Publications
2023
Koprivova A, Schwier M, Volz V, Kopriva S (2023) Shoot-root interaction in control of camalexin exudation in Arabidopsis. Journal of Experimental Botany doi: 10.1093/jxb/erad031
2022
Koprivova A, Kopriva S (2022) Plant secondary metabolites altering root microbiome composition and function. Current Opinion in Plant Biology doi: 10.1016/j.pbi.2022.102227
Chandrasekar B, Wanke A, Wawra S, Saake P, Mahdi L, Charura N, Neidert M, Malisic M, Thiele M, Pauly M, Dama M, Zuccaro A (2022) Fungi hijack a ubiquitous plant apoplastic endoglucanase to release a ROS scavenging β-glucan decasaccharide to subvert immune responses. The Plant Cell doi: 10.1093/plcell/koac114
Vanacore A, Vitiello G, Wanke A, Cavasso D, Clifton L, Mahdi L, Campanero-Rhodes MA, Solís D, Wuhrer M, Nicolardi S, Molinaro A, Marchetti R, Zuccaro A, Paduano L, Silipo A (2022) Lipopolysaccharide O-antigen molecular and supramolecular modifications of plant root microbiota are pivotal for host recognition. Carbodhydrate Polymers doi: 10.1016/j.carbpol.2021.118839
Crosbie DB, Mahmoudi M, Radl V, Brachmann V, Schloter M, Kemen E, Marín M (2022) Microbiome profiling reveals that Pseudomonas antagonises parasitic nodule colonisation of cheater rhizobia in Lotus. New Phytologist doi: 10.1111/nph.17988
2021
Siani R, Stabl G, Gutjahr C, Schloter M, Radl V (2021) Acidovorax pan-genome reveals specific functional traits for plant beneficial and pathogenic plant-associations. Microbial Genomics doi: 10.1099/mgen.0.000666
Jung JH, Reis F, Richards CL, Bossdorf O (2021) Understanding plant microbiomes requires a genotype x environment framework. American Journal of Botany doi: 10.1002/ajb2.1742
Wippel K, Tao K, Niu Y, Zgadzaj R, Kiel N, Guan R, Dahms E, Zhang P, Jensen DB, 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
Pfeilmeier S, Petti GC, Bortfeld-Miller M, Daniel B, Field CM, Sunagawa S, Vorholt JA (2021) NADPH oxidase RBOHD is required for microbiota homeostasis in leaves. Nature Microbiology in press
Maier BA, Kiefer P, Field CF, Hemmerle L, Bortfeld-Miller M, Emmenegger B, Schäfer M, Pfeilmeier S, Sunagawa S, Vogel CM, Vorholt JA (2021) A general non-self-response as part of plant immunity. Nature Plants doi: 10.1038/s41477-021-00913-1
Liu Y, Balcke GU, Porzel A, Mahdi LK, Scherr-Henning A, Bathe U, Zuccaro A, Tissier A (2021) A barley gene cluster for the biosynthesis of diterpenoid phytoalexins. BioRxiv doi: 10.1101/2021.05.21.445084
Hucklenbroich J, Gigolashvili T, Koprivova A, Spohr P, Nezamivand Chegini M, Klau GW, Kopriva S, Nakano RT (2021) Rhizobiales commensal bacteria promote Arabidopsis thaliana root growth via host sulfated peptide pathway. BioRxiv doi: 10.1101/2021.05.25.444716
Shimasaki T, Masuda S, Garrido-Oter R, Kawasaki T, Aoki Y, Shibata A, Suda W, Shirasu K, Yazaki K, Nakano RT, Sugiyama A (2021) Tobacco Root Endophytic Arthrobacter Harbors Genomic Features Enabling the Catabolism of Host-Specific Plant Specialized Metabolites. mBio in press
Dunken N, Mahdi L, Häusler ER, Zuccaro A (2021) Monitoring Cell Death via Ion leakage and PAM Fluorometry. Chapter in MiMB (Methods in Molecular Biology), Humana Press, Springer Nature in press
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. BioRxiv doi: 10.1101/2021.04.28.441743
Shalev O, Karasov T, Lundberg DS, Ashkenazy H, Weigel D (2021) Protective host-dependent antagonism among Pseudomonas in the Arabidopsis phyllosphere. BioRxiv doi: 10.1101/2021.04.08.438928
Lundberg DS, de Pedro Jové R, Pramoj Na Ayutthaya P, Karasov TL, Shalev O, Poersch K, Ding W, Bollmann-Giolai A, Bezrukov I, Weigel D (2021) Contrasting patterns of microbial dominance in the Arabidopsis thaliana phyllosphere. BioRxiv doi: 10.1101/2021.04.06.438366
Chaudhry V, Runge P, Sengupta P, Doehlemann G, Parker JE, Kemen E (2021) Shaping the leaf microbiota: plant–microbe–microbe interactions. Journal of Experimental Botany Vol: 72, Issue 1 doi: 10.1093/jxb/eraa417
Mahdi LK, Miyauchi S, Uhlmann C, Garrido-Oter R, Langen G, Wawra S, Niu Y, Robertson-Albertyn S, Bulgarelli D, Parker JE, Zuccaro A (2021) The fungal root endophyte Serendipita vermifera displays inter-kingdom synergistic beneficial effects with the microbiota in Arabidopsis thaliana and barley. ISME Journal doi:10.1038/s41396-021-01138-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 doi: 10.1038/s43705-021-00077-1
Sommer A, Wenig M, Knappe C, Kublik S, Fösel B, Schloter M, Vlot AC (2021) Induced systemic resistance impacts the phyllosphere microbiome through plant-microbe-microbe interactions. BioRxiv doi: 10.1101/2021.01.13.426583
Schandry N, Jandrasits K, Garrido-Oter R, Becker C (2021) Plant-derived benzoxazinoids act as antibiotics and shape bacterial communities. BioRxiv doi: 10.1101/2021.01.12.425818
Vlot AC, Sales JH, Lenk M, Bauer K, Brambilla A, Sommer A, Chen Y, Wenig M, Nayem S (2021) Systemic propagation of immunity in plants. New Phytologist doi: 10.1111/nph.16953
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 in press
Schütz V, Frindte K, Cui J, Zhang, Hacquard S, Schulze-Lefert P, Knief C, Schulz M, Dörmann P (2021) Differential impact of plant secondary metabolites on the soil microbiota. Frontiers in Microbiology In press doi: 10.3389/fmicb.2021.666010
Yu P, He X, Baer M, Beirinckx S, Tian T, Moya YAT, Zhang X, Deichmann M, Frey FP, Bresgen V, Li C, Razavi BS, 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
Ma KW, Niu Y, Yong J, Ordon J, Copeland C, Emonet A, Geldner N, Guan R, Stolze SC, Nakagami H, Garrido-Oter R, Schulze-Lefert P (2021) Coordination of microbe-host homeostasis by crosstalk with plant innate immunity. Nature Plants doi: 10.1038/s41477-021-00920-2
Kremer JM, Sohrabi R, Paasch BC, Rhodes D, Thireault C, Schulze-Lefert P, Tiedje JM, He SY (2021) Peat-based gnotobiotic plant growth systems for Arabidopsis microbiome research. Nature Protocols doi: 10.1038/s41596-021-00504-6
Winkelmüller TM, 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, Tsuda K (2021) Gene expression evolution in pattern-triggered immunity within Arabidopsis thaliana and across Brassicaceae species. The Plant Cell doi: 10.1093/plcell/koab073
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
Zhang J, Liu YX, Guo X, QinY, Garrido-Oter R, Schulze-Lefert P, Bai Y (2021) High-throughput cultivation and identification of bacteria from the plant root microbiota. Nature Protocols doi: 10.1038/s41596-020-00444-7
Jacoby RP, Koprivova A, Kopriva S (2021) Pinpointing secondary metabolites that shape the composition and function of the plant microbiome. Journal of Experimental Botany doi: 101093/jxb/eraa424
Chen L, Schwier M, Krumbach J, Kopriva S, Jacoby RP (2021) Metabolomics in plant-microbe interactions in the roots. Advances in Botanical Research Vol. 98: Plant Metabolomics. Elsevier in press
2020
Koprivova A, Volz V, Kopriva S (2020) Shoot-root interaction in control of camalexin exudation in Arabidopsis. BioRxiv doi: 10.1101/2020.12.15.422875
Lundberg DS, Na Ayutthaya, PP, Strauß A, Shirsekar G, Lo WS, Lahaye T, Weigel D (2020) Host-associated microbe PCR (hamPCR): accessing new biology through convenient measurement of both microbial load and community composition. BioRxiv doi: 10.1101/2020.05.19.103937
Nobori T*, Wang Y*, Wu J, Stolze SC, Tsuda Y, Finkemeier I, Nakagami H, Tsuda K (2020) Multidimensional gene regulatory landscape of a bacterial pathogen in plants. Nature Plants doi: 10.1038/s41477-020-0746-8 *indicates joint first authors
Regalado J*, Lundberg DS*, Deusch O, Kersten S, Karasov TL, Poersch K, Shirsekar G, Weigel D (2020) Combining whole-genome shotgun sequencing and rRNA gene amplicon analyses to improve detection of microbe-microbe interaction networks in plant leaves. ISME Journal doi: 10.1038/s41396-020-0665-8 *indicates joint first authors
Karasov TL, Neumann M, Duque-Jaramillo A, Kersten S, Bezrukov I, Schröppel B, Symeonidi E, Lundberg DS, Regalado J, Shirsekar G, Bergelson J, Weigel D (2020) The relationship between microbial population size and disease in the Arabidopsis thaliana phyllosphere. bioRxiv doi: 10.1101/828814v2
Jacoby RP, Chen L, Schwier M, Koprivova A, Kopriva S (2020) Recent advances in the role of plant metabolites in shaping the root microbiome. F1000Res. 2020; 9: F1000 Faculty Rev-151
Koprivova A, Schmalenberger A, Kopriva S (2020) Sulfatase Assay to Determine Influence of Plants on Microbial Activitiy in Soil. Bio-protocol doi: 10.21769/BioProtoc.3490
Thiergart T, Durán P, Ellis T, Vannier N, Garrido-Oter R, Roux F, Alonso-Blanco C, Ågren J, Schulze-Lefert P, Hacquard S (2020) Root microbiota assembly and adaptive differentiation among European Arabidopsis populations. Nature Ecology & Evolution 4:122-131, doi:10.1038/s41559-019-1063-3
Kabdullayeva T, Crosbie DB, Marín M (2020) Mesorhizobium norvegicum sp. nov., a rhizobium isolated from a Lotus corniculatus root nodule in Norway. International Journal of Systematic and Evolutionary Microbiology doi: 10.1099/ijsem.0.003769. PMID: 31626582.
2019
Rodriguez PA, Rothballer M, Chowdhury SP, Nussbaumer T, Gutjahr C, Falter-Braun P (2019) Systems Biology of Plant-Microbiome Interactions. Molecular Plant doi: 10.1016/j.molp.2019.05.006
Thiergart T, Zgadzaj R, Bozsóki Z, Garrido-Oter R, Radutoiu S, Schulze-Lefert P (2019) Lotus japonicus Symbiosis Genes Impact Microbial Interactions between Symbionts and Multikingdom Commensal Communities. mBio doi: 10.1128/mBio.01833-19
Koprivova A, Schuck S, Jacoby R, Klinkhammer I, Welter B, Leson L, Martyn A, Nauen J, Grabenhorst N, Mandelkow JF, Zuccaro A, Zeier J, Kopriva S (2019) Root-specific camalexin biosynthesis controls the plant growth promoting effects of multiple bacterial strains. PNAS doi: 10.1073/pnas.1818604116
Sarkar D, Rovenich H, Jeena G, Nizam S, Tissier A, Balcke GU, Mahdi L, Bonkowski M, Langen G, Zuccaro A (2019) The inconspicuous gatekeeper: endophytic Serendipita vermifera acts as extended plant protection barrier in the rhizosphere. New Phytologist doi: 10.1111/nph.15904
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See also commentary on this publication Franken P, Takken FLW, Rep M (2019) Transcript accumulation in a trifold interaction gives insight into mechanisms of biocontrol. New Phytologist doi: 10.1111/nph.16141
Nobori T, Tsuda K (2019) The plant immune system in heterogeneous environments. Current Opinion in Plant Biology doi: 10.1016/j.pbi.2019.02.003