One of the most demanding global challenges is how to feed a steadily increasing world population. Our current ability to provide food for a global population of 7 billion people will soon be inadequate. Among the main reasons for food shortages are: an imperfect distribution of food; the shortcomings of resources such as energy, water, fertilizers; as well as the lack of crop varieties adapted to changing environmental conditions and the continuous loss of arable land. The occurrence of famines, malnutrition, and rural exodus in developing countries will further increase in the future as we approach a global population of 9 billion people by 2050. We therefore urgently need to develop sustainable strategies that guarantee an adequate global food supply
Plants provide a high nutritional value as human food and animal forage with low carbon emissions, water use and energy costs that can be utilized as a sustainable solution to the food shortage. Roots, "the hidden half" of plants, play an important role in nutrient uptake, above ground plant growth and plant health, whose potential for crop productivity is not fully utilised. In fact, soil induced salt and drought stress together with root diseases are the causes of the most devastating and mostly uncontrollable losses of crop production.
Plants profit significantly from their interactions with beneficial root microbes. In my group, we study mutualistic symbioses of plants and crops with sebacinalean fungi to identify stress adaptive pathways activated by these mutualistic fungi in plants. By using state-of-the-art molecular, systems and synthetic biological techniques we aim at understanding the regulatory networks activated by mutualistic fungi and how we can exploit them to enhance root stress resistance. Therefore our research is focused on:
- Stress-adaptive regulatory networks reprogrammed by mutualists in planta
- Effector phenomics as resource to engineer root stress resistance
- Cell type-specificity in the organisation and regulation of stress signalling in roots
- The antagonism between plant growth and stress resistance
Associate Professor, School of Life Sciences, University of Warwick, since 2012
Habilitation: Cell biology, Phytopathology, 2011
Research group leader, Justus Liebig University Giessen, 2006 - 2012
Postdoctoral Research Associate, Washington State University, 2004 - 2005
PhD, Justus Liebig University Giessen, 2003
Projects prior to joining University of Warwick:
Barley compatibility factors pivotal for root colonisation and manipulation of basal defence by Piriformospora indica, Funded by DFG (Germany), Project Start Date 2009 - Project End Date 2012
The functional principle of fungal effectors and plant proteins essentially supporting cthe mutualistic Arabidopsis-Piriformospora indica symbiosis, Funded by DFG (Germany), Project Start Date 2009 - Project End Date 2011
Investigation on the colonisation of Arabidopsis thaliana by the mutualistic fungal symbiont Piriformospora indica, Funded by DFG (Germany), Project Start Date 2007 - Project End Date 2009
Fortification of plants by the mutualistic root endophyte Piriformospora indica against biotic and abiotic stresses with Dierk Scheel, Lars Voll, Uwe Sonnewald, Frank Waller, Karl-Heinz Kogel, Funded by Bundersministerium für Bildung und Forschung (Germany), Project Start Date 2007 - Project End Date 2010
- Lagunas, Beatriz, Richards, Luke, Sergaki, Chrysi, Burgess, Jamie, Pardal , Alonso Javier, Hussain, Rana M. F., Richmond, Bethany L., Baxter, Laura, Roy, Proyash, Pakidi, Anastasia, Stovold, Gina, Vázquez, Saúl, Ott, Sascha, Schäfer, Patrick, Gifford, Miriam L., 2023. Rhizobial nitrogen fixation efficiency shapes endosphere bacterial communities and Medicago truncatula host growth. Microbiome, 11 (1)
- Baxter, Laura, Roy, Proyash, Picot, Emma, Watts, Jess, Jones, Alexandra M., Wilkinson, Helen, Schäfer, Patrick, Gifford, Miriam L., Lagunas, Beatriz, 2021. Comparative genomics across three ensifer species using a new complete genome sequence of the Medicago symbiont Sinorhizobium (Ensifer) meliloti WSM1022. Microorganisms, 9 (12)
- Lee, Morgan, Dominguez-Ferreras, Anna, Kaliyadasa, Ewon, Huang, Wei-Jie, Antony, Edna, Stevenson, Tracey, Lehmann, Silke, Schäfer, Patrick, Knight, Marc R., Ntoukakis, Vardis, Knight, Heather, 2021. Mediator subunits MED16, MED14, and MED2 are required for activation of ABRE-dependent transcription in Arabidopsis. Frontiers in Plant Science, 12
- Rich-Griffin, Charlotte, Eichmann, Ruth, Reitz, Marco U., Hermann, Sophie, Woolley-Allen, Kate, Brown, Paul E., Wiwatdirekkul, Kate, Esteban, Eddi, Pasha, Asher, Kogel, Karl-Heinz, Provart, Nicholas J., Ott, Sascha, Schäfer, Patrick, 2020. Regulation of cell type-specific immunity networks in Arabidopsis roots. The Plant Cell
- Lehmann, Silke, Dominguez-Ferreras, Ana, Huang, Wei-Jie, Denby, Katherine J., Ntoukakis, Vardis, Schäfer, Patrick, 2020. Novel markers for high-throughput protoplast-based analyses of phytohormone signaling. PLoS One, 15 (6)
- Li, Tingting, Wang, Qinhu, Feng, Ruirui, Li, Licai, Ding, Liwen, Fan, Guangjin, Li, Weiwei, Du, Yu, Zhang, Meixiang, Huang, Guiyan, Schäfer, Patrick, Meng, Yuling, Tyler, Brett M., Shan, Weixing, 2020. Negative regulators of plant immunity derived from cinnamyl alcohol dehydrogenases are targeted by multiple Phytophthora Avr3a-like effectors. New Phytologist
- Lagunas, Beatriz, Achom, Mingkee, Bonyadi-Pour, Roxanna, Pardal , Alonso Javier, Richmond, Bethany L., Sergaki, Chrysi, Vázquez, Saúl, Schäfer, Patrick, Ott, Sascha, Hammond, John, Gifford, Miriam L., 2019. Regulation of resource partitioning coordinates nitrogen and rhizobia responses and autoregulation of nodulation in the legume Medicago truncatula. Molecular Plant, 12 (6), pp. 833-846
- Rich-Griffin, Charlotte, Stechemesser, Annika, Finch, Jessica A., Lucas, Emma S., Ott, Sascha, Schäfer, Patrick, 2019. Single-cell transcriptomics : a high-resolution avenue for plant functional genomics. Trends in Plant Science
- Lagunas, Beatriz, Achom, Mingkee, Bonyadi-Pour, Roxanna, Pardal, Alonso J., Richmond, Bethany L., Sergaki, Chrysi, Vázquez, Saúl, Schäfer, Patrick, Ott, Sascha, Hammond, John, Gifford, Miriam L., 2019. Regulation of Resource Partitioning Coordinates Nitrogen and Rhizobia Responses and Autoregulation of Nodulation in Medicago truncatula. Molecular Plant Pathology, 12 (6), pp. 833-846
- Sergaki, Chrysi, Lagunas, Beatriz, Lidbury, Ian, Gifford, Miriam L., Schäfer, Patrick, 2018. Challenges and approaches in microbiome research : from fundamental to applied. Frontiers in Plant Science, 9
- Quareshy, Mussa, Prusinska, Justyna, Kieffer, Martin, Fukui, Kosuke, Pardal , Alonso Javier, Lehmann, Silke, Schäfer, Patrick, Del Genio, Charo I., Kepinski, Stefan, Hayashi, Kenichiro, Marsh, Andrew, Napier, R. (Richard), 2018. The tetrazole analogue of the auxin indole-3-acetic acid binds preferentially to TIR1 and not AFB5. ACS Chemical Biology, 13 (9), pp. 2585-2594
- Quareshy, Mussa, Prusinska, Justyna, Kieffer, Martin, Fukui, Kosuke, Pardal, Alonso J., Lehmann, Silke, Schäfer, Patrick, Del Genio, Charo I., Kepinski, Stefan, Hayashi, Kenichiro, Marsh, Andrew, Napier, Richard M., 2018. The Tetrazole Analogue of the Auxin Indole-3-acetic Acid Binds Preferentially to TIR1 and Not AFB5. ACS Chemical Biology, 13 (9), pp. 2585-2594
- Jiang, Xue, Zerfaß, Christian, Eichmann, Ruth, Asally, Munehiro, Schäfer, Patrick, Soyer, Orkun S., 2018. Impact of spatial organization on a novel auxotrophic interaction among soil microbes. ISME Journal, 12, pp. 1443-1456
- Acevedo-Garcia, Johanna, Gruner, Katrin, Reinstädler, Anja, Kemen, Ariane, Kemen, Eric, Cao, Lingxue, Takken, Frank L. W., Reitz, Marco U., Schäfer, Patrick, O'Connell, Richard J., Kusch, Stefan, Kuhn, Hannah, Panstruga, Ralph, 2017. The powdery mildew-resistant Arabidopsis mlo2 mlo6 mlo12 triple mutant displays altered infection phenotypes with diverse types of phytopathogens. Scientific Reports, 7 (1)
- Lareen, Andrew, Burton, Frances, Schäfer, Patrick, 2016. Plant root-microbe communication in shaping root microbiomes. Plant Molecular Biology, 90 (6), pp. 575-587
- Patron, Nicola J., Orzaez, Diego, Marillonnet, Sylvestre, Warzecha, Heribert, Matthewman, Colette, Youles, Mark, Raitskin, Oleg, Leveau, Aymeric, Farré, Gemma, Rogers, Christian, Smith, Alison, Hibberd, Julian, Webb, Alex A. R., Locke, James, Schornack, Sebastian, Ajioka, Jim, Baulcombe, David C., Zipfel, Cyril, Kamoun, Sophien, Jones, Jonathan D. G. et al (Select to open full list), 2015. Standards for plant synthetic biology : a common syntax for exchange of DNA parts. New Phytologist, 208 (1), pp. 13-19
- Eichmann, Ruth, Schäfer, Patrick, 2015. Growth versus immunity : a redirection of the cell cycle?. Current opinion in plant biology, 26, pp. 106-112
- Lagunas, B., Schäfer, Patrick, Gifford, Miriam L., 2015. Housing helpful invaders : the evolutionary and molecular architecture underlying plant root-mutualist microbe interactions. Journal of Experimental Botany, 66 (8), pp. 2177-2186
- Reitz, M. U., Gifford, Miriam L., Schäfer, Patrick, 2015. Hormone activities and the cell cycle machinery in immunity-triggered growth inhibition. Journal of Experimental Botany, 66 (8), pp. 2187-2197
- Doehlemann, Gunther, Requena, Natalia, Schäfer, Patrick, Brunner, Frederic, O'Connell, Richard, Parker, Jane E., 2014. Reprogramming of plant cells by filamentous plant-colonizing microbes. New Phytologist, 204 (4), pp. 803-814
- Brandizzi, Federica, Frigerio, Lorenzo, Howell, Stephen H., Schäfer, Patrick, 2014. Endoplasmic reticulum : shape and function in stress translation. Frontiers in Plant Science, 5, pp. 1-2
- Reitz, Marco U., Pai, Subhash, Imani, Jafargholi, Schäfer, Patrick, 2013. New insights into the subcellular localization of Tubby-like proteins and their participation in the Arabidopsis-Piriformospora indica interaction. Plant Signaling & Behavior, 8 (8)
- Eichmann, Ruth, Schäfer, P. (Patrick), 2012. The endoplasmic reticulum in plant immunity and cell death. Frontiers in Plant Science, 3
- Qiang, X., Zechmann, B., Reitz, M. U., Kogel, Karl-Heinz, Schäfer, Patrick, 2012. The mutualistic fungus Piriformospora indica colonizes Arabidopsis roots by inducing an endoplasmic reticulum stress-triggered caspase-dependent cell death. The Plant Cell, 24 (2), pp. 794-809
- Khatabi, Behnam, Schäfer, Patrick, 2012. Ethylene in mutualistic symbioses. Plant Signaling & Behavior, 7 (12), pp. 1634-1638
- Reitz, Marco U., Bissue, J. K., Zocher, K., Attard, A., Hückelhoven, Ralph, Becker, K., Imani, Jafargholi, Eichmann, Ruth, Schäfer, Patrick, 2012. The subcellular localization of tubby-like proteins and participation in stress signaling and root colonization by the mutualist piriformospora indica. Plant Physiology, 160 (1), pp. 349-364
- Khatabi, Behnam, Molitor, Alexandra, Lindermayr, Christian, Pfiffi, Stefanie, Durner, Jörg, Wettstein, Diter von, Kogel, Karl-Heinz, Schäfer, Patrick, 2012. Ethylene supports colonization of plant roots by the mutualistic fungus Piriformospora indica. PLoS One, 7 (4)
- Jacobs, S., Zechmann, B., Molitor, A., Trujillo, M., Petutschnig, E., Lipka, V., Kogel, K. -H., Schäfer, Patrick, 2011. Broad-spectrum suppression of innate immunity is required for colonization of arabidopsis roots by the fungus piriformospora indica. Plant Physiology, 156 (2), pp. 726-740
- Imani, Jafargholi, Li, Liang, Schäfer, Patrick, Kogel, Karl-Heinz, 2011. STARTS - A stable root transformation system for rapid functional analyses of proteins of the monocot model plant barley. The Plant Journal, Vol.67 (No.4), pp. 726-735
- Qiang, X., Weiss, M., Kogel, K. -H., Schäfer, Patrick, 2011. Piriformospora indica-a mutualistic basidiomycete with an exceptionally large plant host range. Molecular Plant Pathology, 13 (5), pp. 508-518
- Kogel, K. -H., Voll, L. M., Schäfer, Patrick, Jansen, C., Wu, Y., Langen, G., Imani, J., Hofmann, J., Schmiedl, A., Sonnewald, S., von Wettstein, D., Cook, R. J., Sonnewald, U., 2010. Transcriptome and metabolome profiling of field-grown transgenic barley lack induced differences but show cultivar-specific variances. Proceedings of the National Academy of Sciences, 107 (14), pp. 6198-6203
- Schäfer, Patrick, Pfiffi, Stefanie, Voll, Lars M., Zajic, Doreen, Chandler, Peter M., Waller, Frank, Scholz, Uwe, Pons-Kühnemann, Jörn, Sonnewald, Sophia, Sonnewald, Uwe, Kogel, Karl-Heinz, 2009. Phytohormones in plant root-Piriformospora indicamutualism. Plant Signaling & Behavior, 4 (7), pp. 669-671
- Schäfer, Patrick, Pfiffi, Stefanie, Voll, Lars M., Zajic, Doreen, Chandler, Peter M., Waller, Frank, Scholz, Uwe, Pons-Kühnemann, Jörn, Sonnewald, Sophia, Sonnewald, Uwe, Kogel, Karl-Heinz, 2009. Manipulation of plant innate immunity and gibberellin as factor of compatibility in the mutualistic association of barley roots with Piriformospora indica. The Plant Journal, 59 (3), pp. 461-474
- Felle, Hubert H., Herrmann, Almut, Schäfer, Patrick, Hückelhoven, Ralph, Kogel, Karl-Heinz, 2008. Interactive signal transfer between host and pathogen during successful infection of barley leaves by Blumeria graminis and Bipolaris sorokiniana. Journal of Plant Physiology, 165 (1), pp. 52-59
- Baltruschat, Helmut, Fodor, József, Harrach, Borbála D., Niemczyk, Elzbieta, Barna, Balázs, Gullner, Gábor, Janeczko, Anna, Kogel, Karl-Heinz, Schäfer, Patrick, Schwarczinger, Ildikó, Zuccaro, Alga, Skoczowski, Andrzej, 2008. Salt tolerance of barley induced by the root endophyte Piriformospora indicais associated with a strong increase in antioxidants. New Phytologist, 180 (2), pp. 501-510
- Waller, Frank, Mukherjee, Krishnendu, Deshmukh, Sachin D., Achatz, Beate, Sharma, Monica, Schäfer, Patrick, Kogel, Karl-Heinz, 2008. Systemic and local modulation of plant responses by Piriformospora indica and related Sebacinales species. Journal of Plant Physiology, 165 (1), pp. 60-70
- Sharma, Monica, Schmid, Michael, Rothballer, Michael, Hause, Gerd, Zuccaro, Alga, Imani, Jafargholi, Kämpfer, Peter, Domann, Eugen, Schäfer, Patrick, Hartmann, Anton, Kogel, Karl-Heinz, 2008. Detection and identification of bacteria intimately associated with fungi of the order Sebacinales. Cellular Microbiology, 10 (11), pp. 2235-2246
- Schäfer, Patrick, Khatabi, Behnam, Kogel, Karl-Heinz, 2007. Root cell death and systemic effects of Piriformospora indica : a study on mutualism. FEMS Microbiology Letters, 275 (1), pp. 1-7
- Deshmukh, S., Huckelhoven, R., Schäfer, Patrick, Imani, J., Sharma, M., Weiss, M., Waller, F., Kogel, K.-H., 2006. The root endophytic fungus Piriformospora indica requires host cell death for proliferation during mutualistic symbiosis with barley. Proceedings of the National Academy of Sciences of the United States of America, 103 (49), pp. 18450-18457
- Eichmann, Ruth, Biemelt, Sophia, Schäfer, Patrick, Scholz, Uwe, Jansen, Carin, Felk, Angelika, Schäfer, Wilhelm, Langen, Gregor, Sonnewald, Uwe, Kogel, Karl-Heinz, Hückelhoven, Ralph, 2006. Macroarray expression analysis of barley susceptibility and nonhost resistance to Blumeria graminis. Journal of Plant Physiology, Volume163 (6), pp. 657-670
- Ibeagha, Aloysius Ebelechukwu, Hückelhoven, Ralph, Schäfer, Patrick, Singh, Devendra Pal, Kogel, Karl-Heinz, 2005. Model wheat genotypes as tools to uncover effective defense mechanisms against the hemibiotrophic fungus Bipolaris sorokiniana. Phytopathology, 95 (5), pp. 528-532
- Schäfer, Patrick, Hückelhoven, Ralph, Kogel, Karl-Heinz, 2004. The white barley Mutant Albostrians shows a supersusceptible but symptomless interaction phenotype with the Hemibiotrophic Fungus Bipolaris sorokiniana. Molecular Plant-Microbe Interactions, 17 (4), pp. 366-373
- Kumar, Jagdish, Schäfer, Patrick, Huckelhoven, Ralph, Langen, Gregor, Baltruschat, Helmut, Stein, Elke, Nagarajan, Subramaniam, Kogel, Karl-Heinz, 2002. Bipolaris sorokiniana, a cereal pathogen of global concern : cytological and molecular approaches towards better control. Molecular Plant Pathology, 3 (4), pp. 185-195
- Jiang, Xue, Zerfaß, Christian, Eichmann, Ruth, Asally, Munehiro, Schäfer, P. (Patrick), Soyer, Orkun S., 2017. Impact of spatial organization on a novel auxotrophic interaction among soil microbes. Bio, Cold Spring Harbour Laboratories
Title | Funder | Award start | Award end |
---|---|---|---|
MTA - EMBL - Plasmid pETG-41A (Jemma Roberts, PI: Patrick Schafer) | European Molecular Biology Organisation | 07 Feb 2020 | 06 Feb 2025 |
Technological Risks in Development: Food Security, Super-Wicked Problems, and the Decolonization of Technological Governance | British Academy | 01 Apr 2020 | 31 Mar 2023 |
Development of beneficial microbiome communities to increase the resistance against abiotic stress in Carica papaya and Capsicum annuum. | BBSRC | 01 Feb 2019 | 31 Jan 2022 |
Capturing microbial co-symbiosis to sustain plant productivity | BBSRC | 01 Oct 2016 | 31 May 2020 |
Warwick Integrative Synthetic Biology Centre (WISB) | BBSRC | 14 Nov 2014 | 31 May 2020 |
Developing interdisciplinary omics tools for organelle and cell type-specific analysis of Arabidopsis thaliana | New Phytologist Trust | 01 Sept 2014 | 30 Sept 2014 |
Piriformospora indica impairs hubs of innate immunity to gain root accessibility ? MAMP signaling and ER integrity | DFG (German Research Foundation) | 01 Apr 2012 | 30 Apr 2013 |