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

Massa, Alicia N.; Bressano, Marina; Soave, Juan H.; Buteler, Mario I.; Seijo, Guillermo; Соболев, В. С.; Orner, Valerie A.; Oddino, Claudio; Soave, Sara J.; Faustinelli, Paola C.; Blas, Francisco J. de; Lamb, Marshall C.; Arias, Renée S.

doi:10.7717/peerj.10581

Cited by 9 publications

(10 citation statements)

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“…Although only stable QTLs across the 3 years of evaluation were considered in this study, the region with significant association found on LG B09 (9.35 Mbp - 10.97 Mbp) merits further attention as a block of 457 kb on chromosome Arahy.19 has been reported as a potential region associated with resistance to peanut smut [ 20 ]. The existence of diverse sources of genetic resistance is relevant for the development of varieties with more durable resistance to smut.…”

Section: Discussionmentioning

confidence: 99%

“…Natural sources of resistance to smut found in some old peanut landraces and in wild relatives can be utilized to enhance peanut performance under high disease pressure [ 18 ]. The introgression of smut resistance into elite peanut lines and pre-breeding materials from landraces [ 19 , 20 ] and wild Arachis species [ 21 ] were recently reported by our research group. In Bressano et al [ 19 ], the recombinant inbred lines (RILs) involved crosses between three susceptible peanut elite cultivars ( Arachis hypogaea L. subsp .…”

Section: Introductionmentioning

confidence: 99%

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Genetic mapping and QTL analysis for peanut smut resistance

et al. 2021

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Background Peanut smut is a disease caused by the fungus Thecaphora frezii Carranza & Lindquist to which most commercial cultivars in South America are highly susceptible. It is responsible for severely decreased yield and no effective chemical treatment is available to date. However, smut resistance has been identified in wild Arachis species and further transferred to peanut elite cultivars. To identify the genome regions conferring smut resistance within a tetraploid genetic background, this study evaluated a RIL population {susceptible Arachis hypogaea subsp. hypogaea (JS17304-7-B) × resistant synthetic amphidiploid (JS1806) [A. correntina (K 11905) × A. cardenasii (KSSc 36015)] × A. batizocoi (K 9484)4×} segregating for the trait. Results A SNP based genetic map arranged into 21 linkage groups belonging to the 20 peanut chromosomes was constructed with 1819 markers, spanning a genetic distance of 2531.81 cM. Two consistent quantitative trait loci (QTLs) were identified qSmIA08 and qSmIA02/B02, located on chromosome A08 and A02/B02, respectively. The QTL qSmIA08 at 15.20 cM/5.03 Mbp explained 17.53% of the phenotypic variance, while qSmIA02/B02 at 4.0 cM/3.56 Mbp explained 9.06% of the phenotypic variance. The combined genotypic effects of both QTLs reduced smut incidence by 57% and were stable over the 3 years of evaluation. The genome regions containing the QTLs are rich in genes encoding proteins involved in plant defense, providing new insights into the genetic architecture of peanut smut resistance. Conclusions A major QTL and a minor QTL identified in this study provide new insights into the genetic architecture of peanut smut resistance that may aid in breeding new varieties resistant to peanut smut.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genetic mapping and QTL analysis for peanut smut resistance

et al. 2021

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“…For example, United States is a major exporter of peanuts [5], but it also imports peanuts from other countries [6] including Argentina [7]. Scientists from the U.S. and Argentina are working in collaboration to better understand the disease and to identify resistant peanut germplasm [8][9][10][11]. Part of that effort is to know the genetics of the pathogen.…”

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confidence: 99%

First draft genome of Thecaphora frezii, causal agent of peanut smut disease

et al. 2023

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Objectives The fungal pathogen Thecaphora frezii Carranza & Lindquist causes peanut smut, a severe disease currently endemic in Argentina. To study the ecology of T. frezii and to understand the mechanisms of smut resistance in peanut plants, it is crucial to know the genetics of this pathogen. The objective of this work was to isolate the pathogen and generate the first draft genome of T. frezii that will be the basis for analyzing its potential genetic diversity and its interaction with peanut cultivars. Our research group is working to identify peanut germplasm with smut resistance and to understand the genetics of the pathogen. Knowing the genome of T. frezii will help analyze potential variants of this pathogen and contribute to develop enhanced peanut germplasm with broader and long-lasting resistance. Data description Thecaphora frezii isolate IPAVE 0401 (here referred as T.f.B7) was obtained from a single hyphal-tip culture, its DNA was sequenced using Pacific Biosciences Sequel II (PacBio) and Illumina NovaSeq6000 (Nova). Data from both sequencing platforms were combined and the de novo assembling estimated a 29.3 Mb genome size. Completeness of the genome examined using Benchmarking Universal Single-Copy Orthologs (BUSCO) showed the assembly had 84.6% of the 758 genes in fungi_odb10.

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“…Single nucleotide polymorphisms (SNPs) are the most abundant DNA sequence variation in genomes and can be used as molecular markers to associate loci in the genome with phenotypic traits. Using these markers, Liang et al (2020) reported quantitative trait loci (QTLs) associated with Sclerotinia blight resistance; Pandey et al (2017) and Chu et al (2019) for early, late leaf spot and tomato spotted wilt virus resistance; Varshney et al (2014) for rust resistance, and de and Massa et al (2021) for peanut smut.…”

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confidence: 99%

Two QTLs govern the resistance to Sclerotinia minor in an interspecific peanut RIL population

Rosso¹,

Blas

Massa

et al. 2023

Crop Science

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Sclerotinia blight is a soilborne disease caused by Sclerotinia minor Jagger and can produce severe decrease in yield. Cultural management strategies and chemical treatment are not completely effective; therefore, growing peanut‐resistant varieties is likely to be the most effective control method for this disease. Sclerotinia blight resistance has been identified in wild Arachis species and further transferred to peanut elite cultivars. To identify the genome regions conferring Sclerotinia blight resistance within a tetraploid genetic background, this study evaluated a population of recombinant inbred lines (RIL) with introgressed genes from three wild diploid species: A. cardenasii, A. correntina, and A. batizocoi. Two consistent quantitative trait loci (QTLs), qSbIA04 and qSbIB04 located on chromosomes A04 and B04, respectively, were identified. The QTL qSbIA04 was mapped at 56.39 cM explaining 29% of the phenotypic variance and qSbIB04 was mapped at 13.38 cM explaining 22% of the overall phenotypic variance.

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

Cited by 9 publications

References 43 publications

Genetic mapping and QTL analysis for peanut smut resistance

Genetic mapping and QTL analysis for peanut smut resistance

First draft genome of Thecaphora frezii, causal agent of peanut smut disease

Two QTLs govern the resistance to Sclerotinia minor in an interspecific peanut RIL population

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