DArT-based evaluation of soybean germplasm from Polish Gene Bank

Czembor, E.; Czembor, Jerzy H.; Suchecki, Radosław; Watson-Haigh, Nathan S.

doi:10.1186/s13104-021-05750-1

Cited by 10 publications

(5 citation statements)

References 17 publications

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“…In case of barley (Hordium vulgare), rusts and PM diseases that have a major effect on yield. Based on phenotyping of 431 European barley accessions for two seasons and genotyping using DArT-seq, 78 MTAs for PM and rusts adult plant resistance were reported (Czembor et al, 2022). In case of spot blotch resistance, 11 out of 20 genetic loci at the seedling and adult stages were associated with functional candidate genes.…”

Section: Barleymentioning

confidence: 99%

Two decades of association mapping: Insights on disease resistance in major crops

et al. 2022

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Climate change across the globe has an impact on the occurrence, prevalence, and severity of plant diseases. About 30% of yield losses in major crops are due to plant diseases; emerging diseases are likely to worsen the sustainable production in the coming years. Plant diseases have led to increased hunger and mass migration of human populations in the past, thus a serious threat to global food security. Equipping the modern varieties/hybrids with enhanced genetic resistance is the most economic, sustainable and environmentally friendly solution. Plant geneticists have done tremendous work in identifying stable resistance in primary genepools and many times other than primary genepools to breed resistant varieties in different major crops. Over the last two decades, the availability of crop and pathogen genomes due to advances in next generation sequencing technologies improved our understanding of trait genetics using different approaches. Genome-wide association studies have been effectively used to identify candidate genes and map loci associated with different diseases in crop plants. In this review, we highlight successful examples for the discovery of resistance genes to many important diseases. In addition, major developments in association studies, statistical models and bioinformatic tools that improve the power, resolution and the efficiency of identifying marker-trait associations. Overall this review provides comprehensive insights into the two decades of advances in GWAS studies and discusses the challenges and opportunities this research area provides for breeding resistant varieties.

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Section: Barleymentioning

confidence: 99%

Two decades of association mapping: Insights on disease resistance in major crops

et al. 2022

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“…The DArT data were handled in the same manner as described previously for soybean [61]. That is, we used the dartR v1.1.11 package [62] in the R programming language.…”

Section: Data Filtering Processmentioning

confidence: 99%

Genome-Wide Association Study for Powdery Mildew and Rusts Adult Plant Resistance in European Spring Barley from Polish Gene Bank

Czembor

Suchecki

et al. 2021

Agronomy

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Rusts and powdery mildew are diseases that have a major effect on yield loss in barley. Adult Plant Resistance (APR) is a post-seedling resistance mechanism and its expression is influenced by many factors, including host susceptibility and weather conditions, as well as the timing and severity of disease outbreaks. There are two mechanisms associated with APR: non-hypersensitive and minor gene APR. In this study, 431 European barley accessions were evaluated phenotypically over 2 years (2018–2019) under field conditions, scoring APR to powdery mildew (PM), barley brown rust (BBR), and stem rust (SR), and genotypically using DArTseq. Accessions were grouped into sub-collections by cultivation period (group A—cultivated prior 1985, B—cultivated after 1985, and C—Polish landraces) and by European country of origin or European region. GWAS was conducted for PM, BBR, and SR, and scored at the heading (HA) and milky-waxy (MW) seed stages in 2019 and maximum scores across all replicates were obtained 2018–2019. Disease severity was sufficient to differentiate the collection according to cultivation time and country of origin and to determine SNPs. Overall, the GWAS analysis identified 73 marker–trait associations (MTAs) with these traits. For PM resistance, we identified five MTAs at both the HA stage and when considering the maximal disease score across both growth stages and both years. One marker (3432490-28-T/C) was shared between these two traits; it is located on chromosome 4H. For BBR resistance, six MTAs at HA and one MTA at the MW stage in 2019 and seven MTAs, when considering the maximal disease score across both growth stages and both years, were identified. Of the 48 markers identified as being associated with SR resistance, 12 were on chromosome 7H, 1 was in the telomeric region of the short arm, and 7 were in the telomeric region of the long arm. Rpg1 has previously been mapped to 7HS. The results of this study will be used to create a Polish Gene Bank platform for precise breeding programs. The resistant genotypes and MTA markers will serve as a valuable resource for breeding for PM, BBR, and SR resistance in barley.

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“…In Europe, early maturity soybean accessions from the north of Europe are related to chilling tolerant plant introductions similar to Canadian genotypes (Yamaguchi et al 2018), whereas south European soybeans frequently have a northern United States (US) genetic background (Hrustic and Miladinovic 2011;Tomicic et al 2015). Genetic diversity in French (Tavaud-Pirra et al 2009), Polish (Czembor et al 2021), Central European (Hahn and Würschum 2014) and Central-South European (Žulj Mihaljević et al 2020) soybean germplasm and breeding materials has been reported in a number of individual studies utilizing different genomic tools and marker systems, but a comprehensive European analysis is still missing.…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity in early maturity Chinese and European elite soybeans: A comparative analysis

Yao

Liu

et al. 2023

Euphytica

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Soybean (Glycine max [L.] Merr.) is a legume crop important for global food security due to supplying high-quality vegetable protein and oil. China is the origin and rich center of soybean genetic diversity represented by numerous landraces and other genetic resources. During the nineteenth and twentieth centuries, world-wide dissemination of plant introductions laid the foundation of modern soybean production. Due to selection for regional adaptation, present-day elite soybean cultivars do have a comparatively narrow genetic base. However, as genetic variation is the major component of future breeding progress, diversity of early maturity Chinese and European elite soybeans was comparatively analyzed using a high-throughput functional SNP array and an SSR marker set. Results revealed a clear differentiation between Chinese and European elite cultivars, and the level of genetic diversity was similar between the two populations. Both in Chinese and European cultivars, unique SSR alleles were found which indicates that selection for specific adaptation can preserve genetic variation. The European population was markedly structured by maturity groups which was less clear in the Chinese population. Structure analysis indicated that European cultivars are based on two major ancestral lines, whereas Chinese elite soybean cultivars trace back to more ancestral lines pointing to the rich natural soybean diversity of China. The results confirm that long-term selection under divergent environmental and agronomic conditions can produce specific diversity which could potentially be utilized for future enhancing both Chinese and European soybean breeding.

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DArT-based evaluation of soybean germplasm from Polish Gene Bank

Cited by 10 publications

References 17 publications

Two decades of association mapping: Insights on disease resistance in major crops

Two decades of association mapping: Insights on disease resistance in major crops

Genome-Wide Association Study for Powdery Mildew and Rusts Adult Plant Resistance in European Spring Barley from Polish Gene Bank

Genetic diversity in early maturity Chinese and European elite soybeans: A comparative analysis

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