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Nicotiana langsdorffii  is one of two species of  Nicotiana  known to express an incompatible interaction with the oomycete  Peronospora tabacina , the causal agent of tobacco blue mold disease. We previously showed that incompatibility is due to the hypersensitive response (HR), and plants expressing the HR are resistant to  P. tabacina  at all stages of growth. Resistance is due to a single dominant gene in  N. langsdorffii  accession S-4-4 that we have named  NlRPT . In further characterizing this unique host-pathogen interaction,  NlRPT  has been placed on a preliminary genetic map of the  N. langsdorffii  genome. Allelic scores for five classes of DNA markers were determined for 90 progeny of a “modified backcross” involving two  N. langsdorffii  inbred lines and the related species  N. forgetiana . All markers had an expected segregation ratio of 1:1, and were scored in a common format. The map was constructed with JoinMap 3.0, and loci showing excessive transmission distortion were removed. The linkage map consists of 266 molecular marker loci defined by 217 amplified fragment length polymorphisms (AFLPs), 26 simple-sequence repeats (SSRs), 10 conserved orthologous sequence markers, nine inter-simple sequence repeat markers, and four target region amplification polymorphism markers arranged in 12 linkage groups with a combined length of 1062 cM.  NlRPT  is located on linkage group three, flanked by four AFLP markers and one SSR. Regions of skewed segregation were detected on LGs 1, 5, and 9. Markers developed for  N. langsdorffii  are potentially useful genetic tools for other species in  Nicotiana  section  Alatae , as well as in  N. benthamiana . We also investigated whether AFLPs could be used to infer genetic relationships within  N. langsdorffii  and related species from section  Alatae . A phenetic analysis of the AFLP data showed that there are two main lineages within  N. langsdorffii , and that both contain populations expressing dominant resistance to  P. tabacina .

Molecular Linkage Mapping and Marker-Trait Associations with NlRPT, a Downy Mildew Resistance Gene in Nicotiana langsdorffii