Marker associations for fusiform rust resistance in a clonal population of loblolly pine (Pinus taeda, L.)

Cumbie, W. P.; Huber, D.A.; Steel, V.C.; Rottmann, W.; Cannistra, C.; Pearson, L.; Cunningham, M.

Tree Genetics and Genomes 16(6): 86


ISSN/ISBN: 1614-2942
DOI: 10.1007/s11295-020-01478-4
Accession: 071073479

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Fusiform rust resistance in loblolly pine, Pinus taeda L., is comprised of both polygenic and major gene effects. In this study, we applied a Bayesian approach to test for single nucleotide polymorphisms (SNPs) associated with resistance to fusiform rust, which is caused by Cronartium quercuum (Berk.) Miyabe ex Shirai f.sp. fusiforme. A population of 3810 clonal varieties from 100 full-sib families was produced through somatic embryogenesis and planted in replicated field experiments in the Southeastern United States. Rust phenotypes were measured after 6 growing seasons, and each of 863 clones from 35 full-sib families was genotyped with 3340 SNPs. We identified five associated SNPs with posterior probabilities of inclusion above 0.4 in the clonal population using a BayesC pi model. A second experiment was conducted with one of the identified SNPs (SNP2374) using seedlings from 2 full-sib families that were included in the first experiment. Resistant genotypes exhibited an overall infection rate of 11% compared to the susceptible genotype which had 57% infection. Using one of the full-sib families, we were able to map SNP2374 (CL1208Contig1-03-75) to linkage group 7. Confirmation of the SNP2374 association with rust resistance demonstrates the potential for selecting and screening genotypes to further reduce disease incidence in forest plantations of loblolly pine.