Publications of K. Schneeberger

Journal Article (80)

2015
Journal Article
Gutjahr, C.; Gobbato, E.; Choi, J.; Riemann, M.; Johnston, M. G.; Summers, W.; Carbonnel, S.; Mansfield, C.; Yang, S.-Y.; Nadal, M. et al.; Acosta, I.; Takano, M.; Jiao, W.-B.; Schneeberger, K.; Kelly, K. A.; Paszkowski, U.: Rice perception of symbiotic arbuscular mycorrhizal fungi requires the karrikin receptor complex. Science Magazine 350 (6267), pp. 1521 - 1524 (2015)
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Hagmann, J.; Becker, C.; Mueller, J.; Stegle, O.; Meyer, R. C.; Wang, G.; Schneeberger, K.; Fitz, J.; Altmann, T.; Bergelson, J. et al.; Borgwardt, K.; Weigel, D.: Century-scale Methylome Stability in a Recently Diverged Arabidopsis thaliana Lineage. PLOS GENETICS 11 (1), e1004920 (2015)
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Liang, S.C.; Hartwig, B.; Perera, P.; Mora-Garcia, S.; de Leau, E.; Thornton, H.; Lima de Alves, F.; Rapsilber, J.; Yang, S.; James, G. V. et al.; Schneeberger, K.; Finnegan, E. J.; Turck, F.; Goodrich, J.: Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2. PLoS Genetics 11 (12), e1005660 (2015)
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Lu, X.; Dittgen, J.; Pislewska-Bednarek, M.; Molina, A.; Schneider, B.; Svatos, A.; Doubsky, J.; Schneeberger, K.; Weigel, D.; Bednarek, P. et al.; Schulze-Lefert, P.: Mutant allele-specific uncoupling of PEN3 functions reveals engagement of the ABC transporter in distinct tryptophan metabolic pathways. Plant Physiology 168, pp. 814 - 827 (2015)
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Mateos, J. L.; Madrigal, P.; Tsuda, K.; Rawat, V.; Rawat, V.; Richter, R.; Romera Branchat, M.; Fornara, F.; Schneeberger, K.; Krajewski, P. et al.; Coupland, G.: Combinatorial activities of SHORT VEGETATIVE PHASE and FLOWERING LOCUS C define distinct modes of flowering regulation in Arabidopsis. Genome Biology 16, 31 (2015)
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Rowan, B. A.; Patel, V.; Weigel, D.; Schneeberger, K.: Rapid and Inexpensive Whole-Genome Genotyping-by-Sequencing for Crossover Localization and Fine-Scale Genetic Mapping. G3-GENES GENOMES GENETICS 5 (3), pp. 385 - 398 (2015)
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Sun, H.-Q.; Schneeberger, K.: SHOREmap v3.0: fast and accurate identification of causal mutations from forward genetic screens. Methods in molecular biology (Clifton, N.J.) 1284, pp. 381 - 95 (2015)
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Willing, E.-M.; Rawat, V.; Mandakova, T.; Maumus, F.; James, G. V.; Nordstroem, K.; Becker, C.; Warthmann, N.; Chica, C.; Szarzynska, B. et al.; Zytnicki, M.; Albani, M.; Kiefer, C.; Bergonzi, S.; Castaings, L.; Mateos, J. L.; Berns, M. C.; Bujdoso, N.; Piofczyk, T. P.; de Lorenzo, L.; Barrero-Sicilia, C.; Mateos, I.; Piednoel, M.; Hagmann, J.; Chen-Min-Tao, R.; Iglesias-Fernandez, R.; Schuster, S. C.; Alonso-Blanco, C.; Roudier, F.; Carbonero, P.; Paz-Ares, J.; Davis, S. J.; Pecinka, A.; Quesneville, H.; Colot, V.; Lysak, M. A.; Weigel, D.; Coupland, G.; Schneeberger, K.: Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation. Nature Plants 1 (2), UNSP 14023, pp. 1 - 7 (2015)
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2014
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Bolger, A.; Scossa, F.; Bolger, M. E.; Lanz, C.; Maumus, F.; Tohge, T.; Quesneville, H.; Alseekh, S.; Sorensen, I.; Lichtenstein, G. et al.; Fich, E. A.; Conte, M.; Keller, H.; Schneeberger, K.; Schwacke, R.; Ofner, I.; Vrebalov, J.; Xu, Y.; Osorio, S.; Aflitos, S. A.; Schijlen, E.; Jimenez-Gomez, J. M.; Ryngajllo, M.; Kimura, S.; Kumar, R.; Koenig, D.; Headland, L. R.; Maloof, J. N.; Sinha, N.; van Ham, R. C. H. J.; Lankhorst, R. K.; Mao, L.; Vogel, A.; Arsova, B.; Panstruga, R.; Fei, Z.; Rose, J. K. C.; Zamir, D.; Carrari, F. F.; Giovannoni, J. J.; Weigel, D.; Usadel, B.; Fernie, A. R.: The genome of the stress-tolerant wild tomato species Solanum pennellii. Nature Reviews Genetics 46 (9), pp. 1034 - 1038 (2014)
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Delker, C.; Sonntag, L.; James, G. V.; Janitza, P.; Ibanez, C.; Ziermann, H.; Peterson, T.; Denk, K.; Mull, S.; Ziegler, J. et al.; Davis, S. J.; Schneeberger, K.; Quint, M.: The DET1-COP1-HY5 Pathway Constitutes a Multipurpose Signaling Module Regulating Plant Photomorphogenesis and Thermomorphogenesis. Cell Reports 9 (6), pp. 1983 - 1989 (2014)
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Dettmer, J.; Ursache, R.; Campilho, A.; Miyashima, S.; Belevich, I.; O'Regan, S.; Mullendore, D. L.; Yadav, S. R.; Lanz, C.; Beverina, L. et al.; Papagni, A.; Schneeberger, K.; Weigel, D.; Stierhof, Y.-D.; Moritz, T.; Knoblauch, M.; Jokitalo, E.; Helariutta, Y.: CHOLINE TRANSPORTER-LIKE1 is required for sieve plate development to mediate long-distance cell-to-cell communication. Nature Communications 5, 4276 (2014)
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Juraniec, M.; Lequeux, H.; Hermans, C.; Willems, G.; Nordborg, M.; Schneeberger, K.; Salis, P.; Vromant, M.; Lutts, S.; Verbruggen, N.: Towards the discovery of novel genetic component involved in stress resistance in Arabidopsis thaliana. New Phytologist 201 (3), pp. 810 - 824 (2014)
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Kalhorzadeh, P.; Hu, Z.; Cools, T.; Amiard, S.; Willing, E.-M.; De Winne, N.; Gevaert, K.; De Jaeger, G.; Schneeberger, K.; White, C. I. et al.; De Veylder, L.: Arabidopsis thaliana RNase H2 Deficiency Counteracts the Needs for the WEE1 Checkpoint Kinase but Triggers Genome Instability. The Plant Cell 26 (9), pp. 3680 - 3692 (2014)
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Pankin, A.; Campoli, C.; Dong, X.; Kilian, B.; Sharma, R.; Himmelbach, A.; Saini, R.; Davis, S. J.; Stein, N.; Schneeberger, K. et al.; von Korff, M.: Mapping-by-Sequencing Identifies HvPHYTOCHROME C as a Candidate Gene for the early maturity 5 Locus Modulating the Circadian Clock and Photoperiodic Flowering in Barley. Genetics 198 (1), pp. 383 - 396 (2014)
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Rishmawi, L.; Sun, H.; Schneeberger, K.; Huelskamp, M.; Schrader, A.: Rapid Identification of a Natural Knockout Allele of ARMADILLO REPEAT-CONTAINING KINESIN1 That Causes Root Hair Branching by Mapping-By-Sequencing. Plant Physiology 166 (3), pp. 1280 - 1287 (2014)
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Schneeberger, K.: Using next-generation sequencing to isolate mutant genes from forward genetic screens. Nature Reviews Genetics 15 (10), pp. 662 - 676 (2014)
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Zee, P. C.; Mendes-Soares, H.; Yu, Y.-T. N.; Kraemer, S. A.; Keller, H.; Ossowski, S.; Schneeberger, K.; Velicer, G. J.: A SHIFT FROM MAGNITUDE TO SIGN EPISTASIS DURING ADAPTIVE EVOLUTION OF A BACTERIAL SOCIAL TRAIT. EVOLUTION 68 (9), pp. 2701 - 2708 (2014)
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2013
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Bergonzi, S.; Albani, M.; Ver Loren van Themaat, E.; Nordstroem, K.; Wang, R.; Schneeberger, K.; Moerland, P. D.; Coupland, G.: Mechanisms of Age-Dependent Response to Winter Temperature in Perennial Flowering of Arabis alpina. Science 340 (6136), pp. 1094 - 1097 (2013)
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James, G. V.; Patel, V.; Nordstroem, K.; Klasen, J. R.; Salome, P. A.; Weigel, D.; Schneeberger, K.: User guide for mapping-by-sequencing in Arabidopsis. Genome Biology: Biology for the Post-Genomic Era 14 (6), R61 (2013)
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Koenig, D.; Jimenez-Gomez, J. M.; Kimura, S.; Fulop, D.; Chitwood, D. H.; Headland, L. R.; Kumar, R.; Covington, M. F.; Devisetty, U. K.; Tat, A. V. et al.; Tohge, T.; Bolger, A.; Schneeberger, K.; Ossowski, S.; Lanz, C.; Xiong, G.; Taylor-Teeples, M.; Brady, S. M.; Pauly, M.; Weigel, D.; Usadel, B.; Fernie, A. R.; Peng, J.; Sinha, N. R.; Maloof, J. N.: Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERLICA 110 (28), pp. E2655 - E2662 (2013)
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Kopischke, M.; Westphal, L.; Schneeberger, K.; Clark, R.; Ossowski, S.; Wewer, V.; Fuchs, R.; Landtag, J.; Hause, G.; Doermann, P. et al.; Lipka, V.; Weigel, D.; Schulze-Lefert, P.; Scheel, D.; Rosahl, S.: Impaired sterol ester synthesis alters the response of Arabidopsis thaliana to Phytophthora infestans. The Plant Journal 73 (3), pp. 456 - 468 (2013)
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Logemann, E.; Birkenbihl, R.; Rawat, V.; Schneeberger, K.; Schmelzer, E.; Somssich, I. E.: Functional dissection of the PROPEP2 and PROPEP3 promoters reveals the importance of WRKY factors in mediating microbe-associated molecular pattern-induced expression. New Phytologist 198 (4), pp. 1165 - 1177 (2013)
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Nordstroem, K.; Albani, M.; James, G. V.; Gutjahr, C.; Hartwig, B.; Turck, F.; Paszkowski, U.; Coupland, G.; Schneeberger, K.: Mutation identification by direct comparison of whole-genome sequencing data from mutant and wild-type individuals using k-mers. Nature biotechnology 31 (4), pp. 325 - 330 (2013)
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Wijnker, E.; James, G. V.; Ding, J.; Becker, F.; Klasen, J. R.; Rawat, V.; Rowan, B. A.; de Jong, D. F.; de Snoo, C. B.; Zapata, L. et al.; Huettel, B.; de Jong, H.; Ossowski, S.; Weigel, D.; Koornneef, M.; Keurentjes, J. J. B.; Schneeberger, K.: The genomic landscape of meiotic crossovers and gene conversions in Arabidopsis thaliana. ELIFE 2, e01426 (2013)
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2012
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Galvao, V. C.; Nordstroem, K.; Lanz, C.; Sulz, P.; Mathieu, J.; Pose, D.; Schmid, M.; Weigel, D.; Schneeberger, K.: Synteny-based mapping-by-sequencing enabled by targeted enrichment. The Plant Journal 71 (3), pp. 517 - 526 (2012)
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Hartwig, B.; James, G. V.; Konrad, K.; Schneeberger, K.; Turck, F.: Fast Isogenic Mapping-by-Sequencing of Ethyl Methanesulfonate-Induced Mutant Bulks. Plant Physiology 160 (2), pp. 591 - 600 (2012)
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Rutter, M. T.; Roles, A.; Conner, J. K.; Shaw, R. G.; Shaw, F. H.; Schneeberger, K.; Ossowski, S.; Weigel, D.; Fenster, C. B.: Fitness of Arabidopsis thaliana mutation accumulation lines whose spontaneous mutations are known. Evolution 66 (7), pp. 2335 - 2339 (2012)
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Todesco, M.; Balasubramanian, S.; Cao, J.; Ott, F.; Sureshkumar, S.; Schneeberger, K.; Meyer, R. C.; Altmann, T.; Weigel, D.: Natural Variation in Biogenesis Efficiency of Individual Arabidopsis thaliana MicroRNAs. Current Biology 22 (2), pp. 166 - 170 (2012)
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2011
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Cao, J.; Schneeberger, K.; Ossowski, S.; Guenther, T.; Bender, S.; Fitz, J.; Koenig, D.; Lanz, C.; Stegle, O.; Lippert, C. et al.; Wang, X.; Ott, F.; Mueller, J.; Alonso-Blanco, C.; Borgwardt, K.; Schmid, K.; Weigel, D.: Whole-genome sequencing of multiple Arabidopsis thaliana populations. NATURE GENETICS 43 (10), pp. 956 - U60 (2011)
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Klein, J. D.; Ossowski, S.; Schneeberger, K.; Weigel, D.; Huson, D. H.: LOCAS - A Low Coverage Assembly Tool for Resequencing Projects. PLOS ONE 6 (8), 10.1371/journal.pone.0023455 (2011)
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Book Chapter (1)

2023
Book Chapter
Sun, H.-Q.; Campoy, J. A.; Schneeberger, K.: Gamete Binning to Achieve Haplotype-Resolved Genome Assembly. In: Methods in Molecular Biology, Vol. 2590, pp. 201 - 218. Springer (2023)
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