, M.; Aguilar Parras, E.; Nürnberger, T.; Weigel, D.; Lozano-Duran, R.; El Kasmi, F.: Activation of an atypical plant NLR with an N-terminal deletion initiates cell death at the vacuole. EMBO Reports 25 (10), pp. 4358 - 4386 (2024)

Voichek, Y.; Hristova, G.; Mollá-Morales, A.; Weigel, D.; Nordborg, M.: Widespread position-dependent transcriptional regulatory sequences in plants. Nature Genetics 56 (10), pp. 2238 - 2246 (2024)

Whiting, J.; Booker, T.; Rougeux , C.; Lind, B.; Singh, P.; Lu, M.; Huang, K.; Whitlock , M.; Aitken, S.; Andrew, R. et al.; Borevitz, J.; Bruhl, J.; Collins, T.; Fischer, M.; Hodgins, K.; Holliday, J.; Ingvarsson, P.; Janes, J.; Khandaker, M.; Koenig, D.; Kreiner, J.; Kremer, A.; Lascoux, M.; Leroy, T.; Milesi, P.; Murray, K.; Pyhäjärvi, T.; Rellstab, C.; Rieseberg, L.; Roux, F.; Stinchcombe, J.; Telford, I.; Todesco, M.; Tyrmi , J.; Wang, B.; Weigel, D.; Willi, Y.; Wright, S.; Zhou, L.; Yeaman, S.: The genetic architecture of repeated local adaptation to climate in distantly related plants. Nature Ecology & Evolution 8 (10), pp. 1933 - 1947 (2024)

Saarenpää, S.; Shalev, O.; Ashkenazy, H.; Carlos, V.; Lundberg, D.; Weigel, D.; Giacomello, S.: Spatial metatranscriptomics resolves host-bacteria-fungi interactomes. Nature Biotechnology 42 (9), pp. 1384 - 1393 (2024)

Tao, Y.; Xian, W.; Bao, Z.; Rabanal, F.; Movilli, A.; Lanz, C.; Shirsekar, G.; Weigel, D.: Atlas of telomeric repeat diversity in Arabidopsis thaliana. Genome Biology: Biology for the Post-Genomic Era 25 (1), 244 (2024)

Calderón, L.; Carbonell-Bejerano, P.; Muñoz, C.; Bree, L.; Sola, C.; Bergamin, D.; Tulle, W.; Gomez-Talquenca, S.; Lanz, C.; Royo, C. et al.; Ibáñez, J.; Martinez-Zapater, J.; Weigel, D.; Lijavetzky, D.: Diploid genome assembly of the Malbec grapevine cultivar enables haplotype-aware analysis of transcriptomic differences underlying clonal phenotypic variation. Horticulture Research 11 (5), uhae080 (2024)

Barragan, A.; Collenberg, M.; Schwab, R.; Kersten, S.; Kerstens, M.; Požárová, D.; Bezrukov, I.; Bemm, F.; Kolár, F.; Weigel, D.: Deleterious Phenotypes in Wild Arabidopsis arenosa Populations Are Common and Linked to Runs of Homozygosity. G3: Genes, Genomes, Genetics 14 (3), jkad290 (2024)

Murray, K.; Borevitz, J.; Weigel, D.; Warthmann, N.: Acanthophis: a comprehensive plant hologenomics pipeline. The Journal of Open Source Software (JOSS) 9 (95), 6062 (2024)

Contreras-Garrido, A.; Galanti, D.; Movilli, A.; Becker, C.; Bossdorf, O.; Drost, H.-G.; Weigel, D.: Transposon dynamics in the emerging oilseed crop Thlaspi arvense. PLOS Genetics 20 (1), e1011141 (2024)

Fernandes, J.; Naish, M.; Lian, Q.; Burns, R.; Tock, A.; Rabanal, F.; Wlodzimierz, P.; Habring, A.; Nicholas, R.; Weigel, D. et al.; Mercier, R.; Henderson, I.: Structural variation and DNA methylation shape the centromere-proximal meiotic crossover landscape in Arabidopsis. Genome Biology 25 (1), 30 (2024)

Chen, J.; Li, L.; Kim, J.; Neuhäuser, B.; Wang, M.; Thelen, M.; Hilleary, R.; Chi, Y.; Wei, L.; Venkataramani, K. et al.; Exposito-Alonso, M.; Liu, C.; Keck, J.; Barragan, A.; Schwab, R.; Lutz, U.; Pei, Z.-M.; He, S.-Y.; Ludewig, U.; Weigel, D.; Zhu, W.: Small proteins modulate ion-channel-like ACD6 to regulate immunity in Arabidopsis thaliana. Molecular Cell 83 (23), pp. 4386 - 4397 (2023)

Duque-Jaramillo, A.; Ulmer, N.; Alseekh, S.; Bezrukov, I.; Fernie, A.; Skirycz, A.; Karasov, T.; Weigel, D.: The genetic and physiological basis of Arabidopsis thaliana tolerance to Pseudomonas viridiflava. New Phytologist 240 (5), pp. 1961 - 1975 (2023)