title: A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome.
abstract: Sex chromosomes are particularly interesting regions of the genome for both molecular genetics and evolutionary studies; yet, for most species, we lack basic information, such as the gene order along the chromosome. Because they lack recombination, Y-linked genes cannot be mapped genetically, leaving physical mapping as the only option for establishing the extent of synteny and homology with the X chromosome. Here, we developed a novel and general method for deletion mapping of non-recombining regions by solving "the travelling salesman problem", and evaluate its accuracy using simulated datasets. Unlike the existing radiation hybrid approach, this method allows us to combine deletion mutants from different experiments and sources. We applied our method to a set of newly generated deletion mutants in the dioecious plant Silene latifolia and refined the locations of the sex-determining loci on its Y chromosome map.
authors.affiliation: RIKEN Nishina Center, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.
authors.forename: Yusuke
authors.initials: Y
authors.lastname: Kazama
authors.affiliation: RIKEN Nishina Center, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.
authors.forename: Kotaro
authors.initials: K
authors.lastname: Ishii
authors.affiliation: Department of Integrated Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba 277-8562, Japan.
authors.forename: Wataru
authors.initials: W
authors.lastname: Aonuma
authors.affiliation: RIKEN Nishina Center, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.
authors.forename: Tokihiro
authors.initials: T
authors.lastname: Ikeda
authors.affiliation: Department of Integrated Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba 277-8562, Japan.
authors.forename: Hiroki
authors.initials: H
authors.lastname: Kawamoto
authors.affiliation: Department of Integrated Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba 277-8562, Japan.
authors.forename: Ayako
authors.initials: A
authors.lastname: Koizumi
authors.affiliation: Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK.
authors.forename: Dmitry A
authors.initials: DA
authors.lastname: Filatov
authors.affiliation: Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK.
authors.forename: Margarita
authors.initials: M
authors.lastname: Chibalina
authors.affiliation: Institute of Evolutionary Biology, University of Edinburgh, School of Biological Sciences, Edinburgh EH9 3JT, UK.
authors.forename: Roberta
authors.initials: R
authors.lastname: Bergero
authors.affiliation: Institute of Evolutionary Biology, University of Edinburgh, School of Biological Sciences, Edinburgh EH9 3JT, UK.
authors.forename: Deborah
authors.initials: D
authors.lastname: Charlesworth
authors.affiliation: RIKEN Nishina Center, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.
authors.forename: Tomoko
authors.initials: T
authors.lastname: Abe
authors.affiliation: Department of Integrated Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba 277-8562, Japan.
authors.forename: Shigeyuki
authors.initials: S
authors.lastname: Kawano
mesh_terms: D001483:Base Sequence; D005075:Biological Evolution; D032461:Chromosomes, Plant / Q000737:chemistry*; D035264:Flowers / Q000235:genetics*; D056426:Genetic Loci; D020161:Physical Chromosome Mapping / Q000379:methods*; D017384:Sequence Deletion; D019849:Sex Determination Processes; D029751:Silene / Q000235:genetics*; D012984:Software