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Analysis of selected singleton transposable elements (SSTEs) and their application for the development of land PATE markers in Magnaporthe oryzae
- Zhang, Hong-yan, He, Dong-yang, Kasetsomboon, Teerapong, Zhou, Heng, Li, Ping, Li, Xiang-long, Jantasuriyarat, Chatchawan, Zhou, Bo
- Journal of general plant pathology 2013 v.79 no.2 pp. 96-104
- Magnaporthe oryzae, blast disease, genes, genetic markers, land use, loci, polymerase chain reaction, promoter regions, transposons
- Transposable elements (TEs) are distributed throughout the genome and play an important role in genome variation of the rice blast fungus, Magnaporthe oryzae. TE-associated molecular markers have been developed and used extensively for diversity analysis in natural populations. Here, we investigated the genomic distribution of a selected group of TEs that are dispersed as singletons, and each is of a size feasible for PCR validation, designated as SSTEs, in the genome of the reference laboratory strain, 70-15. The 75 SSTEs identified were distributed evenly on seven chromosomes of the M. oryzae genome. Approximately 40 % of SSTEs were located either in the coding or promoter regions of the predicted genes. The presence or absence of each SSTE at the respective locus was assessed, resolving significant presence/absence polymorphism among 11 rice blast strains collected from different locations worldwide. The presence/absence (P/A) polymorphism of SSTEs in different strains suggests that they may be useful for developing map-based land PATE markers for genetic analysis in M. oryzae.