Molecular mapping of soybean rust resistance in soybean accession PI 561356 and SNP haplotype analysis of the Rpp1 region in diverse germplasm

Authors

Ki-Seung Kim, University of Illinois
Jair R. Unfried, TMG-Tropical Melhoramento & Genética, Caixa Postal 387, Ltda. Rodovia Celso Garcia Cid, Km 87, Parque Industrial, Cambé, Paraná 86183-600, Brazil
D. L. Hyten, USDA-ARS, Soybean Genomics and Improvement Laboratory, Beltsville, MarylandFollow
Reid D. Frederick, Foreign Disease-Weed Science Research Unit, USDA-ARSFollow
Glen L. Hartman, University of Illinois
Randall L. Nelson, University of IllinoisFollow
Qijian Song, Soybean Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, USDA-ARSFollow
Brian W. Diers, University of IllinoisFollow

ORCID IDs

D. L. Hyten

Document Type

Article

Date of this Version

2012

Citation

Theor Appl Genet (2012) 125:1339–1352

Abstract

Soybean rust (SBR), caused by Phakopsora pachyrhizi Sydow, is one of the most economically important and destructive diseases of soybean [Glycine max (L.) Merr.] and the discovery of novel SBR resistance genes is needed because of virulence diversity in the pathogen. The objectives of this research were to map SBR resistance in plant introduction (PI) 561356 and to identify single nucleotide polymorphism (SNP) haplotypes within the region on soybean chromosome 18 where the SBR resistance gene Rpp1 maps. One-hundred F_2:3 lines derived from a cross between PI 561356 and the susceptible experimental line LD02-4485 were genotyped with genetic markers and phenotyped for resistance to P. pachyrhizi isolate ZM01-1. The segregation ratio of reddish brown versus tan lesion type in the population supported that resistance was controlled by a single dominant gene. The gene was mapped to a 1-cM region on soybean chromosome 18 corresponding to the same interval as Rpp1. A haplotype analysis of diverse germplasm across a 213-kb interval that included Rpp1 revealed 21 distinct haplotypes of which 4 were present among 5 SBR resistance sources that have a resistance gene in the Rpp1 region. Four major North American soybean ancestors belong to the same SNP haplotype as PI 561356 and seven belong to the same haplotype as PI 594538A, the Rpp1-b source. There were no North American soybean ancestors belonging to the SNP haplotypes found in PI 200492, the source of Rpp1, or PI 587886 and PI 587880A, additional sources with SBR resistance mapping to the Rpp1 region.