Meta-Analysis of the QTLome of Fusarium Head Blight Resistance in Bread Wheat: Refining the Current Puzzle

Venske, Eduardo; Santos, Railson Schreinert dos; Farias, Daniel da Rosa; Rother, Vianei; Maia, Luciano Carlos da; Pegoraro, Camila; Oliveira, Antônio Costa de

doi:10.3389/fpls.2019.00727

Cited by 133 publications

(186 citation statements)

References 131 publications

Supporting

Mentioning

167

Contrasting

Order By: Relevance

“…In the case of the contrasting responding category, we identified neither any cytochrome P450 nor any GT. Interestingly, four genes in the exclusive responding category of DH372 are also identified in wheat and involved in FHB resistance [ 41 ]. Among them, three were identified as P450s and glycosyltransferase.…”

Section: Resultsmentioning

confidence: 99%

“…Similarly, cytochrome P450s are associated with FHB resistance in several earlier studies [ 44 , 67 , 68 ]. The meta-analysis of the QTLome of FHB resistance by Venske et al, 2019, identified 10 candidate genes responsible for FHB resistance in bread wheat [ 41 ]. Among them, three belong to GTs and cytochrome P450.…”

Section: Discussionmentioning

confidence: 99%

“…In fact, integration of QTLome with genomic and transcriptomic data has been exploited successfully for the discovery of promising candidate genes linked to FHB resistance [ 21 , 41 , 42 , 43 , 44 ]. Using this approach, 10 promising candidate genes have been identified in wheat including the TaHRC, glycosyltransferses, and cytochrome P450 [ 41 ]. However, unlike other cereal crops affected by FHB, very little omics resources are available for rye.…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

A Comparative Transcriptome Analysis, Conserved Regulatory Elements and Associated Transcription Factors Related to Accumulation of Fusariotoxins in Grain of Rye (Secale cereale L.) Hybrids

Mahmood

Orabi²,

Kristensen³

et al. 2020

IJMS

View full text Add to dashboard Cite

Detoxification of fusariotoxin is a type V Fusarium head blight (FHB) resistance and is considered a component of type II resistance, which is related to the spread of infection within spikes. Understanding this type of resistance is vital for FHB resistance, but to date, nothing is known about candidate genes that confer this resistance in rye due to scarce genomic resources. In this study, we generated a transcriptomic resource. The molecular response was mined through a comprehensive transcriptomic analysis of two rye hybrids differing in the build-up of fusariotoxin contents in grain upon pathogen infection. Gene mining identified candidate genes and pathways contributing to the detoxification of fusariotoxins in rye. Moreover, we found cis regulatory elements in the promoters of identified genes and linked them to transcription factors. In the fusariotoxin analysis, we found that grain from the Nordic seed rye hybrid “Helltop” accumulated 4 times higher concentrations of deoxynivalenol (DON), 9 times higher nivalenol (NIV), and 28 times higher of zearalenone (ZEN) than that of the hybrid “DH372” after artificial inoculation under field conditions. In the transcriptome analysis, we identified 6675 and 5151 differentially expressed genes (DEGs) in DH372 and Helltop, respectively, compared to non-inoculated control plants. A Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that DEGs were associated with glycolysis and the mechanistic target of rapamycin (mTOR) signaling pathway in Helltop, whereas carbon fixation in photosynthesis organisms were represented in DH372. The gene ontology (GO) enrichment and gene set enrichment analysis (GSEA) of DEGs lead to identification of the metabolic and biosynthetic processes of peptides and amides in DH372, whereas photosynthesis, negative regulation of catalytic activity, and protein-chromophore linkage were the significant pathways in Helltop. In the process of gene mining, we found four genes that were known to be involved in FHB resistance in wheat and that were differentially expressed after infection only in DH372 but not in Helltop. Based on our results, we assume that DH372 employed a specific response to pathogen infection that led to detoxification of fusariotoxin and prevented their accumulation in grain. Our results indicate that DH372 might resist the accumulation of fusariotoxin through activation of the glycolysis and drug metabolism via cytochrome P450. The identified genes in DH372 might be regulated by the WRKY family transcription factors as associated cis regulatory elements found in the in silico analysis. The results of this study will help rye breeders to develop strategies against type V FHB.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

A Comparative Transcriptome Analysis, Conserved Regulatory Elements and Associated Transcription Factors Related to Accumulation of Fusariotoxins in Grain of Rye (Secale cereale L.) Hybrids

Mahmood

Orabi²,

Kristensen³

et al. 2020

IJMS

View full text Add to dashboard Cite

show abstract

“…In order to make these mapped QTL more useful to plant breeding and gene cloning, a further analysis of all these loci has to be carried out. However, due to the fact that most QTL mapping studies differ in numerous aspects, such as mapping population type, and size, and molecular marker type, an elaborated method has to be applied for this purpose (Venske et al 2019). In this regard, meta-analysis of QTL has been proven as an e cient approach, and has been constantly improved (Go net and Gerber 2000; Salvi and Tuberosa 2015), which aims to verify whether QTL in isolated studies actually represent a common position or not on the genetic map of the studied species, and stablish the occurrence of QTL "hotspots" in a consensus map.…”

Section: Introductionmentioning

confidence: 99%

“…In this regard, meta-analysis of QTL has been proven as an e cient approach, and has been constantly improved (Go net and Gerber 2000; Salvi and Tuberosa 2015), which aims to verify whether QTL in isolated studies actually represent a common position or not on the genetic map of the studied species, and stablish the occurrence of QTL "hotspots" in a consensus map. This approach was already applied to various crops and complex traits, such as fusarium head blight resistance in bread wheat (Venske et al 2019), grain weight in tetraploid wheat (Avni et al 2018), cist nematode resistance in soybean (Guo et al 2006a), resistance to white mold in common bean (Vasconcellos et al 2017), yield under drought in rice (Swamy et al 2011), yield in maize (Martinez et al, 2016), and multiple traits in cotton (Said et al 2013). (Zhang et al 2019a).…”

Section: Introductionmentioning

confidence: 99%

Identification of Candidate Genes Controlling Fiber Quality Traits in Upland Cotton Through Integration of Meta-QTL, Significant SNP and Transcriptomic Data

Shudi

Pan

Yin

et al. 2020

Preprint

View full text Add to dashboard Cite

Background Meta-analysis of quantitative trait locus (QTL) is a computational technique to identify consensus QTL and refine QTL positions on the consensus map from multiple mapping studies. The combination of meta-QTL intervals, significant SNPs and transcriptome analysis has been widely used to identify candidate genes in various plants. Results In our study, 884 QTL associated with cotton fiber quality traits from 12 studies were used for meta-QTL analysis based on reference genome TM-1, as a result, 74 meta-QTL were identified, including 19 meta-QTL for fiber length (FL), 18 meta-QTL for fiber strength (FS), 11 meta-QTL for fiber uniformity (FU), 11 meta-QTL for fiber elongation (FE), and 15 meta-QTL for micronaire (MIC). Combined with 8589 significant SNPs associated with fiber quality traits collected from 15 studies, 297 candidate genes were identified in the meta-QTL intervals, 20 of which showed high expression specifically in the developing fibers. According to the function annotations, some of the 20 key candidate genes are associated with the fiber development. Conclusions This study provides not only stable QTLs used for marker-assisted selection (MAS), but also candidate genes to uncover the molecular mechanisms for cotton fiber development.

show abstract

Underlying mechanisms of FHB susceptibility and resistance in wheat: Insights from a transcriptome‐based analysis

et al. 2023

View full text Add to dashboard Cite

Over the last two decades, several quantitative trait loci (QTLs) involved in Fusarium head blight (FHB) resistance have been identified and, in a few cases, resolved to the underlying genes. These results have not consistently translated into better FHB‐resistant wheat (Triticum aestivum L.) cultivars, nor have they necessarily extended our understanding of how resistance to FHB can be achieved. Despite considerable efforts, FHB remains a serious disease in many wheat‐growing regions. To gain insights into the underlying biology, we examined the wheat transcriptome at a key FHB developmental time point—the switch from the biotrophic to the necrotrophic phase—in both highly resistant (AAC Tenacious) and highly susceptible (Wilkin) spring wheat cultivars. Sequestering of deoxynivalenol (DON) does not appear to differentiate the resistant from the susceptible response. Instead, our findings suggest that true resistance to FHB requires the plant to downregulate or limit two pathways that are normally associated with disease resistance responses: programmed cell death (PCD) and the generation/accumulation of reactive oxygen species (ROS). Using a stringent RNA‐Seq analysis targeting the transition period of the pathogen from its biotrophic phase to its necrotrophic phase, we show that susceptibility to FHB relies on the pathogen's ability to highjack the PCD response, consistent with other necrotrophs. In contrast, the resistance response to FHB relies on the plant's ability to suppress its PCD response and limit the ROS accumulation/production that is necessary for production of DON by the pathogen.

show abstract

Meta-Analysis of the QTLome of Fusarium Head Blight Resistance in Bread Wheat: Refining the Current Puzzle

Cited by 133 publications

References 131 publications

A Comparative Transcriptome Analysis, Conserved Regulatory Elements and Associated Transcription Factors Related to Accumulation of Fusariotoxins in Grain of Rye (Secale cereale L.) Hybrids

A Comparative Transcriptome Analysis, Conserved Regulatory Elements and Associated Transcription Factors Related to Accumulation of Fusariotoxins in Grain of Rye (Secale cereale L.) Hybrids

Identification of Candidate Genes Controlling Fiber Quality Traits in Upland Cotton Through Integration of Meta-QTL, Significant SNP and Transcriptomic Data

Underlying mechanisms of FHB susceptibility and resistance in wheat: Insights from a transcriptome‐based analysis

Contact Info

Product

Resources

About