Molecular Mechanisms and Dynamics of Plant-Microbe Interactions at the Root-Soil Interface (InRoot) 


InRoot will provide knowledge and tools for science-based development of new crop varieties and associated microbial interventions that will improve productivity, reduce the need for fertilizers and pesticides, and alleviate negative environmental impact. These critically important advances will be achieved by disentangling the effects of climate and soil type from the impact of root-microbe interactions, identifying key bacterial taxa governing the establishment of host-driven microbial networks in the rhizosphere, defining the plant genetic components that control infection of plant roots by ubiquitous and host-specific endophytes, understanding molecular mechanisms integrating root-microbe interactions into whole-plant physiology, and predicting plant performance as a function of plant and microbiota genotypes by building multiscale models. This project will focus on identifying conserved and specialized
features using genetically tractable plants representing the major food, feed, protein and oil crops: 1) the legume Lotus japonicus as a model for soybean, fava bean and other legume crops, 2) Wheat to represent maize, rice, and other cereal crops, and 3) Arabidopsis representing the non-arbuscular mycorrhiza (AM) symbiotic Brassicaceae plants.


Meet our team:

Project Lead:

Professor Jens Stougaard

Aarhus University

Plant Genetics


Project Manager

Taylor Grace Fitzgerald


Aarhus University

Head of Department, Professor Erik Østergaard Jensen, Molecular Biology

Associate Professor Stig Uggerhøj Andersen, Genomics
Associate Professor Simona Radutoiu, Microbiome

Associate Professor Marianne Glasius, Chemistry
Assistant Professor Kasper Røjkjær Andersen, Biochemistry

Lecturer at La Trobe University Dugald Reid

Postdoctoral Researcher Emil Christian Poulsen

Postdoctoral Researcher Shaun Ferguson

Postdoctoral Researcher Ke Tao

Postdoctoral Researcher Turgut Yigit Akyol

Postdoctoral Researcher Florian Lamouche

Postdoctoral Researcher Nikolaj Abel

Postdoctoral Researcher Johan Quilbe

Graduate Student Camilla Salomonsen

Graduate Student Anna Martyn

Graduate Student Ib Thorsgaard Jensen

Graduate Student Sofie Jin Vistisen Christiansen

Graduate Student Adrián Gómez Repollés

Graduate Student Eber Daniel Villa Rodríguez

Graduate Student Troels Wisen Mouritzen

Research Assistant Sha Zhang


Tohoku University

Professor Shusei Sato, Field phenotyping

Assistant Professor Masaru Bamba

Postdoctoral Researcher Yusdar Mustamin


University of Copenhagen

Professor Thomas Georg Roitsch, Plant physiology

Postdoctoral Researcher Chandana Pandey


North Carolina State University

Professor Heike Sederoff, Plant metabolism

Professor Cranos Williams, Modeling

Assistant Professor Manuel Kleiner, Metaproteomics

Postdoctoral Researcher Kirtley Amos

Postdoctoral Researcher Lisa David

Postdoctoral Researcher Samiksha Saxena

Graduate Student Clara Tang

Graduate Student Delecia Utley

Graduate Student Megan Franklin

Graduate Student Max Gordon


Utrecht University

Assistant Professor Ronnie de Jonge, Microbial genetics

Graduate Student Gijs Selten


UC Berkeley

Professor Henrik V. Scheller, Synthetic biology

Graduate Student Lorenzo Washington

Graduate Student Karen Serrano


Technical University of Denmark

Professor Paul Pop, BioSensors

Professor Jan Madsen, Modeling

Associate Professor, Winnie Edith Svendsen, BioSensors

Assistant Professor, Sofie Pødenphant Jensen

Postdoctoral Researcher Buddhadev Purohit



Postdoctoral Researcher Nicole Parsley

Postdoctoral Researcher Sebastian Schneider

Graduate Student Madihah Manggabarani

Research Assistant Sophia Schiermacher Stavnstrup

Project Manager Rebecca Fitchett

Project Manager Leila Kathleen Walker

Postdoctoral Researcher Meenal Chaudhari

Postdoctoral Researcher Saqib Saleem Akhtar

Postdoctoral Researcher Peter Klemmed Bjørk

Assistant Professor Simon Kelly, Bacterial genetics