A method to obtaining novel sources of resistance in soybean against SCN

Citation

Bahram Samanfar, Nour Nissan, James Green, Benjamin Mimee, Elroy Cober: A method to obtaining novel sources of resistance in soybean against SCN. World Soybean Research Conference 11 (WSRC11), 2023, Vienna, Austria [Oral].

Résumé

Soybean (Glycine max (L.) Merr.) is an economically important crop for a variety of reasons
including being a partner in sustainable agricultural management practices, as well as an
important source of food, feed, and fuel. Soybean growth in many areas of the world is being
threatened by a plant parasitic nematode called soybean cyst nematode, Heterodera glycines
Ichinohe, (SCN) which causes yield losses of up to 80%. Once the pest is present in the soil,
irradication is almost impossible. Currently, only two resistant genes are being widely rotated in
SCN infested fields, rhg1 and Rhg4. Because of this, SCN populations have begun to learn the
resistance mechanism and overcome it. Hence, the identification of novel resistant genes in
soybean is necessary to save this crop. A state‐of‐the‐art pipeline has been developed through
applying functional genomics and systems biology practices; this involved investigating various
computational databases, including single nucleotide polymorphisms, loss of function, TAIR10 and
BLASTP, in addition to two leading sequence‐based PPI prediction tools: Protein‐protein
Interaction Prediction Engine (PIPE4), and Scoring PRotein INTeractions (SPRINT). These two
computational engines were used to search the entire soybean and SCN proteomes for proteins
interacting with already known resistance proteins, rhg1 and Rhg4. Using this pipeline on entire
soybean genome, a short‐list of 56 candidate genes was attained. Of these candidates, 4 were
published about recently, one SCN resistance, and 3 in resistance to other pathogens. In addition,
16 of the 56 genes contained annotations related to pathogen resistance in plants. Further
investigation of these potential candidate genes is currently in progress through an RNA‐seq
experiment, with the aim of developing allele‐specific markers to assist breeding programs
developing new resistant cultivars to SCN.