title: Evolutionary meta-analysis of solanaceous resistance gene and solanum resistance gene analog sequences and a practical framework for cross-species comparisons.
abstract: Cross-species comparative genomics approaches have been employed to map and clone many important disease resistance (R) genes from Solanum species-especially wild relatives of potato and tomato. These efforts will increase with the recent release of potato genome sequence and the impending release of tomato genome sequence. Most R genes belong to the prominent nucleotide binding site-leucine rich repeat (NBS-LRR) class and conserved NBS-LRR protein motifs enable survey of the R gene space of a plant genome by generation of resistance gene analogs (RGA), polymerase chain reaction fragments derived from R genes. We generated a collection of 97 RGA from the disease-resistant wild potato S. bulbocastanum, complementing smaller collections from other Solanum species. To further comparative genomics approaches, we combined all known Solanum RGA and cloned solanaceous NBS-LRR gene sequences, nearly 800 sequences in total, into a single meta-analysis. We defined R gene diversity bins that reflect both evolutionary relationships and DNA cross-hybridization results. The resulting framework is amendable and expandable, providing the research community with a common vocabulary for present and future study of R gene lineages. Through a series of sequence and hybridization experiments, we demonstrate that all tested R gene lineages are of ancient origin, are shared between Solanum species, and can be successfully accessed via comparative genomics approaches.
authors.affiliation: University of Minnesota, Department of Plant Pathology, 495 Borlaug Hall/1991 Upper Buford Circle, St. Paul, MN 55108,USA.
authors.forename: Edmund A
authors.initials: EA
authors.lastname: Quirin
authors.forename: Harpartap
authors.initials: H
authors.lastname: Mann
authors.forename: Rachel S
authors.initials: RS
authors.lastname: Meyer
authors.forename: Alessandra
authors.initials: A
authors.lastname: Traini
authors.forename: Maria Luisa
authors.initials: ML
authors.lastname: Chiusano
authors.forename: Amy
authors.initials: A
authors.lastname: Litt
authors.forename: James M
authors.initials: JM
authors.lastname: Bradeen
mesh_terms: D020816:Amino Acid Motifs; D001483:Base Sequence; D055028:Comparative Genomic Hybridization; D060467:Disease Resistance / Q000235:genetics*; D019143:Evolution, Molecular; D017343:Genes, Plant / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics*; D023281:Genomics; D000090263:Leucine-Rich Repeat Proteins; D008969:Molecular Sequence Data; D010802:Phylogeny; D010935:Plant Diseases / Q000276:immunology* / Q000382:microbiology; D010940:Plant Proteins / Q000235:genetics; D011506:Proteins / Q000235:genetics; D017422:Sequence Analysis, DNA; D032322:Solanum / Q000235:genetics* / Q000276:immunology; D011198:Solanum tuberosum / Q000235:genetics / Q000276:immunology; D013045:Species Specificity
chemical_list: D000090263:Leucine-Rich Repeat Proteins; D010940:Plant Proteins; D011506:Proteins