title: BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features.
abstract: Highly polymorphic markers such as simple sequence repeats (SSRs) or microsatellites are very useful for genetic mapping. In this study novel SSRs were identified in BAC-end sequences (BES) from non-contigged, non-overlapping bacterial artificial clones (BACs) in common bean (Phaseolus vulgaris L.). These so called "singleton" BACs were from the G19833 Andean gene pool physical map and the new BES-SSR markers were used for the saturation of the inter-gene pool, DOR364×G19833 genetic map. A total of 899 SSR loci were found among the singleton BES, but only 346 loci corresponded to the single di- or tri-nucleotide motifs that were likely to be polymorphic (ATT or AG motifs, principally) and useful for primer design and individual marker mapping. When these novel SSR markers were evaluated in the DOR364×G19833 population parents, 136 markers revealed polymorphism and 106 were mapped. Genetic mapping resulted in a map length of 2291 cM with an average distance between markers of 5.2 cM. The new genetic map was compared to the most recent cytogenetic analysis of common bean chromosomes. We found that the new singleton BES-SSR were helpful in filling peri-centromeric spaces on the cytogenetic map. Short genetic distances between some new singleton-derived BES-SSR markers was common showing suppressed recombination in these regions compared to other parts of the genome. The correlation of singleton-derived SSR marker distribution with other cytogenetic features of the bean genome is discussed.
authors.affiliation: Departamento de Agronomía y Ciencias Agricolas, Universidad Nacional de Colombia, Km 12 via Chapinero, Palmira, Colombia; Department of Agriculture and Natural Sciences, Tennessee State University, Nashville, Tennessee, United States of America.
authors.forename: Matthew Wohlgemuth
authors.initials: MW
authors.lastname: Blair
authors.affiliation: CORPOICA, Km 14 via Mosquera, Mosquera-Cundinamarca, Colombia.
authors.forename: Juana Marcela
authors.initials: JM
authors.lastname: Córdoba
authors.affiliation: Generation Challenge Program, Tropical Legumes I, c/o CIAT, Cali, Colombia.
authors.forename: Claritza
authors.initials: C
authors.lastname: Muñóz
authors.affiliation: Departamento de Agronomía Universidad Nacional de Colombia, Facultad de Agronomía, Bogotá, Colombia.
authors.forename: Deissy K
authors.initials: DK
authors.lastname: Yuyó
mesh_terms: D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics*; D020732:Cytogenetic Analysis; D018745:Genome, Plant / Q000235:genetics*; D023281:Genomics; D018895:Microsatellite Repeats / Q000235:genetics*; D027805:Phaseolus / Q000166:cytology* / Q000235:genetics*; D020161:Physical Chromosome Mapping; D011110:Polymorphism, Genetic / Q000235:genetics