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United States Department of Agriculture

Agricultural Research Service

Research Project: GENETICS, POPULATION BIOLOGY, AND HOST-PARASITE INTERACTIONS OF CEREAL RUST FUNGI AND THEIR DISEASES Title: Obligate biotrophy features unraveled by the genomic analysis of the rust fungi, Melampsora larici-populina and Puccinia graminis f. sp. tritici

item Duplessis, Sebastien -
item Cuomo, Christina -
item Lin, Yao-Cheng -
item Aerts, Andrea -
item Tisserant, Emilie -
item Veneault-Fourrey, Claire -
item Joly, David -
item Hacquard, Stephane -
item Amselem, Joelle -
item Cantarel, Brandi -
item Chiu, Readman -
item Couthinho, Pedro -
item Feau, Nicolas -
item Field, Mathew -
item Frey, Pascal -
item Gelhaye, Eric -
item Goldberg, Jonathan -
item Grabherr, Manfred -
item Kodira, Chinnappa -
item Kohler, Annegret -
item Kues, Ursula -
item Lindquist, Erika -
item Lucas, Susan -
item Mauceli, Evan -
item Morin, Emmanuelle -
item Murat, Claude -
item Pearson, Matthew -
item Quesneville, Hadi -
item Rouhier, Nicolas -
item Sakthikumar, Sharadha -
item Schmutz, Jeremy -
item Selles, Benjamin -
item Shapiro, Harris -
item Tangay, Philippe -
item Tuskan, Gerald -
item Van DE Peer, Yves -
item Henrissat, Bernard -
item Rouze, Pierre -
item Schein, Jacquie -
item Dodds, Peter -
item Zhong, Shaobin -
item Hamelin, Richard -
item Birren, Bruce -
item Grigoriev, Igor -
item Szabo, Les
item Martin, Francis -

Submitted to: Phytopathology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: March 31, 2011
Publication Date: May 31, 2011
Citation: Duplessis, S., Cuomo, C.A., Lin, Y., Aerts, A., Tisserant, E., Veneault-Fourrey, C., Joly, D., Hacquard, S., Amselem, J., Cantarel, B., Chiu, R., Couthinho, P., Feau, N., Field, M., Frey, P., Gelhaye, E., Goldberg, J., Grabherr, M., Kodira, C., Kohler, A., Kues, U., Lindquist, E., Lucas, S., Mauceli, E., Morin, E., Murat, C., Pearson, M., Quesneville, H., Rouhier, N., Sakthikumar, S., Schmutz, J., Selles, B., Shapiro, H., Tangay, P., Tuskan, G.A., Van De Peer, Y., Henrissat, B., Rouze, P., Schein, J., Dodds, P.N., Zhong, S., Hamelin, R.C., Birren, B.W., Grigoriev, I.V., Szabo, L.J., Martin, F. 2011. Obligate biotrophy features unraveled by the genomic analysis of the rust fungi, Melampsora larici-populina and Puccinia graminis f. sp. tritici. Phytopathology. 108:9166-9171.

Interpretive Summary: Rust fungi (Pucciniales, Basidiomycota), is a diverse group of plant pathogens composed of more than 120 genera and 6,000 species and are one of the most economically important groups of pathogens of native and cultivated plants. They are obligate biotrophic parasites that have evolved specialized feeding structures structures, formed within host tissue, to efficiently acquire nutrients and suppress host defense responses. The genomes of two evolutionarly divergent rust fungi, Puccinia graminis (wheat stem rust pathogen) and Melampsora larici-populina (leaf rust pathogen of poplar) were sequenced. Genomic features specific to the obligate biotrophic life-style were identified. This represents the first genome wide characterization of any rust fungi and provides critical information that will facilitate a better understanding of the complex interactions between these pathogens and their hosts. This knowledge will enable scientist to develop new approaches to control these economically important plant pathogens.

Technical Abstract: Rust fungi are some of the most devastating pathogens of crop plants. They are obligate biotrophs, which extract nutrients only from living plant tissues and cannot grow apart from their hosts. Their lifestyle has slowed the dissection of molecular mechanisms underlying host invasion and avoidance of plant innate immunity. We sequenced the 101–mega–base pair genome of Melampsora larici-populina, the causal agent of poplar leaf rust, and the 89–mega–base pair genome of Puccinia graminis f. sp tritici, the causal agent of wheat and barley stem rust. We then compared the ~16,850 predicted proteins of M. larici-populina to the 18,240 predicted proteins of P. graminis f. sp tritici. Genomic features related to their obligate biotrophic life-style include expanded lineage-specific gene families, a large repertoire of effector-like small secreted proteins (SSPs), impaired nitrogen and sulfur assimilation pathways, and expanded families of amino-acid, oligopeptide and hexose membrane transporters. The dramatic upregulation of transcripts coding for SSPs, secreted hydrolytic enzymes, and transporters in planta suggests that they play a role in the host infection and nutrient acquisition. Some of these genomic hallmarks are mirrored in the genomes of other microbial eukaryotes that have independently evolved to infect plants, indicating convergent adaptation to a biotrophic existence inside plant cells.

Last Modified: 8/24/2016