title: Fine mapping in tomato using microsynteny with the Arabidopsis genome: the Diageotropica (Dgt) locus.
abstract: BACKGROUND
  The Arabidopsis thaliana genome sequence provides a catalog of reference genes applicable to comparative microsynteny analysis of other species, facilitating map-based cloning in economically important crops. We have applied such an analysis to the tomato expressed sequence tag (EST) database to expedite high-resolution mapping of the Diageotropica (Dgt) gene within the distal end of chromosome 1 in tomato (Lycopersicon esculentum).
  
  
  RESULTS
  A BLAST search of the Arabidopsis database with nucleotide sequences of markers that flank the tomato dgt locus revealed regions of microsynteny between the distal end of chromosome 1 in tomato, two regions of Arabidopsis chromosome 4, and one on chromosome 2. Tomato ESTs homeologous to Arabidopsis gene sequences within those regions were converted into co-dominant molecular markers via cleaved amplified polymorphic sequence (CAPS) analysis and scored against an informative backcross mapping population. Six new microsyntenic EST (MEST) markers were rapidly identified in the dgt region, two of which further defined the placement of the Dgt gene and permitted the selection of a candidate tomato bacterial artificial chromosome clone for sequence analysis.
  
  
  CONCLUSIONS
  Microsynteny-based comparative mapping combined with CAPS analysis of recombinant plants rapidly and economically narrowed the dgt mapping region from 0.8 to 0.15 cM. This approach should contribute to developing high-density maps of molecular markers to target-specific regions for positional cloning and marker-assisted selection in a variety of plants.
authors.affiliation: Department of Botany and Plant Pathology and the Center for Gene Research and Biotechnology, Oregon State University, Corvallis, OR 97331-2902, USA.
authors.forename: KwangChul
authors.initials: K
authors.lastname: Oh
authors.forename: Kristine
authors.initials: K
authors.lastname: Hardeman
authors.forename: Maria G
authors.initials: MG
authors.lastname: Ivanchenko
authors.forename: Mary
authors.initials: M
authors.lastname: Ellard-Ivey
authors.forename: Andreas
authors.initials: A
authors.lastname: Nebenführ
authors.forename: T J
authors.initials: TJ
authors.lastname: White
authors.forename: Terri L
authors.initials: TL
authors.lastname: Lomax
mesh_terms: D017360:Arabidopsis / Q000235:genetics; D002874:Chromosome Mapping / Q000379:methods*; D022202:Chromosomes, Artificial, Bacterial; D032461:Chromosomes, Plant; D020224:Expressed Sequence Tags; D023061:Gene Order; D017343:Genes, Plant; D005819:Genetic Markers; D018745:Genome, Plant; D018551:Solanum lycopersicum / Q000235:genetics*; D019105:Random Amplified Polymorphic DNA Technique; D026801:Synteny
chemical_list: D005819:Genetic Markers