A universal core genetic map for rice

Vista sencilla de ítem
dc.creatorOrjuela, J.
dc.creatorGaravito, AM
dc.creatorBouniol, M
dc.creatorArbeláez Vélez, Juan D.
dc.creatorMoreno, L
dc.creatorKimball, J
dc.creatorWilson, G
dc.creatorRami, J.F.
dc.creatorTohme, Joseph M.
dc.creatorMcCouch, Susan R.
dc.creatorLorieux, Mathias
dc.date2010-02
dc.date2014-09-24T07:58:10Z
dc.date2014-09-24T07:58:10Z
dc.date.accessioned2026-06-27T14:47:35Z
dc.descriptionTo facilitate the creation of easily comparable, low-resolution genetic maps with evenly distributed markers in rice (Oryza sativa L.), we conceived of and developed a Universal Core Genetic Map (UCGM). With this aim, we derived a set of 165 anchors, representing clusters of three microsatellite or simple sequence repeat (SSR) markers arranged into non-recombining groups. Each anchor consists of at least three, closely linked SSRs, located within a distance below the genetic resolution provided by common, segregating populations (<500 individuals). We chose anchors that were evenly distributed across the rice chromosomes, with spacing between 2 and 3.5 Mbp (except in the telomeric regions, where spacing was 1.5 Mbp). Anchor selection was performed using in silico tools and data: the O. sativa cv. Nipponbare rice genome sequence, the CHARM tool, information from the Gramene database and the OrygenesDB database. Sixteen AA-genome accessions of the Oryza genus were used to evaluate polymorphisms for the selected markers, including accessions from O. sativa, O. glaberrima, O. barthii, O. rufipogon, O. glumaepatula and O. meridionalis. High levels of polymorphism were found for the tested O. sativa × O. glaberrima or O. sativa × wild rice combinations. We developed Paddy Map, a simple database that is helpful in selecting optimal sets of polymorphic SSRs for any cross that involves the previously mentioned species. Validation of the UCGM was done by using it to develop three interspecific genetic maps and by comparing genetic SSR locations with their physical positions on the rice pseudomolecules. In this study, we demonstrate that the UCGM is a useful tool for the rice genetics and breeding community, especially in strategies based on interspecific hybridisation.
dc.identifierhttps://hdl.handle.net/10568/42541
dc.identifier.urihttp://hdl.handle.net/123456789/88574
dc.languageen
dc.publisherSpringer
dc.rightsLimited Access
dc.subjectgenetic markers
dc.subjectinterspecific hybridization
dc.subjectmicrosatellites
dc.subjectrice
dc.subjectdatabases
dc.subjectpolymorphism
dc.subjectmarcadores genéticos
dc.subjecthibridación interespecifica
dc.subjectmicrosatélites
dc.subjectarroz
dc.subjectbases de datos
dc.subjectpolimorfismo
dc.subjectpre print
dc.titleA universal core genetic map for rice
dc.typeJournal Article

Archivos

Colecciones

Centro Internacional de Agricultura Tropical (CIAT)