Recent trends and perspectives of molecular markers against fungal diseases in wheat

Goutam, Umesh; Kukreja, Sarvjeet; Yadav, Rakesh; Salaria, Neha; Thakur, Kajal; Goyal, Aakash

doi:10.3389/fmicb.2015.00861

Cited by 57 publications

(31 citation statements)

References 197 publications

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“…GWAS commonly estimate the statistical significance of MTAs in a diverse genetic panel that can lead to the identification of causal genes underlying phenotypes. GWAS with highthroughput genotyping are advantageous over traditional biparental population analyses, such as rapid processing of large mapping populations, high abundance of molecular markers, and identification of causal loci at a higher resolution (Goutam et al, 2015;Ogura and Busch, 2015).…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Association Studies for Pasmo Resistance in Flax (<em>Linum Usitatissimum L.</em>)

Xiao

Rashid

et al. 2018

Preprint

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Pasmo is one of the most widespread diseases threatening flax production. To identify genetic regions associated with pasmo resistance (PR), a genome-wide association study was performed on 370 accessions from the flax core collection. Evaluation of pasmo severity was performed in the field from 2012 to 2016 in Morden, MB, Canada. Genotyping-by-sequencing has identified 258,873 single nucleotide polymorphisms (SNPs) distributed on all 15 flax chromosomes. Marker-trait associations were identified using ten different statistical models. A total of 692 unique quantitative trait nucleotides (QTNs) associated with 500 putative quantitative trait loci (QTL) were detected from six phenotypic PR datasets (five individual years and average across years). Different QTNs were identified with various statistical models and from individual PR datasets, indicative of the complementation between analytical methods and/or genotype × environment interactions of the QTL effects. The single-locus models tended to identify large-effect QTNs while the multi-loci models were able to detect QTNs with smaller effects. Among the putative QTL, 67 had large effects (3-23%), were stable across all datasets and explained 32-64% of the total variation for PR in the various datasets. Forty-five of these QTL spanned 85 resistance gene analogs including a large toll interleukin receptor, nucleotide-binding site, leucine-rich repeat (TNL) type gene cluster on chromosome 8. The number of positive effect QTL (NPQTL) in accessions was significantly correlated with PR (R2=0.55), suggesting additive effects. NPQTL was also significantly associated with morphotype (R2=0.52) and  major positive effect QTL were present in the fiber type accessions. The 67 large effect QTL are suited for marker-assisted selection and the 500 QTL for effective genomic prediction in PR molecular breeding.

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Section: Introductionmentioning

confidence: 99%

Genome-Wide Association Studies for Pasmo Resistance in Flax (<em>Linum Usitatissimum L.</em>)

Xiao

Rashid

et al. 2018

Preprint

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“…Currently, plant breeding is updated using molecular markers. Development of molecular markers has led to efficient methods of plant breeding [14]. Various studies have been conducted to confirm the presence of Sr genes in wheat cultivars.…”

Section: Introductionmentioning

confidence: 99%

Seedling Resistance to Stem Rust and Molecular Marker Analysis of Resistance Genes in Wheat Cultivars of Yunnan, China

Cao

Wang

et al. 2016

PLoS ONE

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Stem rust is one of the most potentially harmful wheat diseases, but has been effectively controlled in China since 1970s. However, the interest in breeding wheat with durable resistance to stem rust has been renewed with the emergence of Ug99 (TTKSK) virulent to the widely used resistance gene Sr31, and by which the wheat stem rust was controlled for 40 years in wheat production area worldwide. Yunnan Province, located on the Southwest border of China, is one of the main wheat growing regions, playing a pivotal role in the wheat stem rust epidemic in China. This study investigated the levels of resistance in key wheat cultivars (lines) of Yunnan Province. In addition, the existence of Sr25, Sr26, Sr28, Sr31, Sr32, and Sr38 genes in 119 wheat cultivars was assessed using specific DNA markers. The results indicated that 77 (64.7%) tested wheat varieties showed different levels of resistance to all the tested races of Puccinia graminis f. sp. tritici. Using molecular markers, we identified the resistance gene Sr31 in 43 samples; Sr38 in 10 samples; Sr28 in 12 samples, and one sample which was resistant against Ug99 (avirulent to Sr32). No Sr25 or Sr26 (effective against Ug99) was identified in any cultivars tested. Furthermore, 5 out of 119 cultivars tested carried both Sr31 and Sr38 and eight contained both Sr31 and Sr28. The results enable the development of appropriate strategies to breed varieties resistant to stem rust.

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“…Molecular marker-based screening of resistance sources with diagnostic or linked markers is an alternative to the phenotypic approach for detection of the presence or absence of resistant genes in the genotypes [21,22]. A wide range of molecular markers (SSR, RFLP, STS, SCAR, CAPS, RAPD, DArt) are reported to be linked or diagnostic to most of the Yr genes in wheat [23,34].…”

Section: Introductionmentioning

confidence: 99%

Identification of Stripe Rust Resistance in Ethiopian Durum Wheat by Phenotypic Screening and Kompetitive Allele Specific PCR (KASP) SNP Markers

Alemu¹,

Badebo²,

Tesfaye³

et al. 2019

J Plant Pathol Microbiol

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Stripe (Yellow) rust caused by Puccinia striiformis f.sp. tritici (Pst) is one of the most devastating diseases of wheat in the highlands of Ethiopia. Improved cultivars often lose their resistance due to occurrence of new virulent races which overcome the genes and make the cultivars out of production. Therefore, identification of new sources of resistance genes helps in battling yellow rust and maximizes wheat production in Ethiopia. In this study, 300 durum wheat lines (landraces & cultivars) were screened with three virulent isolates (Pst_Is1, Pst_Is4 and Pst_Is8) for seedling resistance using Infection Type (IT) scoring method. The lines were also screened with 16 KASP-based SNP markers linked to 7 Yr genes already identified in various studies. Highly resistant infection type (IT: 0-3) to Pst_Is1, Pst_Is4, and Pst_Is8 was exhibited by 59.3%; 67.3%; and 46.3% of the lines, respectively. 124 lines constantly exhibited high level of resistance to all three isolates. The majority (96.8%) of the resistant lines are landraces while four (3.2%) are commercial cultivars (Cocorit/71, Yerer, Obsa and Dire). In the molecular screening 12 of the markers gave clear amplifications in the controls and the tested lines. Yr7, Yr15 and YrSp were detected in 81.7%, 88.3% and 0.7% of the lines respectively while Yr1, Yr17 and Yr36 were not detected. Detection frequency was higher in landraces (58.7%) than in cultivars (32.8%). Gene combinations frequency was the highest (72.7%) for Yr7+Yr15 followed by Yr15+YrSp (0.3%). Overall, this study has resulted in detection of genes Yr15 and YrSp, which are potential candidates for marker assisted breeding for Pst resistance in wheat. Besides, it has shown that resistant source identification and detection of genes can be facilitated through combined application of phenotyping and molecular screening.

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Recent trends and perspectives of molecular markers against fungal diseases in wheat

Cited by 57 publications

References 197 publications

Genome-Wide Association Studies for Pasmo Resistance in Flax (<em>Linum Usitatissimum L.</em>)

Genome-Wide Association Studies for Pasmo Resistance in Flax (<em>Linum Usitatissimum L.</em>)

Seedling Resistance to Stem Rust and Molecular Marker Analysis of Resistance Genes in Wheat Cultivars of Yunnan, China

Identification of Stripe Rust Resistance in Ethiopian Durum Wheat by Phenotypic Screening and Kompetitive Allele Specific PCR (KASP) SNP Markers

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