Madlen Vetter

I am a botanist at heart but embrace many diverse biological disciplines to answer my scientific questions. My master thesis at the University of Potsdam (Germany), and doctoral thesis at the Max Planck Institute for Plant Breeding Research in Cologne (Germany) combined ecology, evolution, biochemistry, microbiology and molecular biology. I love to communicate, investigate a problem from all angles and finally integrate knowledge to find the best possible solution.

In the Bergelson lab, I investigated fundamental biological questions: How do plants integrate growth and defense? Which genes determine the bacterial community residing in a plant? Which genes (other than R genes) contribute to strain-specific or general defense? Please see the links to individual project descriptions below and keep an eye out for upcoming publications.

One can now find me in the Allesina Lab at the University of Chicago, where I work on the book “Introduction to Scientific Computing”. Biologists are often simply expected to know how to code, run statistical analysis and generally organize and manage their work flow in order to get from large data sets to a polished publication. Stefano and I are setting out to help young biologists to learn these computational skills so they can entirely focus on being brilliant scientists.

Projects in the Bergelson lab

> PAMP induced growth responses in Arabidopsis thaliana
> Genetic basis of a natural plant pathosystem
> Host control of bacteria community composition in Arabidopsis thaliana


Beilsmith, Kathleen, Manus P. M. Thoen, Benjamin Brachi, Andrew D. Gloss, Mohammad H. Khan, and Joy Bergelson. 2019. “Genome-Wide Association Studies on the Phyllosphere Microbiome: Embracing Complexity in Host-Microbe Interactions.” The Plant Journal 97 (1): 164–81. Cite
Juenger, Thomas, Timothy C. Morton, Rick E. Miller, and Joy Bergelson. 2005. “Scarlet Gilia Resistance to Insect Herbivory: The Effects of Early Season Browsing, Plant Apparency, and Phytochemistry on Patterns of Seed Fly Attack.” Evolutionary Ecology 19 (1): 79–101. Cite
Frachon, Léa, Cyril Libourel, Romain Villoutreix, Sébastien Carrère, Cédric Glorieux, Carine Huard-Chauveau, Miguel Navascués, et al. 2017. “Intermediate Degrees of Synergistic Pleiotropy Drive Adaptive Evolution in Ecological Time.” Nature Ecology & Evolution 1 (10): 1551. Cite
Vetter, Madlen, Talia L. Karasov, and Joy Bergelson. 2016. “Differentiation between MAMP Triggered Defenses in Arabidopsis Thaliana.” PLOS Genet 12 (6): e1006068. Cite
Brachi, Benjamin, Christopher G. Meyer, Romain Villoutreix, Alexander Platt, Timothy C. Morton, Fabrice Roux, and Joy Bergelson. 2015. “Coselected Genes Determine Adaptive Variation in Herbivore Resistance throughout the Native Range of Arabidopsis Thaliana.” Proceedings of the National Academy of Sciences 112 (13): 4032–37. Cite
Barrett, Luke G., Joel M. Kniskern, Natacha Bodenhausen, Wen Zhang, and Joy Bergelson. 2009. “Continua of Specificity and Virulence in Plant Host–Pathogen Interactions: Causes and Consequences.” New Phytologist 183 (3): 513–29. Cite
Bergelson, Joy, Edward S. Buckler, Joseph R. Ecker, Magnus Nordborg, and Detlef Weigel. 2016. “A Proposal Regarding Best Practices for Validating the Identity of Genetic Stocks and the Effects of Genetic Variants.” The Plant Cell 28 (3): 606–9. Cite
Alonso-Blanco, Carlos, Jorge Andrade, Claude Becker, Felix Bemm, Joy Bergelson, Karsten M. Borgwardt, Jun Cao, et al. 2016. “1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis Thaliana.” Cell 166 (2): 481–91. Cite
Nguyen, Thi Ngoc Nga, Zaigham Shahzad, Denis Vile, Fabrice ROUX, Alia Dellagi, Joy Bergelson, Dominique Expert, Françoise Gosti, and Pierre Berthomieu. 2013. “Plant Response to Zinc Excess.” In 7th EPSO Conference ’Plants for a Greening Economy, np. Porto Heli, Greece. Cite
Exposito-Alonso, Moises, Claude Becker, Verena J. Schuenemann, Ella Reiter, Claudia Setzer, Radka Slovak, Benjamin Brachi, et al. 2016. “The Rate and Effect of de Novo Mutations in a Colonizing Lineage of Arabidopsis Thaliana.” BioRxiv, November, 050203. Cite
Gloss, Andrew D., Benjamin Brachi, Mitchell J. Feldmann, Simon C. Groen, Claudia Bartoli, Jerome Gouzy, Erika R. LaPlante, et al. 2017. “Genetic Variants Affecting Plant Size and Chemical Defenses Jointly Shape Herbivory in Arabidopsis.” BioRxiv, June, 156299. Cite
Brachi, Benjamin, Daniele Filiault, Paul Darme, Marine Le Mentec, Envel Kerdaffrec, Fernando Rabanal, Alison Anastasio, et al. 2017. “Plant Genes Influence Microbial Hubs That Shape Beneficial Leaf Communities.” BioRxiv, August, 181198. Cite
Bergelson, Joy, Jana Mittelstrass, and Matthew W. Horton. 2019. “Characterizing Both Bacteria and Fungi Improves Understanding of the Arabidopsis Root Microbiome.” Scientific Reports 9 (1): 24. Cite
Gao, Liping, Fabrice Roux, and Joy Bergelson. 2009. “Quantitative Fitness Effects of Infection in a Gene-for-Gene System.” The New Phytologist 184 (2): 485–94. Cite
Rubio, Bernadette, Patrick Cosson, Mélodie Caballero, Frédéric Revers, Joy Bergelson, Fabrice Roux, and Valérie Schurdi‐Levraud. 2018. “Genome-Wide Association Study Reveals New Loci Involved in Arabidopsis Thaliana and Turnip Mosaic Virus (TuMV) Interactions in the Field.” New Phytologist 0 (0). Cite
Nallu, Sumitha, Jason A. Hill, Kristine Don, Carlos Sahagun, Wei Zhang, Camille Meslin, Emilie Snell-Rood, et al. 2018. “The Molecular Genetic Basis of Herbivory between Butterflies and Their Host Plants.” Nature Ecology & Evolution 2 (9): 1418. Cite
Wang, Miaoyan, Fabrice Roux, Claudia Bartoli, Carine Huard-Chauveau, Christopher Meyer, Hana Lee, Dominique Roby, Mary Sara McPeek, and Joy Bergelson. 2018. “Two-Way Mixed-Effects Methods for Joint Association Analysis Using Both Host and Pathogen Genomes.” Proceedings of the National Academy of Sciences 115 (24): E5440–49. Cite
Exposito-Alonso, Moises, Claude Becker, Verena J. Schuenemann, Ella Reiter, Claudia Setzer, Radka Slovak, Benjamin Brachi, et al. 2018. “The Rate and Potential Relevance of New Mutations in a Colonizing Plant Lineage.” PLOS Genetics 14 (2): e1007155. Cite
Karasov, Talia L., Luke Barrett, Ruth Hershberg, and Joy Bergelson. 2017. “Similar Levels of Gene Content Variation Observed for Pseudomonas Syringae Populations Extracted from Single and Multiple Host Species.” PLOS ONE 12 (9): e0184195. Cite
Karasov, Talia L., Eunyoung Chae, Jacob J. Herman, and Joy Bergelson. 2017. “Mechanisms to Mitigate the Trade-Off between Growth and Defense.” The Plant Cell 29 (4): 666–80. Cite
Romeo, John T., and Timothy C. Morton. 1994. “Nonprotein Amino Acids of the Ingeae: Taxonomic and Ecological Considerations.” In Advances in Legume Systematics 5: The Nitrogen Factor, 89–99. Kew: Royal Botanic Gardens. Cite
Vencl, Fredric V., and Timothy C. Morton. 1999. “Macroevolutionary Aspects of Larval Shield Defenses.” In Advances in Chrysomelidae Biology., 217–238. Leiden: Backhuys. Cite
Vencl, Fredric V., and Timothy C. Morton. 1998. “Did Chemical Change in Shield Defenses Promote Diversification of Shining Leaf Beetles (Chrysomelidae: Criocerinae)?” In Proceedings of the Fourth International Symposium on the Chrysomelidae: Proceedings of XX l.C.E. Firenze, 1996, 205–18. Torino, Italy: Museo Regionale di Scienze Naturali. Cite
Olmstead, Karen L., Robert F. Denno, Timothy C. Morton, and John T. Romeo. 1997. “Influence of Prokelisia Planthoppers on Amino Acid Composition and Growth of Spartina Alterniflora.” Journal of Chemical Ecology 23 (2): 303–21. Cite
Morton, Timothy C., and Fredric V. Vencl. 1998. “Larval Beetles Form a Defense from Recycled Host-Plant Chemicals Discharged as Fecal Wastes.” Journal of Chemical Ecology 24 (5): 765–85. Cite
Vencl, Fredric V., Timothy C. Morton, Ralph O. Mumma, and Jack C. Schultz. 1999. “Shield Defense of a Larval Tortoise Beetle.” Journal of Chemical Ecology 25 (3): 549–66. Cite
Vencl, Fredric V., and Timothy C. Morton. 1998. “The Shield Defense of the Sumac Flea Beetle, Blepharida Rhois (Chrysomelidae: Alticinae).” CHEMOECOLOGY 8 (1): 25–32. Cite
Weidenhamer, Jeffrey D., Timothy C. Morton, and John T. Romeo. 1987. “Solution Volume and Seed Number: Often Overlooked Factors in Allelopathic Bioassays.” Journal of Chemical Ecology 13 (6): 1481–91. Cite
Morton, Timothy C., Andrew S. Zektzer, Jason P. Rife, and John T. Romeo. 1991. “Trans-4-Methoxypipecolic Acid, an Amino Acid from Inga Paterno.” Phytochemistry 30 (7): 2397–99. Cite
Futuyma, Douglas J., Joseph S. Walsh, Timothy Morton, Daniel J. Funk, and Mark C. Keese. 1994. “Genetic Variation in a Phylogenetic Context: Responses of Two Specialized Leaf Beetles (Coleoptera: Chrysomelidae) to Host Plants of Their Congeners.” Journal of Evolutionary Biology 7 (2): 127–46. Cite
Gurevitch, Jessica, Daniel R. Taub, Timothy C. Morton, Proserpina L. Gomez, and Ing-Nang Wang. 1996. “Competition and Genetic Background in a Rapid-Cycling Cultivar of Brassica Rapa (Brassicaceae).” American Journal of Botany 83 (7): 932–38. Cite
Morton, Timothy C. 1998. “Chemotaxonomic Significance of Hydroxylated Pipecolic Acids in Central American Inga (Fabaceae: Mimosoideae: Ingeae).” Biochemical Systematics and Ecology 26 (4): 379–401. Cite
Jackrel, Sara L., Timothy C. Morton, and J. Timothy Wootton. 2016. “Intraspecific Leaf Chemistry Drives Locally Accelerated Ecosystem Function in Aquatic and Terrestrial Communities.” Ecology 97 (8): 2125–35. Cite
Pierre, Joseph F., Kristina B. Martinez, Honggang Ye, Anuradha Nadimpalli, Timothy C. Morton, Jinhui Yang, Qiang Wang, Noelle Patno, Eugene B. Chang, and Deng Ping Yin. 2016. “Activation of Bile Acids Signaling Improves Metabolic Phenotypes in High-Fat Diet-Induced Obese (DIO) Mice.” American Journal of Physiology - Gastrointestinal and Liver Physiology, June, ajpgi.00202.2016. Cite
MacQueen, Alice, Xiaoqin Sun, and Joy Bergelson. 2016. “Genetic Architecture and Pleiotropy Shape Costs of Rps2-Mediated Resistance in Arabidopsis Thaliana.” Nature Plants 2 (July): 16110. Cite
MacQueen, Alice, and Joy Bergelson. 2016. “Modulation of R-Gene Expression across Environments.” Journal of Experimental Botany 67 (7): 2093–2105. Cite
Herman, Jacob J., Hamish G. Spencer, Kathleen Donohue, and Sonia E. Sultan. 2014. “How Stable ‘Should’ Epigenetic Modifications Be? Insights from Adaptive Plasticity and Bet Hedging.” Evolution 68 (3): 632–43. Cite
Zhang, Wen. 2012. “EFFECTORSEARCH: Software for Identifying Effectors of T3SS in Bacterial Species.” Chinese Journal of Zoonoses 28 (6): 528. Cite
Roux, F., and J. Bergelson. 2016. “Chapter Four - The Genetics Underlying Natural Variation in the Biotic Interactions of Arabidopsis Thaliana: The Challenges of Linking Evolutionary Genetics and Community Ecology.” In Current Topics in Developmental Biology, edited by Virginie Orgogozo, 119:111–56. Genes and Evolution. Academic Press. Cite
Goss, Erica M, and Joy Bergelson. 2006. “Variation in Resistance and Virulence in the Interaction between Arabidopsis Thaliana and a Bacterial Pathogen.” Evolution; International Journal of Organic Evolution 60 (8): 1562–73. Cite
Juenger, Thomas, and Joy Bergelson. 2002. “The Spatial Scale of Genotype by Environment Interaction (GEI) for Fitness in the Loose-Flowered Gilia, Ipomopsis Laxiflora (Polemoniaceae).” International Journal of Plant Sciences 163 (4): 613–618. 10.1086/340447. Cite
Mitchell-Olds, T., and J. Bergelson. 1990. “Statistical Genetics of an Annual Plant, Impatiens Capensis. I. Genetic Basis of Quantitative Variation.” Genetics 124 (2): 407–415. Cite
Bergelson, Joy, Thomas Juenger, and Michael J. Crawley. 1996. “Regrowth Following Herbivory in Ipomopsis Aggregata: Compensation but Not Overcompensation.” The American Naturalist 148 (4): 744–755. Cite
Morris, WF, MB Traw, and J Bergelson. 2006. “On Testing for Tradeoffs between Constitutive and Induced Resistance.” Oikos 112: 102–110. Cite
Traw, M B, J Kim, S Enright, D F Cipollini, and J Bergelson. 2003. “Negative Cross-Talk between Salicylate- and Jasmonate-Mediated Pathways in the Wassilewskija Ecotype of Arabidopsis Thaliana.” Molecular Ecology 12 (5): 1125–35. Cite
Mauricio, Rodney, Eli A Stahl, Tonia Korves, Dacheng Tian, Martin Kreitman, and Joy Bergelson. 2003. “Natural Selection for Polymorphism in the Disease Resistance Gene Rps2 of Arabidopsis Thaliana.” Genetics 163 (2): 735–46. Cite
Kniskern, JM, LG Barrett, and J Bergelson. 2010. “Maladaptation in Wild Populations of the Generalist Plant Pathogen Pseudomonas Syringae.” Evolution 65 (3): 818–830. Cite
Cipollini, Donald F, Jeremiah W Busch, Kirk A Stowe, Ellen L Simms, and Joy Bergelson. 2003. “Genetic Variation and Relationships of Constitutive and Herbivore-Induced Glucosinolates, Trypsin Inhibitors, and Herbivore Resistance in Brassica Rapa.” Journal of Chemical Ecology 29 (2): 285–302. Cite
Shonle, I., and J. Bergelson. 2000. “Evolutionary Ecology of the Tropane Alkaloids of Datura Stramonium L. (Solanaceae).” Evolution; International Journal of Organic Evolution 54 (3): 778–788. 10.1111/j.0014-3820.2000.tb00079.x. Cite
Wichmann, Gale, and Joy Bergelson. 2004. “Effector Genes of Xanthomonas Axonopodis Pv. Vesicatoria Promote Transmission and Enhance Other Fitness Traits in the Field.” Genetics 166 (2): 693–706. 10.1534/genetics.166.2.693. Cite

University of Chicago, Dept. of Ecology & Evolution