TY - JOUR
T1 - Genetic dissection of intermated recombinant inbred lines using a new genetic map of maize
AU - Fu, Yan
AU - Wen, Tsui Jung
AU - Ronin, Yefim I.
AU - Chen, Hsin D.
AU - Guo, Ling
AU - Mester, David I.
AU - Yang, Yongjie
AU - Lee, Michael
AU - Korol, Abraham B.
AU - Ashlock, Daniel A.
AU - Schnable, Patrick S.
PY - 2006
Y1 - 2006
N2 - A new genetic map of maize, ISU-IBM Map4, that integrates 2029 existing markers with 1329 new indel polymorphism (IDP) markers has been developed using intermated recombinant inbred lines (IRILs) from the intermated B73 x Mo17 (IBM) population. The website http://magi.plantgenomics.iastate.edu provides access to IDP primer sequences, sequences from which IDP primers were designed, optimized markerspecific PCR conditions, and polymorphism data for all IDP markers. This new gene-based genetic map will facilitate a wide variety of genetic and genomic research projects, including map-based genome sequencing and gene cloning. The mosaic structures of the genomes of 91 IRILs, an important resource for identifying and mapping QTL and eQTL, were defined. Analyses of segregation data associated with markers genotyped in three B73/Mo17-derived mapping populations (F2, Syn5, and IBM) demonstrate that allele frequencies were significantly altered during the development of the IBM IRILs. The observations that two segregation distortion regions overlap with maize flowering-time QTL suggest that the altered allele frequencies were a consequence of inadvertent selection. Detection of two-locus gamete disequilibrium provides another means to extract functional genomic data from well-characterized plant RILs.
AB - A new genetic map of maize, ISU-IBM Map4, that integrates 2029 existing markers with 1329 new indel polymorphism (IDP) markers has been developed using intermated recombinant inbred lines (IRILs) from the intermated B73 x Mo17 (IBM) population. The website http://magi.plantgenomics.iastate.edu provides access to IDP primer sequences, sequences from which IDP primers were designed, optimized markerspecific PCR conditions, and polymorphism data for all IDP markers. This new gene-based genetic map will facilitate a wide variety of genetic and genomic research projects, including map-based genome sequencing and gene cloning. The mosaic structures of the genomes of 91 IRILs, an important resource for identifying and mapping QTL and eQTL, were defined. Analyses of segregation data associated with markers genotyped in three B73/Mo17-derived mapping populations (F2, Syn5, and IBM) demonstrate that allele frequencies were significantly altered during the development of the IBM IRILs. The observations that two segregation distortion regions overlap with maize flowering-time QTL suggest that the altered allele frequencies were a consequence of inadvertent selection. Detection of two-locus gamete disequilibrium provides another means to extract functional genomic data from well-characterized plant RILs.
UR - http://www.scopus.com/inward/record.url?scp=33751319169&partnerID=8YFLogxK
U2 - 10.1534/genetics.106.060376
DO - 10.1534/genetics.106.060376
M3 - Article
C2 - 16951074
AN - SCOPUS:33751319169
SN - 0016-6731
VL - 174
SP - 1671
EP - 1683
JO - Genetics
JF - Genetics
IS - 3
ER -
