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Background  Fusarium head blight (FHB) caused by  Fusarium graminearum  Schwabe is one of the most prevalent diseases of wheat ( Triticum aestivum  L . ) and other small grain cereals. Resistance against the fungus is quantitative and more than 100 quantitative trait loci (QTL) have been described. Two well-validated and highly reproducible QTL,  Fhb1  and  Qfhs.ifa-5A  have been widely investigated, but to date the underlying genes have not been identified.    Results  We have investigated a gene co-expression network activated in response to  F. graminearum  using RNA-seq data from near-isogenic lines, harboring either the resistant or the susceptible allele for  Fhb1  and  Qfhs.ifa-5A . The network identified pathogen-responsive modules, which were enriched for differentially expressed genes between genotypes or different time points after inoculation with the pathogen. Central gene analysis identified transcripts associated with either QTL within the network. Moreover, we present a detailed gene expression analysis of four gene families (glucanases, NBS-LRR, WRKY transcription factors and UDP-glycosyltransferases), which take prominent roles in the pathogen response.    Conclusions  A combination of a network-driven approach and differential gene expression analysis identified genes and pathways associated with  Fhb1  and  Qfhs.ifa-5A . We find G-protein coupled receptor kinases and biosynthesis genes for jasmonate and ethylene earlier induced for  Fhb1 . Similarly, we find genes involved in the biosynthesis and metabolism of riboflavin more abundant for  Qfhs.ifa-5A .

bmc genomics

Quantitative trait loci-dependent analysis of a gene co-expression network associated with Fusarium head blight resistance in bread wheat (Triticum aestivumL.)