title: Genome sequencing reveals agronomically important loci in rice using MutMap.
abstract: The majority of agronomic traits are controlled by multiple genes that cause minor phenotypic effects, making the identification of these genes difficult. Here we introduce MutMap, a method based on whole-genome resequencing of pooled DNA from a segregating population of plants that show a useful phenotype. In MutMap, a mutant is crossed directly to the original wild-type line and then selfed, allowing unequivocal segregation in second filial generation (F(2)) progeny of subtle phenotypic differences. This approach is particularly amenable to crop species because it minimizes the number of genetic crosses (n = 1 or 0) and mutant F(2) progeny that are required. We applied MutMap to seven mutants of a Japanese elite rice cultivar and identified the unique genomic positions most probable to harbor mutations causing pale green leaves and semidwarfism, an agronomically relevant trait. These results show that MutMap can accelerate the genetic improvement of rice and other crop plants.
authors.affiliation: Iwate Agricultural Research Center, Kitakami, Japan.
authors.forename: Akira
authors.initials: A
authors.lastname: Abe
authors.forename: Shunichi
authors.initials: S
authors.lastname: Kosugi
authors.forename: Kentaro
authors.initials: K
authors.lastname: Yoshida
authors.forename: Satoshi
authors.initials: S
authors.lastname: Natsume
authors.forename: Hiroki
authors.initials: H
authors.lastname: Takagi
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Kanzaki
authors.forename: Hideo
authors.initials: H
authors.lastname: Matsumura
authors.forename: Kakoto
authors.initials: K
authors.lastname: Yoshida
authors.forename: Chikako
authors.initials: C
authors.lastname: Mitsuoka
authors.forename: Muluneh
authors.initials: M
authors.lastname: Tamiru
authors.forename: Hideki
authors.initials: H
authors.lastname: Innan
authors.forename: Liliana
authors.initials: L
authors.lastname: Cano
authors.forename: Sophien
authors.initials: S
authors.lastname: Kamoun
authors.forename: Ryohei
authors.initials: R
authors.lastname: Terauchi
mesh_terms: D002874:Chromosome Mapping; D018556:Crops, Agricultural / Q000235:genetics; D003433:Crosses, Genetic; D018745:Genome, Plant; D005838:Genotype; D009154:Mutation / Q000235:genetics*; D012275:Oryza / Q000235:genetics*; D010641:Phenotype; D018515:Plant Leaves / Q000235:genetics; D020641:Polymorphism, Single Nucleotide; D040641:Quantitative Trait Loci / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*