TY - JOUR
T1 - High-resolution genetic maps of Lotus japonicus and L. burttii based on re-sequencing of recombinant inbred lines
AU - Shah, Niraj
AU - Hirakawa, Hideki
AU - Kusakabe, Shohei
AU - Sandal, Niels
AU - Stougaard, Jens
AU - Schierup, Mikkel Heide
AU - Sato, Shusei
AU - Andersen, Stig Uggerhøj
N1 - © The Author 2016. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.
PY - 2016/7/3
Y1 - 2016/7/3
N2 - 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.
AB - 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.
KW - Assembly errors
KW - Chromosomal translocations
KW - Genetic map
KW - QTL mapping
KW - Recombinant inbred lines
UR - http://www.scopus.com/inward/record.url?scp=84991794939&partnerID=8YFLogxK
U2 - 10.1093/dnares/dsw033
DO - 10.1093/dnares/dsw033
M3 - Journal article
C2 - 27374610
SN - 1340-2838
VL - 23
SP - 487
EP - 495
JO - D N A Research
JF - D N A Research
IS - 5
ER -