title: A Chromosome Segment Substitution Library of Weedy Rice for Genetic Dissection of Complex Agronomic and Domestication Traits.
abstract: Chromosome segment substitution lines (CSSLs) are a powerful alternative for locating quantitative trait loci (QTL), analyzing gene interactions, and providing starting materials for map-based cloning projects. We report the development and characterization of a CSSL library of a U.S. weedy rice accession 'PSRR-1' with genome-wide coverage in an adapted rice cultivar 'Bengal' background. The majority of the CSSLs carried a single defined weedy rice segment with an average introgression segment of 2.8 % of the donor genome. QTL mapping results for several agronomic and domestication traits from the CSSL population were compared with those obtained from two recombinant inbred line (RIL) populations involving the same weedy rice accession. There was congruence of major effect QTLs between both types of populations, but new and additional QTLs were detected in the CSSL population. Although, three major effect QTLs for plant height were detected on chromosomes 1, 4, and 8 in the CSSL population, the latter two escaped detection in both RIL populations. Since this was observed for many traits, epistasis may play a major role for the phenotypic variation observed in weedy rice. High levels of shattering and seed dormancy in weedy rice might result from an accumulation of many small effect QTLs. Several CSSLs with desirable agronomic traits (e.g. longer panicles, longer grains, and higher seed weight) identified in this study could be useful for rice breeding. Since weedy rice is a reservoir of genes for many weedy and agronomic attributes, the CSSL library will serve as a valuable resource to discover latent genetic diversity for improving crop productivity and understanding the plant domestication process through cloning and characterization of the underlying genes.
authors.affiliation: School of Plant, Environmental, and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, Louisiana, United States of America.
authors.forename: Prasanta K
authors.initials: PK
authors.lastname: Subudhi
authors.affiliation: School of Plant, Environmental, and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, Louisiana, United States of America.
authors.forename: Teresa
authors.initials: T
authors.lastname: De Leon
authors.affiliation: School of Plant, Environmental, and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, Louisiana, United States of America.
authors.forename: Pradeep K
authors.initials: PK
authors.lastname: Singh
authors.affiliation: School of Plant, Environmental, and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, Louisiana, United States of America.
authors.forename: Arnold
authors.initials: A
authors.lastname: Parco
authors.affiliation: Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, Louisiana, United States of America.
authors.forename: Marc A
authors.initials: MA
authors.lastname: Cohn
authors.affiliation: Tokyo University of Agriculture, Tokyo, Japan.
authors.forename: Takuji
authors.initials: T
authors.lastname: Sasaki
mesh_terms: D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics / Q000378:metabolism*; D015723:Gene Library; D005819:Genetic Markers / Q000235:genetics; D018745:Genome, Plant; D005838:Genotype; D012275:Oryza / Q000235:genetics*; D010641:Phenotype; D030821:Plants, Genetically Modified / Q000235:genetics; D040641:Quantitative Trait Loci
chemical_list: D005819:Genetic Markers