title: Comparative analyses of genetic diversities within tomato and pepper collections detected by retrotransposon-based SSAP, AFLP and SSR.
abstract: The retrotransposon-based sequence-specific amplification polymorphism (SSAP) marker system was used to assess the genetic diversities of collections of tomato and pepper industrial lines. The utility of SSAP markers was compared to that of amplified fragment length polymorphism (AFLP) and simple sequence repeat (SSR) markers. On the basis of our results, SSAP is most informative of the three systems for studying genetic diversity in tomato and pepper, with a significant correlation of genetic relationships between different SSAP datasets and between SSAP, AFLP and SSR markers. SSAP showed about four- to ninefold more diversity than AFLP and had the highest number of polymorphic bands per assay ratio and the highest marker index. For tomato, SSAP is more suitable for inferring overall genetic variation and relationships, while SSR has the ability to detect specific genetic relationships. All three marker results for pepper showed general agreement with pepper types. Additionally, retrotransposon sequences isolated from one species can be used in related Solanaceae genera. These results suggest that different marker systems are suited for studying genetic diversity in different contexts depending on the group studied, where discordance between different marker systems can be very informative for understanding genetic relationships within the study group.
authors.affiliation: Laboratoire de Biologie Cellulaire, Institut Jean-Pierre Bourgin, INRA-Centre de Versailles, 78026, Versailles, France.
authors.forename: Sheh May
authors.initials: SM
authors.lastname: Tam
authors.forename: Corinne
authors.initials: C
authors.lastname: Mhiri
authors.forename: Aat
authors.initials: A
authors.lastname: Vogelaar
authors.forename: Marcel
authors.initials: M
authors.lastname: Kerkveld
authors.forename: Stephen R
authors.initials: SR
authors.lastname: Pearce
authors.forename: Marie-Angèle
authors.initials: MA
authors.lastname: Grandbastien
mesh_terms: D002212:Capsicum / Q000235:genetics*; D016000:Cluster Analysis; D017931:DNA Primers; D005069:Evaluation Studies as Topic; D014644:Genetic Variation; D018551:Solanum lycopersicum / Q000235:genetics*; D018598:Minisatellite Repeats / Q000235:genetics; D021141:Nucleic Acid Amplification Techniques / Q000379:methods; D010802:Phylogeny; D012150:Polymorphism, Restriction Fragment Length
chemical_list: D017931:DNA Primers