Genotyping tools and resources to assess peanut germplasm: smut-resistant landraces as a case study

Authors: Massa, Alicia; BRESSANO, MARINA - Universidad Nacional De Cordoba; SOAVE, JUAN - Criadero El Carmen, Arg; BUTELER, MARIO - Criadero El Carmen, Arg; SEIJO, GUILLERMO - Instituto De Botánica Del Nordeste; Sobolev, Victor; Orner, Valerie; ODDINO, CLAUDIO - Criadero El Carmen, Arg; SOAVE, SARA - Criadero El Carmen, Arg; Faustinelli, Paola; DE BLAS, FRANCISCO - University Of Cordoba; Lamb, Marshall; Arias De Ares, Renee

Submitted to: PeerJ
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 11/24/2020
Publication Date: 1/29/2021
Citation: Massa, A.N., Bressano, M., Soave, J.H., Buteler, M.I., Seijo, G., Sobolev, V., Orner, V.A., Oddino, C., Soave, S.J., Faustinelli, P.C., De Blas, F.J., Lamb, M.C., Arias De Ares, R.S. 2021. Genotyping tools and resources to assess peanut germplasm: smut-resistant landraces as a case study. PeerJ. https://doi.org/10.7717/peerj.10581.
DOI: https://doi.org/10.7717/peerj.10581

Interpretive Summary: Peanut landraces are a valuable source of genetic diversity for disease resistance. In a previous study, we reported two smut resistant landraces and demonstrated its introgression into susceptible peanut cultivars. Here we verified the genetic identity of one of these sources in the U.S. peanut germplasm collection. The study reports the germplasm source of the resistant line with accompanying genotyping data and diagnostic Single Nucleotide Polymorphism markers.

Technical Abstract: Peanut smut caused by Thecaphora frezii is a severe fungal disease currently endemic to Argentina and Brazil. The identi'cation of smut resistant germplasm is crucial in view of the potential risk of a global spread. In a recent study, we reported new sources of smut resistance and demonstrated its introgression into elite peanut cultivars. Here, we revisited one of these sources (line I0322) to verify its presence in the U.S. peanut germplasm collection and to identify single nucleotide polymorphisms (SNPs) potentially associated with resistance. Five accessions of Arachis hypogaea subsp. fastigiata from the U.S. peanut collection, along with the resistant source and derived inbred lines were genotyped with a 48K SNP peanut array. A recently developed SNP genotyping platform called RNase H2 enzyme-based ampli'cation (rhAmp) was further applied to validate selected SNPs in a larger number of individuals per accession. More than 14,000 SNPs and nine rhAmp assays con'rmed the presence of a germplasm in the U.S. peanut collection that is 98.6% identical (P < 0.01, bootstrap t-test) to the resistant line I0322. We report this germplasm with accompanying genetic information, genotyping data, and diagnostic SNP markers.