The Center for Integrated Fungal Research

We are a multidisciplinary group of researchers on a mission to interrogate the 
complex plant-microbe-soil system to resolve societal grand challenges.

About us

The goal of the Center for Integrated Fungal Research (CIFR) is to integrate all aspects of fungal research including environmental and climate initiatives, disease, agriculture, evolution, mathematical modeling, genomics and bioinformatics, and to translate knowledge from fundamental research to stakeholders, the general public, and the scientific community. CIFR will promote education and understanding of the relative contribution of global biodiversity to the beneficial and deleterious activities of fungi.

News and Events

EVENT

Visit to Sustainability Center at BASF

November 21, 2024
NEWS

Carbone awarded MSA Fellow

June 12, 2024

CIFR Director Ignazio Carbone received the Mycological Society of America (MSA) Fellow at the 2024 MSA meeting (Markham, Ontario, Canada; June 9-12). Read more about this award and his contributions to the field of mycology, on page 7 of the program found HERE. Congratulations!

NEWS

Hawkes named WNR Distinguished Professor

February 23, 2024

Congratulations to Christine Hawkes for being one of twelve professors in CALS to be named a William Neal Reynolds Distinguished Professor. See the video announcement HERE.

NEWS

Duckworth named a fellow of the SSSA

November 27, 2023

Owen Duckworth has been named a Fellow of the Soil Science Society of America.  Congratulations on this recognition!

Research

Fungi represent a diverse group of organisms that are important to society and the ecosystem.  From a basic research perspective, fungi have been exploited to gain insight into more complex biological processes including the molecular basis of human disease. Fungi provide nourishment, are a rich source of numerous antibiotics and other valuable products, and are used extensively in industrial fermentation processes. Fungi also cause devastating diseases, particularly of plants, and continue to be responsible for enormous human suffering. It is noteworthy that a significant number of plant pathogenic fungi also cause serious human and animal disease, for which there are very few effective therapeutic agents.

Mission

The mission of CIFR is to most effectively work towards combating the threat of fungal disease and to enhance industrial application of fungi through integration of a broad range of approaches and expertise within a formal scientific framework, to improve genomic research techniques through collaborative efforts with industry and technological partners, to disseminate related educational information to the general public and to provide training and instruction for students, post-doctoral fellows and visiting scientists in fungal biology and genomics.

Vision

Fungal and microbial bioscience solutions for sustainable agriculture, health management and environmental stewardship. We strive to develop a holistic view of the interactions of fungi with animals, insects, microbes, and plants at different genetic scales from individuals to communities, and the environment, at scales from molecular to ecosystem. Developing a multidisciplinary view of the whole plant-microbe-soil system will position CIFR to be a world leader in the exploration of fungi in the biosphere to resolve societal grand challenges.

Focal Areas

Fungal Plant Pathogens and Epidemiology

Understanding disease etiology of fungi such as i) Rhizoctonia on agricultural plants, ii) Magnaporthe oryzae, the causal agent of rice blast disease, and iii) Stagonospora nodorum blotch in winter wheat.

Evolutionary Biology and Population Genetics

Application of analytical methods to understand the genetic diversity and evolution of various fungi including yeast, Aspergillus, and chytrids.

Microbial Engineering, Interactions and Ecology

Innovative approaches, such as engineered microbial communities, to explore plant-microbe and human-gut-microbe interactions.

Computational Tools and Mathematical Modelling

Computational tools to explore evolutionary and population genomics, biological networks, prediction of emerging plant-pathogens, and disease etiology.

Molecular Mechanisms and Biocatalysis

Classical and chemical approaches to characterize mechanisms that have important implications in agriculture.

Partnering and Licensing

Partnerships with industry to license computational tools and to commercialize CIFR patents and IP.

Featured Research

Timelapse fluorescence and DIC microscopy
of a crawling zoospore

Chytrid fungi make motile spores called zoospores that can crawl like an amoeba or swim with a flagellum. In the Buchler lab we study a soil chytrid, Spizellomyces punctatus, and use Agrobacterium to insert genes that make the fungi fluoresce or glow (Medina et al, eLife 2020).

Tracking plant pathogens on regional and global scales

Sexual recombination and migration are two important forces driving diversification in pathogen populations. In the Carbone lab, we apply population genomics and genomic surveillance approaches to quantify historical and contemporary pathogen gene flow dynamics.

“Developing new approaches for integrating highly heterogeneous data is emerging as one of the grand challenges of biology and is foundational for both basic and applied research.”

–Ignazio Carbone, Director, Center for Integrated Fungal Research

DeCIFR Tools

T-BAS Toolkit

Tree-Based Alignment Selector Toolkit

GNPS Ontology

Place MASST search results on NCBI taxonomy tree

Splitstree

Infer splits phylogenetic networks using Neighbor-Net

Contact us

Have a question for CIFR?  Please reach out to Dr. Mary Anna Carbone (CIFR Project Manager):