Development, characterization, and comparative analysis of polymorphism at common bean SSR loci isolated from genic and genomic sources.
Microsatellites or SSRs (single sequence repeats) have been used to construct and integrate genetic maps in crop species, including Phaseolus vulgaris. In the present study, 3 cDNA libraries generated by the Bean EST project (http://lgm.esalq.usp.br/BEST/), comprising a unigene collection of 3126 sequences and a genomic microsatellite-enriched library, were analyzed for the presence of SSRs. A total of 219 expressed sequence tags (ESTs) were found to carry 240 SSRs (named EST-SSR), whereas 714 genomic sequences contained 471 SSRs (named genomic-SSR). A subset of 80 SSRs, 40 EST-SSRs, and 40 genomic-SSRs were evaluated for molecular polymorphism in 23 genotypes of cultivated beans from the Mesoamerican and Andean genetic pools, including Brazilian cultivars and 2 related species. Of the common bean genotypes, 31 EST-SSR loci were polymorphic, yielding 2-12 alleles as compared with 26 polymorphic genomic-SSRs, accounting for 2-7 alleles. Cluster analysis from data using both genic and genomic-SSR revealed a clear separation between Andean and Mesoamerican beans. The usefulness of these loci for distinguishing bean genotypes and genetic mapping is discussed.
Hanai
Luiz Ricardo
LR
Universidade de São Paulo, Escola Superior de Agricultura Luiz de Queiroz, Avenida Pádua Dias, 11, 13418-900, Piracicaba, Brazil.
de Campos
Tatiana
T
Camargo
Luis Eduardo Aranha
LE
Benchimol
Luciana Lasry
LL
de Souza
Anete Pereira
AP
Melotto
Maeli
M
Carbonell
Sérgio Augusto Moraes
SA
Chioratto
Alisson Fernando
AF
Consoli
Luciano
L
Formighieri
Eduardo Fernando
EF
Siqueira
Marcos Vinícius Bohrer Monteiro
MV
Tsai
Siu Mui
SM
Vieira
Maria Lucia Carneiro
ML
D001483:Base Sequence; D018744:DNA, Plant / Q000235:genetics; D020224:Expressed Sequence Tags; D017343:Genes, Plant; D018745:Genome, Plant; D005838:Genotype; D018895:Microsatellite Repeats; D027805:Phaseolus / Q000235:genetics*; D010802:Phylogeny; D011110:Polymorphism, Genetic
D018744:DNA, Plant