Aktuelle wissenschaftliche Publikationen

2024

Castellani, M., Zhang, M., Thangavel, G., Mata-Sucre, Y., Lux, T., Campoy, J. A., Marek, M., Huettel, B., Sun, H., Mayer, K. F. X, Schneeberger, K., Marques, A. (2024). Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning. Nature Plants. doi:10.1038/s41477-024-01625-y. open access

Emonet A, Perez-Anton M, Neumann U, Dunemann S, Huettel B, Koller R, Hay A: Amphicarpic development in the emerging model organism Cardamine chenopodiifolia. bioRxiv 2024, doi: 10.1101/2024.01.26.577352 . open access

Emonet A, Awad M, Tikhomirov N, Vasilarou M, Perez-Anton M, Gan X, Novikova P, Hay A: Polyploid genome assembly of Cardamine chenopodiifolia. bioRxiv 2024, doi: 10.1101/2024.01.24.576990. open access

Entila, F., Han, X., Mine, A., Schulze-Lefert, P., & Tsuda, K. (2024). Commensal lifestyle regulated by a negative feedback loop between Arabidopsis ROS and the bacterial T2SS. Nature Communications, 15(1): 456. doi:10.1038/s41467-024-44724-2. open access

Li, X.-M., Jenke, H., Strauss, S., Bazakos, C., Mosca, G., Lymbouridou, R., Kierzkowski, D., Neumann, U., Naik, P., Huijser, P., Laurent, S., Smith, R. S., Runions, A., Tsiantis, M., (2024). Cell-cycle-linked growth reprogramming encodes developmental time into leaf morphogenesis. Current Biology, 34(3), 541-556.e515. doi:10.1016/j.cub.2023.12.050. open access

Locci F, Parker JE*. 2024. Plant NLR immunity activation and execution: a biochemical perspective. Open Biology 14:230387, doi: 10.1098/rsob.230387. open access

Mosca G, Eng RC, Adibi M, Yoshida S, Lane B, Bergheim L, Weber G, Smith RS, Hay A: Growth and tension in explosive fruit. Current Biology 2024, doi 10.1016/j.cub.2024.01.059. open access

Schmitz, G., Linstädter, A., Frank, A. S. K., Dittberner, H., Thome, J., Schrader, A., Linne von Berg, K.-H., Fulgione, A., Coupland, G., & de Meaux, J. (2024). Environmental filtering of life-history trait diversity in urban populations of Arabidopsis thaliana. Journal of Ecology 112, 14–27. doi: 10.1111/tpj.16345. open access

 

2023

Ai, H., Bellstaedt, J., Bartusch, K. S., Eschen-Lippold, L., Babben, S., Balcke, G. U., Tissier, A., Hause, B., Andersen, T. G., Delker, C., & Quint, M. (2023). Auxin-dependent regulation of cell division rates governs root thermomorphogenesis. The EMBO Journal, 42(11): e111926. doi:10.15252/embj.2022111926. open access

Arlt, C., Wachtmeister, T., Koehrer, K., & Stich, B. (2023). Affordable, accurate and unbiased RNA sequencing by manual library miniaturization: A case study in barley. Plant Biotechnology Journal, 21(11), 2241-2253. doi:10.1111/pbi.14126. open access

Awad, M., Gan, X. GALA: a computational framework for de novo chromosome-by-chromosome assembly with long reads. Nat Commun 14, 204 (2023). https://doi.org/10.1038/s41467-022-35670-y.  open access

Basak AK, Piasecka A, Hucklenbroich J, Türksoy GM, Guan R, Zhang P, Getzke F, Garrido-Oter R, Hacquard S, Strzalka K, Bednarek P, Yamada K, Nakano RT. (2023) ER body-resident myrosinases and tryptophan specialized metabolism modulate root microbiota assembly. New Phytol. doi: 10.1111/nph.19289. open access

Baumgarten, L., Pieper, B., Song, B., Mane, S., Lempe, J., Lamb, J., Cooke, E. L., Srivastava, R., Struett, S., Zanko, D., Casimiro, P. G. P., Hallab, A., Cartolano, M., Tattersall, A. D., Huettel, B., Filatov, D. A., Pavlidis, P., Neuffer, B., Bazakos, C., Schaefer, H., Mott, R., Gan, X., Alonso-Blanco, C., Laurent, S., & Tsiantis, M. (2023). Pan-European study of genotypes and phenotypes in the Arabidopsis relative Cardamine hirsuta reveals how adaptation, demography, and development shape diversity patterns. PLoS Biology, 21(7): e3002191. doi:10.1371/journal.pbio.3002191. open access

Bhatia, N., Wilson-Sanchez, D., Strauss, S., Vuolo, F., Pieper, B., Hu, Z., Rambaud-Lavigne, L., & Tsiantis, M. (2023). Interspersed expression of CUP-SHAPED COTYLEDON2 and REDUCED COMPLEXITY shapes Cardamine hirsuta complex leaf form. Current Biology. doi:10.1016/j.cub.2023.06.037. open access

Bock, D. G., Liu, J., Novikova, P. Y., & Rieseberg, L. H. (2023). Long-read sequencing in ecology and evolution: Understanding how complex genetic and epigenetic variants shape biodiversity. Molecular Ecology, 32, 1229-1235. doi:10.1111/mec.16884. open access

Brazel, A. J., Fattorini, R., McCarthy, J., Franzen, R., Ruempler, F., Coupland, G., & O'Maoiléidigh, D. S. (2023). AGAMOUS mediates timing of guard cell formation during gynoecium development. PLoS Genetics, 19(10): e1011000. doi:10.1371/journal.pgen.1011000. open access

Campos Martin, R., Schmickler, S., Goel, M., Schneeberger, K., & Tresch, A. (2023). Reliable genotyping of recombinant genomes using a robust hidden Markov model. Plant Physiology, 192(2), 821-836. doi:10.1093/plphys/kiad191.

Cao, Y., Kümmel, F., Logemann, E., Gebauer, J. M., Lawson, A. W., Yu, D., Uthoff, M., Keller, B., Jirschitzka, J., Baumann, U., Tsuda, K., Chai, J., Schulze-Lefert, P. (2023) Structural polymorphisms within a common powdery mildew effector scaffold as a driver of co-evolution with cereal immune receptors, PNAS 120 (32) e2307604120. open access 

Castellani, M., Zhang, M., Thangavel, G., Sucre, Y. M., Lux, T., Campoy, J. A., Marek, M., Huettel, B., Sun, H., Mayer, K. F. X., Schneeberger, K., Marques, A. (2023) Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning. bioRxiv 2023.04.28.538594; doi: 10.1101/2023.04.28.538594. open access 

Castro N., Y. Mata-Sucre, J. Carvalho-Sobrinho, Marques, A., R. T. De Queiroz, Souza, G. (2023) Genomic stability in Cenostigma Tul., (Caesalpinioideae, Fabaceae): causes and consequences. Botanical Journal of the Linnean Society boad043. https://doi.org/10.1093/botlinnean/boad043. open access 

Cerise, M., Falavigna, V. S., Rodríguez-Maroto, G., Signol, A., Severing, E., Gao, H., van Driel, A.,Vincent, C., Wilkens, S., Iacobini, F., Formosa-Jordan, P., Pajoro, A., Coupland, G., (2023). Two modes of gene regulation by TFL1 mediate its dual function in flowering time and shoot determinacy of Arabidopsis. Development 150(23):dev202089, doi:10.1242/dev.202089. open access 

Chai J, Song W, Parker JE. 2023. New biochemical principles for NLR immunity in plants. Mol. Plant-Microbe Interact. 36: 468-475, doi: 10.1094/MPMI-05-23-0073-HH. open access 

Costa, L., Marques, A., Buddenhagen, C. E., Pedrosa-Harand, A., & Souza, G. (2023). Investigating the diversification of holocentromeric satellite DNA Tyba in Rhynchospora (Cyperaceae). Annals of Botany, 131(5), 813-825. doi:10.1093/aob/mcad036. open access

Crean, E. E., Bilstein-Schloemer, M., Maekawa, T., Schulze-Lefert, P., Saur, I. M. L. 2023. A dominant-negative avirulence effector of the barley powdery mildew fungus provides mechanistic insight to barley MLA immune receptor activation. Journal of Experimental Botany 74 (18): 5854–5869, doi: 10.1093/jxb/erad285. open access 

Cullen, E., Wang, Q., & Glover, B. J. (2023). How do you build a nectar spur? A transcriptomic comparison of nectar spur development in Linaria vulgaris and gibba development in Antirrhinum majus. Frontiers in Plant Science, 14: 1190373. doi:10.3389/fpls.2023.1190373. open access

Elfarargi, A.F., Gilbault, E., Döring, N., Neto, C., Fulgione, A., Weber, A.P.M., Loudet, O., Hancock, A.M. Genomic basis of adaptation to a novel precipitation regime. Molecular Biology and Evolution, 40(3) 2023, doi: doi.org/10.1093/molbev/msad031. open access

Escudero, M.,  Marques, A.,  Lucek, K., &  Hipp, A. L. (2023).  Genomic hotspots of chromosome rearrangements explain conserved synteny despite high rates of chromosome evolution in a holocentric lineage. Molecular Ecology, doi: 10.1111/mec.17086. open access

Feehan JM, Wang J, Sun X, Choi J, Ahn HK, Ngou BP, Parker JE, Jones JD. 2023. Oligomerization of a plant helper NLR requires cell-surface and intracellular immune receptor activation. Proc. Natl. Acad. Sci. USA 120 (11): e2210406120, doi: 10.1073/pnas.2210406120. open access

Foerderer, A., & Chai, J. (2023). Die another day: phytosulfokine at the molecular trade-off between growth and defense in plants. The EMBO Journal, 42(6): e113540. doi:10.15252/embj.2023113540

Formosa-Jordan, P., Holloway, D. M., & Diambra, L. (2023). Editorial: Pattern formation in biology. Frontiers in Physics, 11: 1161890. doi:10.3389/fphy.2023.1161890. open access

Formosa-Jordan, P. and Landrein, B. (2023) Quantifying gene expression domains in plant shoot apical meristems. In: Riechmann JL, Ferrandiz C (eds) Flower Development: Methods and Protocols. Methods in Molecular Biology, Second Edi, doi: 10.1007/978-1-0716-3299-4_25.  

Frommer, B., Muellner, S., Holtgraewe, D., Viehoever, P., Huettel, B., Toepfer, R., Weisshaar, B., & Zyprian, E. (2023). Phased grapevine genome sequence of an Rpv12 carrier for biotechnological exploration of resistance to Plasmopara viticola. Frontiers in Plant Science, 14: 1180982. doi:10.3389/fpls.2023.1180982. open access

Gebhardt, C. (2023). A physical map of traits of agronomic importance based on potato and tomato genome sequences. Frontiers in Genetics, 14: 1197206. doi:10.3389/fgene.2023.1197206. open access

Getzke F, Hassani MA, Crüsemann M, Malisic M, Zhang P, Ishigaki Y, Böhringer N, Jiménez Fernández A, Wang L, Ordon J, Ma K-W, Thiergart T, Harbort CJ, Wesseler H, Miyauchi S, Garrido-Oter R, Shirasu K, Schäberle TF, Hacquard S*, Schulze-Lefert P*. (2023) Co-functioning of bacterial exometabolites drives root microbiota establishment. PNAS, 120 (15):e2221508120, doi: 10.1073/pnas.2221508120. *co-corresponding authors. open access

Giaume, F., Bono, G. A., Martignago, D., Miao, Y., Vicentini, G., Toriba, T., Wang, R., Kong, D., Cerise, M., Chirivi, D., Biancucci, M., Khahani, B., Morandini, P., Tameling, W., Martinotti, M., Goretti, D., Coupland, G., Kater, M., Brambilla, V., Miki, D., Kyozuka, J., & Fornara, F. (2023). Two florigens and a florigen-like protein form a triple regulatory module at the shoot apical meristem to promote reproductive transitions in rice. Nature Plants, 9(4), 525-534. doi:10.1038/s41477-023-01383-3. open access

Griebel T, Lapin D, Locci F, Kracher B, Bautor J, Concia L, Benhamed M, Parker JE*. 2023. Arabidopsis Topless-related 1 mitigates physiological damage and growth penalties of induced immunity. New Phytologist. doi: 10.1111/nph.19054. open access

Hartwig, T., Banf, M., Passaia Prietsch, G., Zhu, J.-Y., Mora-Ramírez, I., Schippers, J. H. M., Snodgrass, S. J., Seetharam, A. S., Huettel, B., Kolkman, J. M., Yang, J., Engelhorn, J., Wang, Z.-W.: Hybrid allele-specific ChIP-seq analysis identifies variation in brassinosteroid-responsive transcription factor binding linked to traits in maize. Genome Biology 2023. doi: 10.1186/s13059-023-02909-w. open access

Johanndrees, O., Baggs, E. L., Uhlmann, C., Locci, F., Laessle, H., Melkonian, K., Käufer, K., Dongus, J. A., Nakagami, H., Krasileva, K. V., Parker, J. E.*, & Lapin, D*. (2023). Variation in plant Toll/Interleukin-1 receptor domain protein dependence on ENHANCED DISEASE SUSCEPTIBILITY 1. Plant Physiology, 191: 626-642, kiac480, doi:10.1093/plphys/kiac480.  open access

Kolesnikova, U. K., Scott, A. D., Van den Velde, J. D., Burns, R., Tikhomirov, N. P., Pfordt, U., Clarke, A. C., Yant, L., Seregin, A. P., Vekemans, X., Laurent, S., & Novikova, P. Y. (2023). Transition to Self-compatibility Associated With Dominant S-allele in a Diploid Siberian Progenitor of Allotetraploid Arabidopsis kamchatica Revealed by Arabidopsis lyrata Genomes. Molecular Biology & Evolution, 40(7): msad122. doi:10.1093/molbev/msad122. open access

Kuo, Y.-T, Souza Câmara, A., Schubert, V., Neumann, P., Macas, J., Melzer, M., Chen, J., Fuchs, J., Abel, S., Klocke, E., Huettel, B., Himmelbach, A., Demidov, D., Dunemann, F., Mascher, M., Ishii, T., Marques, A., Houben, A. (2023) Holocentromeres can consist of merely a few megabase-sized satellite arrays. Nature Communications 14, 3502, doi: 10.1038/s41467-023-38922-7. open access

Kusch, S., Qian, J., Loos, A., Kümmel, F., Spanu, P. D., & Panstruga, R. (2023). Long-term and rapid evolution in powdery mildew fungi. Molecular Ecology. doi:10.1111/mec.16909.

Lian, Q., Maestroni, L., Gaudin, M., Llorente, B., & Mercier, R. (2023). Meiotic recombination is confirmed to be unusually high in the fission yeast Schizosaccharomyces pombe. iScience, 26(9): 107614. doi:10.1016/j.isci.2023.107614. open access

Locci F, Wang J, Parker JE*. 2023. TIR-domain enzymatic activities at the heart of plant immunity. Curr. Opin. Plant Biol. 74:102373, doi: 10.1016/j.pbi.2023.102373. open access 

Mahlandt, A., Singh, D. K., & Mercier, R. (2023). Engineering apomixis in crops. Theoretical and Applied Genetics, 136(6): 131. doi:10.1007/s00122-023-04357-3. open access

Marques, D. N., Mason, C., Stolze, S. C., Harzen, A., Nakagami, H., Skirycz, A., Piotto, F. A., & Antunes Azevedo, R. (2023). Grafting systems for plant cadmium research: Insights for basic plant physiology and applied mitigation. Science of the Total Environment, 892: 164610. doi:10.1016/j.scitotenv.2023.164610.

Martignago, D., da Silveira Falavigna, V., Lombardi, A., Gao, H., Kurkowski, P. K., Galbiati, M., Tonelli, C., Coupland, G., & Conti, L. (2023). The bZIP transcription factor AREB3 mediates FT signalling and floral transition at the Arabidopsis shoot apical meristem. PLoS Genetics, 19(5): e1010766. doi:10.1371/journal.pgen.1010766. open access

Mata-Sucre Y., W. Matzenauer, N. M. Souza Castro, B. Huettel, A. Pedrosa-Harand, Marques, A., Souza, G. (2023). Repeat-based phylogenomics shed light on unclear relationships in the monocentric genus Juncus L. (Juncaceae). Molecular Phylogenetics and Evolution 107930. doi: 10.1016/j.ympev.2023.107930.

Mesny F, Hacquard S, Thomma BPHJ. (2023) Co-evolution within the plant holobiont drives host performance. EMBO reports 24 (9), e57455. open access

Mueller, Y., Patwari, P., Stoecker, T., Zeisler-Diehl, V., Steiner, U., Campoli, C., Grewe, L., Kuczkowska, M., Dierig, M. M., Jose, S., Hetherington, A. M., Acosta, I. F., Schoof, H., Schreiber, L., & Doermann, P. (2023). Isolation and characterization of the gene HvFAR1 encoding acyl-CoA reductase from the cer-za.227 mutant of barley (Hordeum vulgare) and analysis of the cuticular barrier functions. New Phytologist, 239(5), 1903-1918. doi:10.1111/nph.19063. open access

Myers, Z. A., Wootan, C. M., Liang, Z., Zhou, P., Engelhorn, J., Hartwig, T., & Nathan, S. M. (2023). Conserved and variable heat stress responses of the Heat Shock Factor transcription factor family in maize and Setaria viridis. Plant Direct, 7(4): e489. doi:10.1002/pld3.489. open access

Neto, C., & Hancock, A. (2023). Genetic Architecture of Flowering Time Differs Between Populations With Contrasting Demographic and Selective Histories. Molecular Biology and Evolution, 40(8): msad185. doi:10.1093/molbev/msad185. open access

Nishikawa, M., Katsu, K., Koinuma, H., Hashimoto, M., Neriya, Y., Matsuyama, J., Yamamoto, T., Suzuki, M., Matsumoto, O., Matsui, H., Nakagami, H., Maejima, K., Namba, S., & Yamaji, Y. (2023). Interaction of EXA1 and eIF4E Family Members Facilitates Potexvirus Infection in Arabidopsis thaliana. Journal of Virology. doi:10.1128/jvi.00221-23.

Ordon, J., Kiel, N., Becker, D., Kretschmer, C., Schulze-Lefert, P., & Stuttmann, J. (2023). Targeted gene deletion with SpCas9 and multiple guide RNAs in Arabidopsis thaliana: four are better than two. Plant Methods, 19(1): 30,  doi:10.1186/s13007-023-01010-4. open access

Prautsch, J., Erickson, J. L., Oezyuerek, S., Gormanns, R., Franke, L., Lu, Y., Marx, J., Niemeyer, F., Parker, J. E., Stuttmann, J., & Schattat, M. H. (2023). Effector XopQ-induced stromule formation in Nicotiana benthamiana depends on ETI signaling components ADR1 and NRG1. Plant Physiology, 191: 161-176, doi:10.1093/plphys/kiac481.

Russell, N. J., Schaare, H. L., Bellón Lara, B., Dang, Y., Feldmeier-Krause, A., Meemken, M.-T., & Oliveira-Lopes, F. N. (2023). Max Planck PostdocNet Survey Report 2022. doi:10.17617/2.3507886.

Saul, F., Scharmann, M., Wakatake, T. et al. (2023) Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis. Nat. Plants, doi: 10.1038/s41477-023-01562-2. open access

Shi, W., Stolze, S. C., Nakagami, H., Misas Villamil, J. C., Saur, I. M. L., & Doehlemann, G. (2023). Combination of in vivo proximity labeling and co-immunoprecipitation identifies the host target network of a tumor-inducing effector in the fungal maize pathogen Ustilago maydis. Journal of Experimental Botany, 74(15), 4736-4750. doi:10.1093/jxb/erad188. open access

Singh, D. K., Lian, Q., Durand, S., Fernandes, J. B., Chambon, A., Hurel, A., Walkemeier, B., Solier, V., Kumar, R., & Mercier, R. (2023). HEIP1 is required for efficient meiotic crossover implementation and is conserved from plants to humans. Proceedings of the National Academy of Sciences of the United States of America, 120(23): e2221746120. doi:10.1073/pnas.2221746120. open access

Srivastava, R., Bazakos, C., Tsachaki, M., Zanko, D., Kalantidis, K., Tsiantis, M., et al. (2023). Genealogical Analyses of 3 Cultivated and 1 Wild Specimen of Vitis vinifera from Greece. Genome Biology and Evolution, 15(12): evad226. doi:10.1093/gbe/evad226. open access

Thangavel, G., Hofstatter, P.G., Mercier, R., Marques A. Tracing the evolution of the plant meiotic molecular machinery. Plant Reproduction (2023), doi: 10.1007/s00497-022-00456-1. open access

Vannier, N., Mesny, F., Getzke, F., Chesneau, G., Dethier, L., Ordon, J., Thiergart, T., Hacquard, S. (2023) Genome-resolved metatranscriptomics 1 reveals conserved root colonization determinants in a synthetic microbiota. Nature Communications 14:8271, doi: 10.1038/s41467-023-43688-z. open access

Wang, Y., & Underwood, C. J. (2023). The Apomixis. Current Biology, 33(8). doi:10.3109/00207454.201.

Wanke, A., van Boerdonk, S., Mahdi, L. K., Wawra, S., Neidert, M., Chandrasekar, B., et al. (2023). A GH81-type β-glucan-binding protein enhances colonization by mutualistic fungi in barley. Current Biology, 33(23), 5071-5084.e7. doi:10.1016/j.cub.2023.10.048. open access

Weisweiler, M., & Stich, B. (2023). Benchmarking of structural variant detection in the tetraploid potato genome using linked-read sequencing. Genomics, 115(2): 110568. doi:10.1016/j.ygeno.2023.110568. open access

Wu, P., Stich, B., Renner, J., Muders, K., Prigge, V., & van Inghelandt, D. (2023). Optimal implementation of genomic selection in clone breeding programs-Exemplified in potato: I. Effect of selection strategy, implementation stage, and selection intensity on short-term genetic gain. The Plant Genome, 16(2): e20327. doi:10.1002/tpg2.20327.  open access

Wu, Y., Sun, Y., Richet, E., Han, Z., & Chai, J. (2023). Structural basis for negative regulation of the Escherichia coli maltose system. Nature Communications, 14(1): 4925. doi:10.1038/s41467-023-40447-y. open access

Wunder, J., Fulgione, A., Toraeng, P., Woetzel, S., Herzog, M., Obeso, J. R., Kourmpetis, Y., van Ham, R., Odong, T., Bink, M., Kemi, U., Agren, J., & Coupland, G. (2023). Adaptation of perennial flowering phenology across the European range of Arabis alpina. Proceedings of the Royal Society of London Series B, 290(2011): 20231401, doi:10.1098/rspb.2023.1401.

Yotsui et al., LysM-mediated signaling in Marchantia polymorpha highlights the conservation of pattern-triggered immunity in land plants, Current Biology (2023), doi: 10.1016/j.cub.2023.07.068. open access

Zeng Y, Zheng Z, Hessler G, Zou K, Bautor J, Stuttmann J, Xue L, Parker JE, Cui H. 2023. Arabidopsis PAD4 promotes the maturation and nuclear accumulation of immune-related cysteine protease RD19. J. Exp. Bot. doi.org/10.1093/jxb/erad454. open access

 

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