Reference "Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.)"

Reference ID

3386

Title

Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.)

Source

Molecular & General Genetics, 1996, vol. 252, pp. 597-607

Authors (3)

Panaud-O	Chen-X
McCouch-S-R

Abstract

Microsatellite markers containing simple sequence repeats (SSR) are a valuable
tool for genetic analysis. Our objective is to augment the existing RFLP map of
rice with simple sequence length polymorphisms (SSLP). In this study, we
describe 20 new microsatellite markers that have been assigned to positions
along the rice chromosomes, characterized for their allelic diversity in
cultivated and wild rice, and tested for amplification in distantly related
species. Our results indicate that the genomic distribution of microsatellites
in rice appears to be random, with no obvious bias for, or clustering in
particular regions, that mapping results are identical in intersubspecific and
interspecific populations, and that amplification in wild relatives of Oryza
sativa is reliable in species most closely related to cultivated rice but
becomes less successful as the genetic distance increases. Sequence analysis of
SSLP alleles in three related indica varieties demonstrated the clustering of
complex arrays of SSR motifs in a single 300-bp region with independent
variation in each. Two microsatellite markers amplified multiple loci that were
mapped onto independent rice chromosomes, suggesting the presence of duplicated
regions within the rice genome. The availability of increasing numbers of mapped
SSLP markers can be expected to increase the power and resolution of genome
analysis in rice.