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Background  Stripe rust, a highly destructive foliar disease of wheat ( Triticum aestivum ), causes severe losses, which may be accompanied by reduced photosynthetic activity and accelerated leaf senescence.    Methods  We used suppression subtractive hybridization (SSH) to examine the mechanisms of resistance in the resistant wheat line L693 (Reg. No. GP-972, PI 672538), which was derived from a lineage that includes a wide cross between common and  Thinopyrum intermedium . Sequencing of an SSH cDNA library identified 112 expressed sequence tags.    Results   In silico  mapping placed one of these tags [GenBank: JK972238] on chromosome 1A. Primers based on [GenBank: JK972238] amplified a polymorphic band, which co-segregated with  YrL693 . We cloned a candidate gene encoding wheat copper-binding protein (WCBP1) by amplifying the polymorphic region, and we mapped  WCBP1  to a 0.64 cM genetic interval.  Brachypodium , rice, and sorghum have genes and genomic regions syntenic to this region.    Discussion  Sequence analysis suggested that the resistant  WCBP1  allele might have resulted from a deletion of 36-bp sequence of the wheat genomic sequence, rather than direct transfer from  Th. intermedium . qRT-PCR confirmed that  WCBP1  expression changes in response to pathogen infection.    Conclusions  The unique chromosomal location and expression mode of  WCBP1  suggested that  WCBP1  is the putative candidate gene of  YrL693 , which was involved in leaf senescence and photosynthesis related to plant responses to stripe rust infection during the grain-filling stage.    Electronic supplementary material  The online version of this article (doi:10.1186/s12870-015-0612-4) contains supplementary material, which is available to authorized users.

Wheat WCBP1 encodes a putative copper-binding protein involved in stripe rust resistance and inhibition of leaf senescence