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Identification of quantitative trait loci affecting ectomycorrhizal symbiosis in an interspecific F1 poplar cross and differential expression of genes in ectomycorrhizas of the two parents: Populus deltoides and Populus trichocarpa

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Abstract

A Populus deltoides × Populus trichocarpa F1 pedigree was analyzed for quantitative trait loci (QTLs) affecting ectomycorrhizal development and for microarray characterization of gene networks involved in this symbiosis. A 300 genotype progeny set was evaluated for its ability to form ectomycorrhiza with the basidiomycete Laccaria bicolor. The percentage of mycorrhizal root tips was determined on the root systems of all 300 progeny and their two parents. QTL analysis identified four significant QTLs, one on the P. deltoides and three on the P. trichocarpa genetic maps. These QTLs were aligned to the P. trichocarpa genome and each contained several megabases and encompass numerous genes. NimbleGen whole-genome microarray, using cDNA from RNA extracts of ectomycorrhizal root tips from the parental genotypes P. trichocarpa and P. deltoides, was used to narrow the candidate gene list. Among the 1,543 differentially expressed genes (p value ≤ 0.05; ≥5.0-fold change in transcript level) having different transcript levels in mycorrhiza of the two parents, 41 transcripts were located in the QTL intervals: 20 in Myc_d1, 14 in Myc_t1, and seven in Myc_t2, while no significant differences among transcripts were found in Myc_t3. Among these 41 transcripts, 25 were overrepresented in P. deltoides relative to P. trichocarpa; 16 were overrepresented in P. trichocarpa. The transcript showing the highest overrepresentation in P. trichocarpa mycorrhiza libraries compared to P. deltoides mycorrhiza codes for an ethylene-sensitive EREBP-4 protein which may repress defense mechanisms in P. trichocarpa while the highest overrepresented transcripts in P. deltoides code for proteins/genes typically associated with pathogen resistance.

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Acknowledgments

This project was supported by grants from the European Commission project ENERGYPOPLAR and EVOLTREE (to FM). JL was supported by a scholarship from the INRA, Region Lorraine, the ORNL, and the U.S. Department of Energy. Oak Ridge National Laboratory (ORNL) is managed by UT-Battelle, LLC for the US Department of Energy under contract no. DE-AC05-00OR2272. We thank Christine Delaruelle, Béatrice Palin, Judith Richter, Verónica Pereda, Saskia Reinhart, Anne Delaruelle, Simon Duchêne, Aurore Coince, and Jean-Louis Churin for their assistance in the inoculation and in measuring the colonization rates. We also thank Denis Tagu for his help and fruitful discussions.

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Labbé, J., Jorge, V., Kohler, A. et al. Identification of quantitative trait loci affecting ectomycorrhizal symbiosis in an interspecific F1 poplar cross and differential expression of genes in ectomycorrhizas of the two parents: Populus deltoides and Populus trichocarpa . Tree Genetics & Genomes 7, 617–627 (2011). https://doi.org/10.1007/s11295-010-0361-3

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