Genetics and Genomics of Stress Tolerance

Rakoczy-Trojanowska, Monika; Bolibok-Brągoszewska, Hanna; Myśków, Beata; Dzięgielewska, M.; Stojałowski, Stefan; Grądzielewska, Agnieszka; Boczkowska, Maja; Moskal, Kinga

doi:10.1007/978-3-030-83383-1_11

Cited by 8 publications

(5 citation statements)

References 173 publications

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“…Much of the research in this field published to date has aimed to identify regions/genes on genetic maps [ 6 – 8 ]. Of the 16 genes identified in this manner, of profound importance is the Pr3 locus on chromosome 1R, which carries many genes controlling agronomically important traits but mainly involved in tolerance to abiotic and biotic stresses, including LR [ 32 , 33 ].…”

Section: Resultsmentioning

confidence: 99%

Identification of quantitative trait loci associated with leaf rust resistance in rye by precision mapping

Matuszkiewicz,

Grądzielewska,

Święcicka

et al. 2024

BMC Plant Biol

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Background Leaf rust (LR) is among the most destructive fungal diseases of rye (Secale cereale L.). Despite intensive research using various analytical and methodological approaches, such as quantitative trait locus (QTL) mapping, candidate gene expression analysis, and transcriptome sequencing, the genetic basis of the rye immune response to LR remains unclear. Results A genome-wide association study was employed to detect QTLs controlling the immune response to LR of rye. A mapping population, G38A, was constructed by crossing two inbred lines: 723 (susceptible to LR) and JKI-NIL-Pr3 (a donor of the LR resistance gene Pr3). For genotyping, SNP-DArT and silico-DArT markers were used. Resistance phenotyping was conducted by visual assessment of the infection severity in detached leaf segments inoculated with two isolates of Puccinia recondita f. sp. secalis, namely, 60/17/2.1 (isolate S) in the main experiment and 86/n/2.1_5x (isolate N) in the validation experiment, at 10 and 17 days post-infection (dpi), respectively. In total, 42,773 SNP-DArT and 105,866 silico-DArT markers were included in the main analysis including isolate S, of which 129 and 140 SNP-DArTs and 767 and 776 silico-DArTs were significantly associated (p ≤ 0.001; − log10(p) ≥ 3.0) with the immune response to LR at 10 and 17 dpi, respectively. Most significant markers were mapped to chromosome 1R. The number of common markers from both systems and at both time points occupying common chromosomal positions was 37, of which 21 were positioned in genes, comprising 18 markers located in exons and three in introns. This gene pool included genes encoding proteins with a known function in response to LR (e.g., a NBS-LRR disease resistance protein-like protein and carboxyl-terminal peptidase). Conclusion This study has expanded and supplemented existing knowledge of the genetic basis of rye resistance to LR by (1) detecting two QTLs associated with the LR immune response of rye, of which one located on the long arm of chromosome 1R is newly detected, (2) assigning hundreds of markers significantly associated with the immune response to LR to genes in the ‘Lo7’ genome, and (3) predicting the potential translational effects of polymorphisms of SNP-DArT markers located within protein-coding genes.

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Section: Resultsmentioning

confidence: 99%

Identification of quantitative trait loci associated with leaf rust resistance in rye by precision mapping

Matuszkiewicz,

Grądzielewska,

Święcicka

et al. 2024

BMC Plant Biol

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“…Much of the research in this field published to date has aimed to identify regions/genes on genetic maps [6][7][8]. Of the 16 genes identified in this manner, of profound importance is the Pr3 gene located on chromosome 1R, which carries many genes controlling agronomically important traits but mainly involved in tolerance to abiotic and biotic stresses, including LR [32,33].…”

Section: Discussionmentioning

confidence: 99%

Identification of quantitative trait loci associated with leaf rust resistance in rye by precision mapping

Mateusz,

Agnieszka,

Magdalena

et al. 2024

Preprint

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Background: Leaf rust (LR) is among the most destructive fungal diseases of rye (Secale cereale L.). Despite intensive research using various analytical and methodological approaches, such as quantitative trait locus (QTL) mapping, candidate gene expression analysis, and transcriptome sequencing, the genetic basis of the rye immune response to LR remains unclear. Results: A genome-wide association study was employed to detect QTLs controlling the immune response to LR of rye. A mapping population, G38A, was constructed by crossing two inbred lines: 723 (susceptible to LR) and JKI-NIL-Pr3 (a donor of the LR resistance gene Pr3). For genotyping, SNP-DArT and silico-DArT markers were used. Resistance phenotyping was conducted by visual assessment of the infection severity in detached leaf segments inoculated with two isolates of Puccinia recondita f. sp. secalis, namely, 60/17/2.1 (isolate S) in the main experiment and 86/n/2.1_5x (isolate N) in the validation experiment, at 10 and 17 days post-infection (dpi), respectively. In total, 42773 SNP-DArT and 105866 silico-DArT markers were included in the main analysis including isolate S, of which 129 and 140 SNP-DArTs and 767 and 776 silico-DArTs were significantly associated (p ≤ 0.001; −log10(p) ≥ 3.0) with the immune response to LR at 10 and 17 dpi, respectively. Most significant markers were mapped to chromosome 1R. The number of common markers from both systems and at both time points occupying common chromosomal positions was 37, of which 21 were positioned in genes, comprising 18 markers located in exons and three in introns. This gene pool included genes encoding proteins with a known function in response to LR (e.g., a NBS-LRR disease resistance protein-like protein and carboxyl-terminal peptidase). Conclusion: This study has expanded and supplemented existing knowledge of the genetic basis of rye resistance to LR by (1) detecting two QTLs associated with the LR immune response of rye, of which one located on the long arm of chromosome 1R is newly detected, (2) assigning hundreds of markers significantly associated with the immune response to LR to genes in the ‘Lo7’ genome, and (3) predicting the potential translational effects of polymorphisms of SNP-DArT markers located within protein-coding genes.

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“…Value chains : A key consideration in breeding high quality rye is ensuring that there is a market. As rye has greater stress tolerance (Rakoczy‐Trojanowska et al., 2021) and a smaller carbon footprint sustained over generations of breeding than wheat (Riedesel et al., 2022), rye acreage may increase with ongoing effects of climate change. By better understanding and improving rye quality, increased rye production can be integrated into existing grain processing networks.…”

Section: Future Outlooksmentioning

confidence: 99%

“…Rye is part of the Triticeae tribe, a plant tribe that includes other major small grains crops such as wheat ( Triticum aestivum ) and barley ( Hordeum vulgare ). Rye is notable among the Triticeae for being remarkably resilient to biotic and abiotic stresses, for instance, being tolerant to −35°C as well as to nutrient and drought stress (Rakoczy‐Trojanowska et al., 2021). Another distinctive characteristic of rye is that it is self‐incompatible and outcrossing.…”

Section: Introductionmentioning

confidence: 99%

Breeding cereal rye (Secale cereale) for quality traits

et al. 2023

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Cereal rye (Secale cereale) is a multi‐purpose crop, harvested for grain (for food, feed, and other products) as well as used as a forage or cover crop. The functionality of rye across these spheres is due to its abiotic and biotic stress tolerance and unique phytochemical composition. In this review, we focus on the current state and prospects of breeding rye for quality traits, where we define quality traits as grain, feed, or forage quality. Rye grain for human consumption has numerous healthful compounds, notably high dietary fiber content in grain and unique flavors that contribute to the signature properties of rye baked products and distilled spirits. As a forage, rye is useful in marginal environments and has high quality, including high crude protein, and is thus valuable for livestock production. While yield remains a major focus of breeding efforts, due to recent improvements in rye genomic and phenotypic resources, there are now opportunities for increased attention on breeding high‐quality ryes for multiple end uses. Through genetic improvement of quality traits, cereal rye has the potential to expand and serve multiple markets as a climate‐resilient crop.

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Genetics and Genomics of Stress Tolerance

Cited by 8 publications

References 173 publications

Identification of quantitative trait loci associated with leaf rust resistance in rye by precision mapping

Identification of quantitative trait loci associated with leaf rust resistance in rye by precision mapping

Identification of quantitative trait loci associated with leaf rust resistance in rye by precision mapping

Breeding cereal rye (Secale cereale) for quality traits

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