title: High-resolution genetic maps of Lotus japonicus and L. burttii based on re-sequencing of recombinant inbred lines.
abstract: Recombinant inbred lines (RILs) derived from bi-parental populations are stable genetic resources, which are widely used for constructing genetic linkage maps. These genetic maps are essential for QTL mapping and can aid contig and scaffold anchoring in the final stages of genome assembly. In this study, two Lotus sp. RIL populations, Lotus japonicus MG-20 × Gifu and Gifu × L. burttii, were characterized by Illumina re-sequencing. Genotyping of 187 MG-20 × Gifu RILs at 87,140 marker positions and 96 Gifu × L. burttii RILs at 357,973 marker positions allowed us to accurately identify 1,929 recombination breakpoints in the MG-20 × Gifu RILs and 1,044 breakpoints in the Gifu × L. burttii population. The resulting high-density genetic maps now facilitate high-accuracy QTL mapping, identification of reference genome mis-assemblies, and characterization of structural variants.
authors.affiliation: Center for Carbohydrate Recognition and Signalling, Department of Molecular Biology and Genetics, Aarhus University, DK-8000 Aarhus, Denmark.
authors.forename: Niraj
authors.initials: N
authors.lastname: Shah
authors.affiliation: Kazusa DNA Research Institute, Chiba 292-0818, Japan.
authors.forename: Hideki
authors.initials: H
authors.lastname: Hirakawa
authors.affiliation: Graduate School of Life Sciences, Tohoku University, Aoba-ku, Sendai 980-8577, Japan.
authors.forename: Shohei
authors.initials: S
authors.lastname: Kusakabe
authors.affiliation: Center for Carbohydrate Recognition and Signalling, Department of Molecular Biology and Genetics, Aarhus University, DK-8000 Aarhus, Denmark.
authors.forename: Niels
authors.initials: N
authors.lastname: Sandal
authors.affiliation: Center for Carbohydrate Recognition and Signalling, Department of Molecular Biology and Genetics, Aarhus University, DK-8000 Aarhus, Denmark.
authors.forename: Jens
authors.initials: J
authors.lastname: Stougaard
authors.affiliation: Bioinformatics Research Centre, Aarhus University, 8000 Aarhus C, Denmark.
authors.forename: Mikkel Heide
authors.initials: MH
authors.lastname: Schierup
authors.affiliation: Kazusa DNA Research Institute, Chiba 292-0818, Japan.|Graduate School of Life Sciences, Tohoku University, Aoba-ku, Sendai 980-8577, Japan.
authors.forename: Shusei
authors.initials: S
authors.lastname: Sato
authors.affiliation: Center for Carbohydrate Recognition and Signalling, Department of Molecular Biology and Genetics, Aarhus University, DK-8000 Aarhus, Denmark.
authors.forename: Stig Uggerhøj
authors.initials: SU
authors.lastname: Andersen
keywords: QTL mapping; assembly errors; chromosomal translocations; genetic map; recombinant inbred lines