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Association of single nucleotide polymorphic sites in candidate genes with aggressiveness and deoxynivalenol production in Fusarium graminearum causing wheat head blight.

Talas F, Würschum T, Reif JC, Parzies HK, Miedaner T - BMC Genet. (2012)

Bottom Line: Two neighboring SNPs in MetAP1 and one SNP in Erf2 were significantly (P < 0.05) associated with aggressiveness explaining proportions of genotypic variance (pG) of 25.6%, 0.5%, and 13.1%, respectively.One SNP in TRI1 was significantly associated with DON production (pG = 4.4).Our findings underline the potential of candidate gene association mapping approaches to identify functional SNPs underlying aggressiveness and DON production for F. graminearum s.s populations.

View Article: PubMed Central - HTML - PubMed

Affiliation: Universitaet Hohenheim, State Plant Breeding Institute, Stuttgart, Germany.

ABSTRACT

Background: Fusarium graminearum sensu stricto (s.s.) is an ubiquitous pathogen of cereals. The economic impact of Fusarium head blight (FHB) is characterized by crop losses and mycotoxin contamination. Our objective was to associate SNP diversity within candidate genes with phenotypic traits. A total of 77 F. graminearum s.s. isolates was tested for severity of fungal infection (= aggressiveness) and deoxynivalenol (DON) production in an inoculated field experiment at two locations in each of two years. For seven genes known to control fungal growth (MetAP1, Erf2) or DON production (TRI1, TRI5, TRI6 TRI10 and TRI14) single nucleotides polymorphic sites (SNPs) were determined and evaluated for the extent of linkage disequilibrium (LD). Associations of SNPs with both phenotypic traits were tested using linear mixed models.

Results: Decay of LD was in most instances fast. Two neighboring SNPs in MetAP1 and one SNP in Erf2 were significantly (P < 0.05) associated with aggressiveness explaining proportions of genotypic variance (pG) of 25.6%, 0.5%, and 13.1%, respectively. One SNP in TRI1 was significantly associated with DON production (pG = 4.4).

Conclusions: We argue that using the published sequence information of Fusarium graminearum as a template to amplify comparative sequence parts of candidate genes is an effective method to detect quantitative trait loci. Our findings underline the potential of candidate gene association mapping approaches to identify functional SNPs underlying aggressiveness and DON production for F. graminearum s.s populations.

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Population structure and familial relatedness. (A) Principal coordinate analysis of the 77 isolates, based on modified Rogers' distance estimates whereas location A = Hohenheim, location B = Schickelsheim, and location C = Wetze, (B) Explained genotypic variance of the first ten principal coordinates, (C) Violin plot showing the density distribution of the first ten principal coordinates, (D) Histogram of the genetic similarities among the 77 isolates.
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Figure 2: Population structure and familial relatedness. (A) Principal coordinate analysis of the 77 isolates, based on modified Rogers' distance estimates whereas location A = Hohenheim, location B = Schickelsheim, and location C = Wetze, (B) Explained genotypic variance of the first ten principal coordinates, (C) Violin plot showing the density distribution of the first ten principal coordinates, (D) Histogram of the genetic similarities among the 77 isolates.

Mentions: Principal coordinate analysis (PCoA) based on modified Rogers' distances between all isolates did not show a distinct separation of the isolates sampled from different locations (Figure 2A). Explained variance gradually decreased according to the first ten principal coordinates (Figure 2B). The violin plot (Figure 2C) had a continuous density of distribution over all ten principal coordinates without any division within the principal coordinates. Genetic similarity ranged from 0.057 to 1.0 with a mean value of 0.31 (Figure 2D).


Association of single nucleotide polymorphic sites in candidate genes with aggressiveness and deoxynivalenol production in Fusarium graminearum causing wheat head blight.

Talas F, Würschum T, Reif JC, Parzies HK, Miedaner T - BMC Genet. (2012)

Population structure and familial relatedness. (A) Principal coordinate analysis of the 77 isolates, based on modified Rogers' distance estimates whereas location A = Hohenheim, location B = Schickelsheim, and location C = Wetze, (B) Explained genotypic variance of the first ten principal coordinates, (C) Violin plot showing the density distribution of the first ten principal coordinates, (D) Histogram of the genetic similarities among the 77 isolates.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3361471&req=5

Figure 2: Population structure and familial relatedness. (A) Principal coordinate analysis of the 77 isolates, based on modified Rogers' distance estimates whereas location A = Hohenheim, location B = Schickelsheim, and location C = Wetze, (B) Explained genotypic variance of the first ten principal coordinates, (C) Violin plot showing the density distribution of the first ten principal coordinates, (D) Histogram of the genetic similarities among the 77 isolates.
Mentions: Principal coordinate analysis (PCoA) based on modified Rogers' distances between all isolates did not show a distinct separation of the isolates sampled from different locations (Figure 2A). Explained variance gradually decreased according to the first ten principal coordinates (Figure 2B). The violin plot (Figure 2C) had a continuous density of distribution over all ten principal coordinates without any division within the principal coordinates. Genetic similarity ranged from 0.057 to 1.0 with a mean value of 0.31 (Figure 2D).

Bottom Line: Two neighboring SNPs in MetAP1 and one SNP in Erf2 were significantly (P < 0.05) associated with aggressiveness explaining proportions of genotypic variance (pG) of 25.6%, 0.5%, and 13.1%, respectively.One SNP in TRI1 was significantly associated with DON production (pG = 4.4).Our findings underline the potential of candidate gene association mapping approaches to identify functional SNPs underlying aggressiveness and DON production for F. graminearum s.s populations.

View Article: PubMed Central - HTML - PubMed

Affiliation: Universitaet Hohenheim, State Plant Breeding Institute, Stuttgart, Germany.

ABSTRACT

Background: Fusarium graminearum sensu stricto (s.s.) is an ubiquitous pathogen of cereals. The economic impact of Fusarium head blight (FHB) is characterized by crop losses and mycotoxin contamination. Our objective was to associate SNP diversity within candidate genes with phenotypic traits. A total of 77 F. graminearum s.s. isolates was tested for severity of fungal infection (= aggressiveness) and deoxynivalenol (DON) production in an inoculated field experiment at two locations in each of two years. For seven genes known to control fungal growth (MetAP1, Erf2) or DON production (TRI1, TRI5, TRI6 TRI10 and TRI14) single nucleotides polymorphic sites (SNPs) were determined and evaluated for the extent of linkage disequilibrium (LD). Associations of SNPs with both phenotypic traits were tested using linear mixed models.

Results: Decay of LD was in most instances fast. Two neighboring SNPs in MetAP1 and one SNP in Erf2 were significantly (P < 0.05) associated with aggressiveness explaining proportions of genotypic variance (pG) of 25.6%, 0.5%, and 13.1%, respectively. One SNP in TRI1 was significantly associated with DON production (pG = 4.4).

Conclusions: We argue that using the published sequence information of Fusarium graminearum as a template to amplify comparative sequence parts of candidate genes is an effective method to detect quantitative trait loci. Our findings underline the potential of candidate gene association mapping approaches to identify functional SNPs underlying aggressiveness and DON production for F. graminearum s.s populations.

Show MeSH
Related in: MedlinePlus