Quantitative trait loci and gene-specific markers associated with resistance to soybean cyst nematode HG type 2.5.7

Xin Lu; Sepideh Torabi; André Luiz de Lima Passianotto; Tom Welacky; Milad Eskandari

doi:10.1007/s11032-022-01330-8

Quantitative trait loci and gene-specific markers associated with resistance to soybean cyst nematode HG type 2.5.7

Mol Breed. 2022 Sep 29;42(10):62. doi: 10.1007/s11032-022-01330-8. eCollection 2022 Oct.

Authors

Xin Lu¹, Sepideh Torabi¹, André Luiz de Lima Passianotto¹, Tom Welacky², Milad Eskandari¹

Affiliations

¹ Department of Plant Agriculture, University of Guelph, Guelph, Canada.
² Agriculturan and Agri-Food Canada, Harrow Research Station, Essex, Canada.

Abstract

Soybean cyst nematode (SCN) is one of the most damaging soybean (Glycine max) pests worldwide. More than 95% of SCN-resistant commercial cultivars in North America are derived from a single source of resistance named PI 88788, and the widespread use of this source in the past three decades has led to the selection of virulent biotypes of SCN, such as HG (Heterodera glycines) type 2.5.7 that can overcome the PI 88788-type resistance. The objectives of this study were to identify quantitative trait loci (QTL) and candidate genes underlying the resistance to HG type 2.5.7 isolate and to measure the impact of the resistance factors on seed yield. To achieve the goals, a recombinant inbreed line (RIL) population was established from a cross between an SCN-susceptible high-yielding elite soybean cultivar, OAC Calypso, and the cultivar LD07-3419, resistant to SCN HG type 2.5.7. The RILs resistant to HG type 2.5.7 were identified using greenhouse bioassay tested for differentiation of resistant sources using Kompetitive Allele-Specific PCR (KASP) assay at rhg1 and Rhg4 loci and also for rhg1 copy number variation using TaqMan assay. The RILs were also genotyped using genotype-by-sequencing and three SCN-related QTL were identified on chromosomes 9, 12, and 18 using composite interval mapping. In addition, 31 genes involved in protein kinase activity were identified within QTL regions as potential causal candidate genes underlying the resistance. No significant correlation was found between seed yield and the resistance to SCN in the RIL population evaluated under non-SCN-infested environments.

Supplementary information: The online version contains supplementary material available at 10.1007/s11032-022-01330-8.

Keywords: Candidate genes; HG type 2.5.7; SCN related QTL; Soybean cyst nematode (SCN); Yield.

© The Author(s), under exclusive licence to Springer Nature B.V. 2022. Springer Nature or its licensor holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.