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PMID: 16951074 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Genetic dissection of intermated recombinant inbred lines using a new genetic map of maize.

Genetics ·Vol. 174 ·No. 3 ·2006-11-00 ·Pages 1671-83

Fu Y, Wen TJ, Ronin YI, Chen HD, Guo L, Mester DI, Yang Y, Lee M, Korol AB, Ashlock DA, Schnable PS

Abstract

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 B73xMo17 (IBM) population. The website http://magi.plantgenomics.iastate.edu provides access to IDP primer sequences, sequences from which IDP primers were designed, optimized marker-specific 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.

MeSH Terms
Alleles Base Sequence Chromosome Mapping Chromosomes, Plant Crosses, Genetic Expressed Sequence Tags Gene Frequency Genes, Plant Genetic Markers Molecular Sequence Data Polymorphism, Genetic Quantitative Trait Loci Recombination, Genetic Zea mays/genetics
Chemicals
Genetic Markers
Authors & Affiliations
11 authors, click to expand affiliations / ORCID
Fu Yan
Interdepartmental Genetics Graduate Program, Iowa State University, Ames, Iowa 50011-3467, USA.
Wen Tsui-Jung
Ronin Yefim I
Chen Hsin D
Guo Ling
Mester David I
Yang Yongjie
Lee Michael
Korol Abraham B
Ashlock Daniel A
Schnable Patrick S
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Article Info
Journal
Genetics
Abbr.
Genetics
ISSN
0016-6731
DOI
10.1534/genetics.106.060376
Published
2006-11-00
Epub
2006-00-01
Pages
1671-83
Language
English
Region
United States
NLM ID
0374636
PMCID
PMC1667089
Subset
IM
Databases
GENBANK
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External Links
PubMed source DOI: 10.1534/genetics.106.060376 PMC Full Text View journal details
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