Genetic dissection of transcriptional regulation by cDNA-AFLP.
This study demonstrates that cDNA-AFLP is a powerful gel-based genome-scale transcript profiling technique to generate quantitative gene expression profiles for eQTL mapping. We used cDNA-AFLP to monitor the relative abundance of 912 transcripts across 50 Arabidopsis thaliana recombinant inbred lines. Estimates for heritability of cDNA-AFLP intensity polymorphisms were high, with a median of 0.30 and an interquartile range of 0.21-0.44. A total of 198 expression polymorphisms were significantly linked to specific chromosomal regions (P < 0.05). Both cis- and trans-acting loci correlated with the variation in gene expression levels were found. Some of the trans-acting loci correlated to multiple expression polymorphisms, suggesting trans-acting alleles with widespread transcriptional effects. Here, we have illustrated that cDNA-AFLP constitutes a powerful transcript profiling method that can be utilized for 'multifactorial genomics' analysis of any plant or animal species for which segregating populations and molecular marker maps are available.
Vuylsteke
Marnik
M
Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology (VIB), Ghent University, Technologiepark 927, B9052 Gent, Belgium. marnik.vuylsteke@psb.ugent.be
Daele
Hilde
H
Vercauteren
Annelies
A
Zabeau
Marc
M
Kuiper
Martin
M
D017360:Arabidopsis / Q000235:genetics; D002874:Chromosome Mapping; D018076:DNA, Complementary / Q000378:metabolism; D020869:Gene Expression Profiling / Q000379:methods*; D018506:Gene Expression Regulation, Plant; D023281:Genomics / Q000379:methods; D010641:Phenotype; D016133:Polymerase Chain Reaction / Q000379:methods; D011110:Polymorphism, Genetic; D040641:Quantitative Trait Loci; D012333:RNA, Messenger / Q000032:analysis; D014158:Transcription, Genetic
D018076:DNA, Complementary; D012333:RNA, Messenger