Project Details:

Rhg1, cqSCN Loci and Epigenetic Determinants of Resistance to Soybean Cyst Nematode (1720-172-0131)

Parent Project: Improved Resistance to Soybean Cyst Nematode via Rhg1 and Other Soybean Loci (Year 1 of 1420-532-5643)
Checkoff Organization:United Soybean Board
Categories:Nematodes, Breeding & genetics, Environmental stress
Organization Project Code:1720-172-0131
Project Year:2017
Lead Principal Investigator:Andrew Bent (University of Wisconsin)
Co-Principal Investigators:
Brian Diers (University of Illinois at Urbana-Champaign)
Matthew Hudson (University of Illinois at Urbana-Champaign)
Keywords: soybean cyst nematode, SCN, SCN resistance, Rhg1 resistance

Contributing Organizations

Funding Institutions

Information and Results

Comprehensive project details are posted online for three-years only, and final reports indefinitely. For more information on this project please contact this state soybean organization.

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Final Project Results

Updated November 8, 2017:
• Research has been focused on identifying plants with crossover events in the regions where the SCN resistance QTL cqSCN-006 and cqSCN-007 are located. Overall 16 plants were identified, 5 with crossovers in cqSCN-006 and 11 close to cqSCN-007. The positions of the crossover events in the selected plants were mapped with markers and the selected plants are now being grown to maturity. Seed harvested from some of these plants will be grown in SCN tests to determine the position of the QTL relative to the crossover events.
• The chromosome walking for the SCN-cq006 and 007 loci is in final phases with small gaps to be closed. In addition to the large deletion located in the SCN-cq007 interval, a new candidate polymorphism has been identified in a gamma-SNAP protein, a key candidate gene in the SCN-cq006 interval. Although the polymorphism lies outside the coding region of the gene as annotated in the reference genome, the polymorphism may affect the coding sequence of an alternatively spliced mRNA expressed in the resistant genotype.
• Continued work with WCIC (former Monsanto soybean transformation facility, now UW-Madison facility), to generate transgenic CRISPR soybean lines for each candidate gene in the cqSCN-006 and cqSCN-007 intervals. For each of 17 candidate genes we have constructed and are now modifying plasmids for CRISPR mutagenesis.
• Ten plants that show a higher copy number than Fayette were selected along with five plants that show a lower copy number. Once the plants are mature, progeny from the plants will be tested for SCN resistance and any lines that show changes in resistance will be evaluated with other genetic methods to confirm their copy number.
• Regarding epigenetic status of Rhg1 locus: Several different experiments have been initiated: these include high resolution DNA methylation data for Rhg1 locus in 5 soybean varieties, studies of the Rhg1 chromatin status, and studies of the effect of hypo methylation on Rhg1 expression.

The knowledge that the number of copies of the gene Rhg1 may have bearing on the magnitude of SCN resistance within a variety will make a difference in the future of how varieties are bred for improved SCN resistance.

Project Years