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Genetic analysis and molecular mapping of resistance gene to Phakopsora pachyrhizi in soybean germplasm SX6907

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In this study, Rpp6907, a novel resistance gene/allele to Phakopsora pachyrhizi in soybean, was mapped in a 111.9-kb region, including three NBS-LRR type predicted genes, on chromosome 18.


Soybean rust caused by Phakopsora pachyrhizi Sydow has been reported in numerous soybean-growing regions worldwide. The development of rust-resistant varieties is the most economical and environmentally safe method to control the disease. The Chinese soybean germplasm SX6907 is resistant to P. pachyrhizi and exhibits immune reaction compared with the known Rpp genes. These characteristics suggest that SX6907 may carry at least one novel Rpp gene/allele. Three F2 populations from the crosses of SX6907 (resistant) and Tianlong 1, Zhongdou40, and Pudou11 (susceptible) were used to map the Rpp gene. Three resistance responses (immune, red-brown, and tan-colored lesion) were observed from the F2 individuals. The segregation follows a ratio of 1(resistance):2(heterozygous):1(susceptible), indicating that the resistance in SX6907 is controlled by a single incomplete dominant gene (designated as Rpp6907). Results showed that Rpp6907 was mapped on soybean chromosome 18 (molecular linkage group G, MLG G) flanked by simple sequence repeat (SSR) markers SSR24 and SSR40 at a distance of 111.9 kb. Among the ten genes marked within this 111.9-kb region between the two markers, three genes (Glyma18g51930, Glyma18g51950, and Glyma18g51960) are nucleotide-binding site and leucine-rich repeat-type genes. These genes may be involved in recognizing the presence of pathogens and ultimately conferring resistance. Based on resistance spectrum analysis and mapping results, we inferred that Rpp6907 is a novel gene different from Rpp1 in PI 200492, PI 561356, PI 587880A, PI 587886, and PI 594538A, or a new Rpp1-b allele.

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This work was supported by Technological Support Project of Soybean Breeding and Propagation (2011BAD35B06), Agricultural Science and Technology innovation Program (Soybean breeding in South China) and Modern Agro-industry Technology Research System of China (nycytx-004).

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical standards

The experiments comply with the current laws of China.

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Corresponding authors

Correspondence to Zhihui Shan or Xin-an Zhou.

Additional information

Communicated by D. A. Lightfoot.

H. Chen and S. Zhao contributed equally to this study.

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Supplementary material 1 (DOC 368 kb) Supplementary Fig. S1 Comparison of resistant response of plant spray inoculation and detached leaf assay in F2 population. SX6907 detached leaf (A1), plant (B1), plants (C1) with IM response; Tianlong 1 detached leaf (A2), plant (B2), plants (C2) with TAN lesions; resistant individual detached leaf (A3), plant (B3) with IM response; heterozygous individual detached leaf (A4), plant (B4) with RB lesions; susceptible individual detached leaf (A5), plant (B5) with TAN lesions; some F2 individuals (C3)


Supplementary material 2 (DOC 100 kb) Supplementary Table S1 Resistance response comparison of plant spray inoculation and detached leaf assay using population 1 of Tianlong 1 × SX6907, along with SSR analysis


Supplementary material 3 (DOC 226 kb) Supplementary Table S2 Resistance response comparison of plant spray inoculation and detached leaf assay using population 2 of Tianlong 1 × SX6907, along with SSR analysis

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Chen, H., Zhao, S., Yang, Z. et al. Genetic analysis and molecular mapping of resistance gene to Phakopsora pachyrhizi in soybean germplasm SX6907. Theor Appl Genet 128, 733–743 (2015).

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