Identification of genomic loci conferring broad-spectrum resistance to multiple nematode species in exotic soybean accession PI 567305

• Published in: Theoretical and applied genetics 2021-10, Vol.134 (10), p.3379-3395
• Main Authors: Vuong, T. D., Sonah, H., Patil, G., Meinhardt, C., Usovsky, M., Kim, K. S., Belzile, F., Li, Z., Robbins, R., Shannon, J. G., Nguyen, H. T.
• Format: Article
• Language: English
• Subjects: Agricultural economics; Agriculture; Animals; Biochemistry; Biomedical and Life Sciences; Biotechnology; Biotechnology industry; Chromosome Mapping - methods; Chromosomes; Chromosomes, Plant - genetics; Copy number; Cultivars; Disease Resistance - genetics; Disease Resistance - immunology; Gene Expression Regulation, Plant; Gene loci; Gene mapping; Genetic analysis; Genetic aspects; Genetic Markers; Genomic analysis; Genotypes; Genotyping; Germplasm; Glycine max; Glycine max - genetics; Glycine max - growth & development; Glycine max - parasitology; Haplotypes; Inbreeding; Life Sciences; Nematoda; Nematodes; Original Article; Pest resistance; Phenotype; Plant Biochemistry; Plant Breeding/Biotechnology; Plant Diseases - genetics; Plant Diseases - immunology; Plant Diseases - parasitology; Plant Genetics and Genomics; Plant Proteins - genetics; Plant Proteins - metabolism; Polymorphism, Single Nucleotide; Quantitative genetics; Quantitative Trait Loci; Soybean; Soybeans; Species; Tylenchoidea - physiology
• ISSN: 0040-5752; 1432-2242
• DOI: 10.1007/s00122-021-03903-1

Key Message Genetic analysis identified a unique combination of major QTL for resistance to important soybean nematodes concurrently present in a single soybean accession, which has not been reported earlier. An exotic soybean [ Glycine max (L.) Merr.] accession, PI 567305, was reported to be highly resistant to three important nematode species, soybean cyst (SCN), root-knot (RKN), and reniform (RN) nematodes. However, genetic basis controlling broad-spectrum resistance in this germplasm has not been investigated. We report results of genetic analysis to identify genomic loci conferring resistance to these nematode species. A bi-parental population consisting of 242 F 8 -derived recombinant inbred lines (RILs) was developed from a cross of a nematode susceptible cultivar, Magellan, and resistant accession, PI 567305. The RILs were phenotyped for nematode resistance to three SCN HG types. They were genotyped using the Infinium SoySNP6K BeadChips and genotype-by-sequencing (GBS) methods in an attempt to evaluate the cost-effectiveness and efficiency of these two genotyping platforms. Genetic analysis confirmed the major QTL on chromosomes (Chrs) 10 and 18 with broad-spectrum resistance to the three nematodes present in this germplasm. Haplotype and copy number variation analyses of SCN resistance QTL indicated that PI 567305 has a different haplotype, which is associated with likely a unique SCN resistance mechanism different from Peking- or PI 88788-type resistance. The evaluations of both Infinium Beadchip- and GBS-based genotyping technologies provided comprehensive insights for researchers to choose a cost-effective and efficient platform for QTL mapping and for other genomic studies in soybeans.