Aktuelle wissenschaftliche Publikationen

2022

Durán, P., Flores-Uribe, J., Wippel, K., Zhang, P., Guan, R., Melkonian, B., Melkonian, M., Garrido-Oter, R. (2022) Shared features and reciprocal complementation of the Chlamydomonas and Arabidopsis microbiota. Nature Communications 13, 406, doi: 10.1038/s41467-022-28055-8. open access

2021

Aecyo, P., Marques, A., Huettel, B., Silva, A., Esposito, T., Ribeiro, E., Leal, I., Gagnon, E., Souza, G., & Pedrosa-Harand, A. (2021). Plastome evolution in the Caesalpinia group (Leguminosae) and its application in phylogenomics and populations genetics. Planta, 254(2): 27. doi:10.1007/s00425-021-03655-8.

Andersen, T. G., Molina, D., Kilian, J., Franke, R. B., Ragni, L., & Geldner, N. (2021). Tissue-Autonomous Phenylpropanoid Production Is Essential for Establishment of Root Barriers. Current Biology, 31(5), 965-977.e. doi:10.1016/j.cub.2020.11.070. open access

Bauer S, Yu D, Lawson AW, Saur IML, Frantzeskakis L, Kracher B, et al. (2021) The leucine-rich repeats in allelic barley MLA immune receptors define specificity towards sequence-unrelated powdery mildew avirulence effectors with a predicted common RNase-like fold. PLoS Pathog 17(2): e1009223, doi: 10.1371/journal.ppat.1009223. open access

Bhatia, N., Runions, A., & Tsiantis, M. (2021). Leaf Shape Diversity: From Genetic Modules to Computational Models. Annual Review of Plant Biology 72, 325-356. doi:10.1146/annurev-arplant-080720-101613.

Bruessow F, Bautor J, Hoffmann G, Yildiz I, Zeier J, Parker JE (2021). Natural variation in temperature-modulated immunity uncovers transcription factor bHLH059 as a
thermoresponsive regulator in Arabidopsis thaliana. 2021. PLoS Genet 17: e1009290. https://doi.org/10.1371/journal.pgen.1009290. open access

Burns, R., Mandakova, T., Gunis, J., Soto-Jiménez, L. M., Liu, C., Lysak, M. A., Novikova, P. Y., & Nordborg, M. (2021). Gradual evolution of allopolyploidy in Arabidopsis suecica. Nature Ecology & Evolution. doi:10.1038/s41559-021-01525-w. open access

Capilla-Pérez,L., Durand, S., Hurel, A., Lian, Q., Chambon, A., Taochy, C., Solier, S., Grelon, M. and Mercier, R. (2021) The synaptonemal complex imposes crossover interference and heterochiasmy in Arabidopsis. PNAS 118 (12) e2023613118; doi: 10.1073/pnas.2023613118. open access

Chaudhry V, Runge P, Sengupta P, Doehlemann G, Parker JE, Kemen E. 2021. Shaping the leaf microbiota: plant-microbe-microbe interactions. J Exp Bot.72:36-56. doi:10.1093/jxb/eraa417. open access

Costa, L., Marques, A., Buddenhagen, C., Thomas, W. W., Huettel, B., Schubert, V., Dodsworth, S., Houben, A., Souza, G., & Pedrosa-Harand, A. (2021). Aiming off the target: recycling target capture sequencing reads for investigating repetitive DNA. Annals of Botany, mcab063. doi:10.1093/aob/mcab063.

Dongus JA and Parker JE. 2021. EDS1 signalling: At the nexus of intracellular and surface receptor immunity. Curr Opin Plant Biol. 66:102039. open access

Durán, P., Flores-Uribe, J., Wippel, K., Zhang, P., Guan, R., Garrido-Oter, R. (2021) Characterization of the Chlamydomonas reinhardtii phycosphere reveals conserved features of the plant microbiota. bioRxiv 2021.03.04.433956; doi: 10.1101/2021.03.04.433956. open access

Eitzen, K., Sengupta, P., Kroll, S., Kemen, E., & Doehlemann, G. (2021). A fungal member of the Arabidopsis thaliana phyllosphere antagonizes Albugo laibachii via a GH25 lysozyme. eLife 10: e65306. doi:10.7554/eLife.65306. open access

Emonet, A., Zhou, F., Vacheron, J., Heiman, C. M., Dénervaud Tendon, V., Ma, K.-W., Schulze-Lefert, P., Keel, C., Geldner, N. (2021) Spatially Restricted Immune Responses Are Required for Maintaining Root Meristematic Activity upon Detection of  Bacteria, Current Biology 31: 1012-1028.e7, doi: 10.1016/j.cub.2020.12.048. open access

Goektay, M., Fulgione, A., & Hancock, A. (2021). A New Catalog of Structural Variants in 1,301 A. thaliana Lines from Africa, Eurasia, and North America Reveals a Signature of Balancing Selection at Defense Response Genes. Molecular Biology and Evolution, 38(4), 1498-1511. doi:10.1093/molbev/msaa309. open access

Gol, L., Haraldsson, E. B., & von Korff, M. (2021). Ppd-H1 integrates drought stress signals to control spike development and flowering time in barley. Journal of Experimental Botany, Special Issue, 72(1), 122-136. doi:10.1093/jxb/eraa261. open access

Graf, J. S., Schorn, S., Kitzinger, K., Ahmerkamp, S., Woehle, C., Huettel, B., Schubert, C. J., Kuypers, M. M. M., & Milucka, J. (2021). Anaerobic endosymbiont generates energy for ciliate host by denitrification. Nature 591 (7850), 445-450. doi:10.1038/s41586-021-03297-6. open access

Hofstatter, P. G., Thangavel, G., Castellani, M., Marques, A. (2021) Meiosis Progression and Recombination in Holocentric Plants: What Is Known? Frontiers in Plant Science 12, 617. doi: 10.3389/fpls.2021.658296. open access

Holbein, J., Shen, D., & Andersen, T. G. (2021). The endodermal passage cell - just another brick in the wall? New Phytologist 4, 321-1328. doi:10.1111/nph.17182. open access

Hou, S., Thiergart, T., Vannier, N., Mesny, F., Ziegler, J., Pickel, B., Hacquard, S. (2021 )A microbiota–root–shoot circuit favours Arabidopsis growth over defence under suboptimal light. Nature Plants, doi: 10.1038/s41477-021-00956-4. open access

Hou S#, Wolinska KW#, Hacquard S (2021) Microbiota-root-shoot-environment axis and stress tolerance in plants. Current Opinion in Plant Biology 62, 102028. # joint first authors

Jiao, W.-B., Patel, V., Klasen, J. R., Liu, F., Pecinkova, P., Ferrand, M., Gy, I., Camilleri, C., Effgen, S., Koornneef, M., Pecinka, A., Loudet, O., & Schneeberger, K. (2021). The Evolutionary Dynamics of Genetic Incompatibilities Introduced by Duplicated Genes in Arabidopsis thaliana. Molecular Biology and Evolution, 38(4), 1225-1240. doi:10.1093/molbev/msaa306.  open access

Joshi, M., Kapopoulou, A., & Laurent, S. (2021). Impact of Genetic Variation in Gene Regulatory Sequences: A Population Genomics Perspective. Frontiers in Genetics, 12: 660899. doi:10.3389/fgene.2021.660899.

Kawaharada, Y., Sandal, N., Gupta, V., Jin, H., Kawaharada, M., Taniuchi, M., Ruman, H., Nadzieja, M., Andersen, K. R., Schneeberger, K., Stougaard, J., & Andersen, S. U. (2021). Natural variation identifies a Pxy gene controlling vascular organisation and formation of nodules and lateral roots in Lotus japonicus. New Phytologist. doi:10.1111/nph.17356. open access

Khouider, S., Borges, F., LeBlanc, C., Ungru, A., Schnittger, A., Martienssen, R., Colot, V., & Bouyer, D. (2021). Male fertility in Arabidopsis requires active DNA demethylation of genes that control pollen tube function. Nature Communications 12(1): 410. doi:10.1038/s41467-020-20606-1. open access

Koornneef, M. (2021). A Central Role for Genetics in Plant Biology. Annual Review of Plant Biology, 72, 1-16. doi:10.1146/annurev-arplant-071720-111039.

Kremer, J. M., Sohrabi, R., Paasch, B. C., Rhodes, D., Thireault,, C., Schulze-Lefert, P., Tiedje, J. M., He, S. Y. (2021) Peat-based gnotobiotic plant growth systems for Arabidopsis microbiome research. Nature Protocols 16, 2450–2470, doi: 10.1038/s41596-021-00504-6.

Loo, E., Tajima, Y., Yamada, K., Kido, S., Hirase, T., Ariga, H., Fujiwara, T., Tanaka, K., Taji, T., Somssich, I., Parker, J. E., & Saijo, Y. (2021). Recognition of microbe/damage-associated molecular patterns by leucine-rich repeat pattern recognition receptor kinases confers salt tolerance in plants. Molecular Plant-Microbe Interactions. doi: 10.1094/MPMI-07-21-0185-FI. open access

Ma, K.-W. *, Niu, Y., Yong, J*., Ordon, J. *, Copeland, C., Emonet, A., Geldner, N., Guan, R., Stolze, S. C., Nakagami, H., Garrido-Oter, R., Schulze-Lefert, P. Coordination of microbe-host homeostasis by crosstalk with plant innate immunity. Nature Plants, doi: 10.1038/s41477-021-00920-2. open access *contributed equally to this work  † corresponding authors

Madrid, E., Severing, E., de Ansorena, E., Kiefer, C., Brand, L., Martinez-Gallegos, R., Woetzel, S., Kemi, U., Jiao, W.-B., Schneeberger, K., Coupland, G. (2021) Transposition and duplication of MADS-domain transcription factor genes in annual and perennial Arabis species modulates flowering. PNAS, 181(39). e2109204118, doi: 10.1073/pnas.2109204118. open access

Mahdi, L., Miyauchi, S., Uhlmann, C., Garrido-Oter, R., Langen, G., Wawra, S., Niu, Y., Guan, R., Guan, R., Robertson-Albertyn, S., Bulgarelli, D., Parker, J. E., & Zuccaro, A. (2021). The fungal root endophyte Serendipita vermifera displays inter-kingdom synergistic beneficial effects with the microbiota in Arabidopsis thaliana and barley. The ISME Journal. doi:10.1038/s41396-021-01138-y. open access

Mataigne V, Vannier N, Vandenkoornhuyse P*, Hacquard S*. (2021) Microbial Systems Ecology to Understand Cross-Feeding in Microbiomes. Frontiers in Microbiology 12, 780469. *co-corresponding authors. open access

Mayer T, Mari A, Almario J, Murillo-Roos M, Abdullah M, Dombrowski N, Hacquard S, Kemen EM, Agler MT. Obtaining deeper insights into microbiome diversity using a simple method to block host and non-targets in amplicon sequencing. Molecular Ecology Resources 21, 1952-1965. open access

Mesny F, Miyauchi S, Thiergart T, Pickel B, Atanasova L, Karlsson M, Hüttel B, Barry KW, Haridas S, Chen C, Bauer D, Andreopoulos W, Pangilinan J, LaButti K, Riley R, Lipzen A, Clum A, Drula E, Henrissat B, Kohler A, Grigoriev IV, Martin FM*, Hacquard S*. (2021). Genetic determinants of endophytism in the Arabidopsis root mycobiome. Nature Communications 12, 7227. *co-corresponding authors open access

Monroe, J.G., McKay, J.K., Weigel, D, Flood, P. (2021) The population genomics of adaptive loss of function. Heredity 126, 383–395 (2021), doi: 10.1038/s41437-021-00403-2. open access

Ó’Maoiléidigh, D.S., van Driel, A.D., Singh, A., Sang, Q., Le Bec, N., Vincent, C., Garcia de Olalla, E.B., Vayssières, A., Romera-Branchat, M., Severing, E., Martinez-Gallegos, R., Coupland, G. (2021) Systematic analyses of the MIR172 family members of Arabidopsis define their distinct roles in regulation of APETALA2 during floral transition. PLoS Biology 19(2): e3001043, doi: 10.1371/journal.pbio.3001043. open access

Ökmen, B., Schwammbach, D., Bakkeren, G., Neumann, U., & Doehlemann, G. (2021). The Ustilago hordei-Barley Interaction is a Versatile System for Characterization of Fungal Effectors. Journal of Fungi 7(2): 86. doi:10.3390/jof7020086. open access

Parker, J., Hessler, G., & Cui, H. (2021). A new biochemistry connecting pathogen detection to induced defense in plants. New Phytologist. doi: 10.1111/nph.17924. open access

Paulisic, S., Qin, W., Veraszto, H. A., Then, C., Alary, B., Nogue, F., Tsiantis, M., Hothorn, M., & Martinez-Garcia, J. F. (2021). Adjustment of the PIF7-HFR1 transcriptional module activity controls plant shade adaptation. EMBO Journal 40: e104273. doi:10.15252/embj.2019104273. open access

Petrella, R., Cucinotta, M., Mendes, M. A., Underwood, C. J., & Colombo, L. (2021). The emerging role of small RNAs in ovule development, a kind of magic. Plant Reproduction. doi:10.1007/s00497-021-00421-4. open access

Pieper, R., Tomé, F., Pankin, A., & von Korff, M. (2021). FLOWERING LOCUS T4 delays flowering and decreases floret fertility in barley. Special Issue, 72(1), 107-121. doi:10.1093/jxb/eraa466. open access

Plesken, C., Pattar, P., Reiss, B., Noor, Z. N., Zhang, L., Klug, K., Huettel, B., & Hahn, M. (2021). Genetic Diversity of Botrytis cinerea Revealed by Multilocus Sequencing, and Identification of B. cinerea Populations Showing Genetic Isolation and Distinct Host Adaptation. Frontiers in Plant Science, 12: 663027. doi:10.3389/fpls.2021.663027. open access

Provart, N. J., Brady, S. M., Parry, G., Schmitz, R. J., Queitsch, C., Bonetta, D., Waese, J., Schneeberger, K., & Loraine, A. (2021). Anno genominis XX: 20 years of Arabidopsis genomics. The Plant Cell, 33(4), 832-845. doi:10.1093/plcell/koaa038.

Pruitt, R. N., Locci, F., Wanke, F., Zhang, L., Saile, S. C., Joe, A., Karelina, D., Hua, C., Fröhlich, K., Wan, W.-L., Hu, M., Rao, S., Stolze, S. C., Brautigam, A., Gust, A. A., Harter, K., Joosten, M. H. A. J., Thomma, B. P. H. J., Zhou, J.-M., Dangl, J. L., Weigel, D., Nakagami, H., Oecking, C., Kasmi, F. E., Parker, J. E., & Nürnberger, T. 2021. The EDS1–PAD4–ADR1 node mediates Arabidopsis pattern-triggered immunity. Nature. doi:10.1038/s41586-021-03829-0.

Sanagi, M., Aoyama, S., Kubo, A., Lu, Y., Sato, Y., Ito, S., Abe, M., Mitsuda, N., Ohme-Takagi, M., Kiba, T., Nakagami, H., Rolland, F., Yamaguchi, J., Imaizumi, T., & Sato, T. (2021). Low nitrogen conditions accelerate flowering by modulating the phosphorylation state of FLOWERING BHLH 4 in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America, 118(19): e2022942118. doi:10.1073/pnas.2022942118.

Saur, I.M.L., & Hueckelhoven, R. (2021). Recognition and defence of plant-infecting fungal pathogens. Journal of Plant Physiology, 256:153324. doi:10.1016/j.jplph.2020.153324.

Saur, I.M.L., Panstruga R., and Schulze-Lefert*, P. (2021) NOD-like receptor (NLR)-mediated plant immunity: from structure to cell death. Nature Reviews Immunology, 21, 305–318, DOI: 10.1038/s41577-020-00473-z.

Savadel, S. D., Hartwig, T., Turpin, Z. M., Vera, D. L., Lung, P. Y., Sui, X., Blank, M., Frommer, W. B., Dennis, J. H., Zhang, J., & Bass, H. W. (2021). The native cistrome and sequence motif families of the maize ear. PLoS Genetics, 17(8): e1009689. doi:10.1371/journal.pgen.1009689. open access

Schmitz RJ, Marand AP, Zhang X, Mosher RA, Turck F, Chen X, Axtell MJ, Zhong X, Brady SM, Megraw M, Meyers BC. (2021) Quality control and evaluation of plant epigenomics data. Plant Cell., doi: 10.1093/plcell/koab255. open access

Schneider, C., Woehle, C., Greve, C., D'Haese, C. A., Wolf, M., Hiller, M., Janke, A., Balint, M., & Huettel, B. (2021). Two high-quality de novo genomes from single ethanol-preserved specimens of tiny metazoans (Collembola). GigaScience, 10(5): giab035, pp. 1-12. doi:10.1093/gigascience/giab035. open access

Schrinner, S., Goel, M., Wulfert, M., Spohr, P., Schneeberger, K., & Klau, G. W. (2021). Using the longest run subsequence problem within homology-based scaffolding. Algorithms for Molecular Biology, 16(1): 11. doi:10.1186/s13015-021-00191-8. open access

Schütz, V., Frindte, K., Cui, J., Zhang, P., Hacquard, S., Schulze-Lefert, P., Knief, C., Schulz, M. and Dörmann, P. (2021) Differential Impact of Plant Secondary Metabolites on the Soil Microbiota. Frontiers in Microbiology 12: 1267, doi: 10.3389/fmicb.2021.666010  open access

Sergeeva, A., Liu, H., Mai, HJ., Mettler-Altmann, T., Kiefer, C., Coupland, G., and Bauer, P. (2021) Cytokinin-promoted secondary growth and nutrient storage in the perennial stem zone of Arabis alpina, Plant Journal, doi: 10.1111/tpj.15123. open access

Soppe W.J.J., Viñegra de la Torre N., Albani M.C. (2021) The diverse roles of FLOWERING LOCUS C in annual and perennial Brassicaceae species. Frontiers in Plant Sciences 12:627258, doi: 10.3389/fpls.2021.627258. open access

Sun, H., Jiao, W.-B., Krause, K., Campoy, J. A., Goel, M., Folz-Donahue, K., Kukat, C., Huettel, B., Schneeberger, K. (2021) Chromosome-scale and haplotype-resolved genome assembly of a tetraploid potato cultivar. bioRxiv 2021.05.15.444292, doi: 10.1101/2021.05.15.444292. open access

Sun, X., Lapin, D., Feehan, J. M., Stolze, S. C., Kramer, K., Dongus, J. A., Rzemieniewski, J., Blanvillain-Baufumé, S., Harzen, A., Bautor, J., Derbyshire, P., Menke, F. L. H. Finkemeier, I., Nakagami, H., Jones, J. D. G., Parker, J. E. (2021) Pathogen effector recognition-dependent association of NRG1 with EDS1 and SAG101 in TNL receptor immunity. Nature Communications 12: 3335  doi: 10.1038/s41467-021-23614-x. open access

Tian, H., Li, Y., Wang, C., Xu, X., Zhang, Y., Zeb, Q., Zicola, J., Fu, Y., Turck, F., Li, L., Lu, Z., Liu, L. (2021) Photoperiod-responsive changes in chromatin accessibility in phloem companion and epidermis cells of Arabidopsis leaves. The Plant Cell 33, 475-491, doi: 10.1093/plcell/koaa043, open access

Vijayan, A., Tofanelli, R., Strauß, S., Cerrone, L., Wolny, A., Strohmeier, J., Kreshuk, A., Hamprecht, F. A., Smith, R. S., & Schneitz, K. (2021). A digital 3D reference atlas reveals cellular growth patterns shaping the Arabidopsis ovule. eLife 10: e63262. doi:10.7554/eLife.63262. open access

Wang, Y., van Rengs, W. M. J., Zaidan, M. W. A., Underwood, C. J. (2021) Meiosis in crops: from genes to genomes. Journal of Experimental Botany, doi: 10.1093/jxb/erab217. open access

Wanke, A., Malisic, M., Wawra, S., & Zuccaro, A. (2021). Unraveling the sugar code: the role of microbial extracellular glycans in plant-microbe interactions. Journal of Experimental Botany, Special Issue, 72(1), 15-35. doi:10.1093/jxb/eraa414. open access

Winkelmüller, T. M.*, Entila, R.*, Anver, S.*, Piasecka, A., Song, B., Dahms, E., Sakakibara, H., Gan, X., Kulak, K., Sawikowska, A., Krajewski, P., Tsiantis, M., Garrido-Oter, R., Fukushima, K., Schulze-Lefert, P., Laurent, S., Bednarek, P. and Tsuda, K. (2021) Gene expression evolution in plant immunity, Plant Cell, koab073, doi: 10.1093/plcell/koab073. open access *contributed equally to this work

Wippel, K., Tao, K., Niu, Y., Zgadzaj, R., Kiel, N., Guan, R., Dahms, E., Zhang, P., Jensen, D. B., Logemann, E., Radutoiu, S.*, Schulze-Lefert, P.*, Garrido-Oter, R.* (2021) Host preference and invasiveness of commensal bacteria in the Lotus and Arabidopsis root microbiota. Nature Microbiology, doi: 10.1038/s41564-021-00941-9. open access
co-first authors, *co-corresponding authors

Wolinska, K. W., Vannier, N., Thiergart, T., Pickel, B., Gremmen, S., Piasecka, A., et al. (2021). Tryptophan metabolism and bacterial commensals prevent fungal dysbiosis in Arabidopsis roots.Proceedings of the National Academy of Sciences of the United States of America, 118(49): e2111521118. doi:10.1073/pnas.2111521118. open access

Xing Y, Xu N, Bhandari DD, Lapin D, Sun X, Luo X, Wang Y, Cao J, Wang H, Coaker G, Parker JE, Liu J. 2021. Bacterial effector targeting of a plant iron Sensor facilitates iron acquisition and pathogen colonization. Plant Cell 33(6): koab075, pp. 2015- 2031 doi:10.1093/plcell/koab075.

Yu, P., He, X., Baer, M., Beirinckx, S., Tian, T., Moya, Y. A. T., Zhang, X., Deichmann, M., Frey, F. P., Bresgen, V., Li, C., Razavi, B. S., Schaaf, G., von Wirén, N., Su, Z., Bucher, M., Tsuda, K., Goormachtig, S., Chen, X., & Hochholdinger, F. (2021). Plant flavones enrich rhizosphere Oxalobacteraceae to improve maize performance under nitrogen deprivation. Nature Plants, doi:10.1038/s41477-021-00897-y.

Zhang P, Spaepen S, Bai Y, Hacquard S, Garrido-Oter R. (2021) Rbec: a tool for analysis of amplicon sequencing data from synthetic microbial communities. ISME Communications 1, 73.  open access

Zhang, J., Liu, Y-X., Guo, X., Qin, Y., Garrido-Oter, R., Schulze-Lefert, P., Bai, Y. (2021) High-throughput cultivation and identification of bacteria from the plant root microbiota. Nature Protocols 16: 988-1012, doi: 10.1038/s41596-020-00444-7.

Zhao, C., Tang, Y., Wang, J., Zeng, Y., Sun, H.-Q., Zheng, Z., Su, R., Schneeberger, K., Parker, J. E., & Cui, H. (2021). A mis-regulated cyclic nucleotide-gated channel mediates cytosolic calcium elevation and activates immunity in Arabidopsis. New Phytologist 230(3), 1078-1094. doi:10.1111/nph.17218. open access

Zhong, J., van Esse, W., Bi, X., Lan, T., Walla, A., Sang, Q., Franzen, R., & von Korff, M. (2021). INTERMEDIUM-M encodes an HvAP2L-H5 ortholog and is required for inflorescence indeterminacy and spikelet determinacy in barley. Proceedings of the National Academy of Sciences of the United States of America 118(8): e2011779118. doi:10.1073/pnas.2011779118. open access

 

 

 

 

 

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