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As a result of the progress in sequencing technology, many plant genomes have now been determined. Functional genomics is required to clarify gene function in many of these species. To identify useful genes easily and quickly, we have developed a FOX (
f
ull-length c
DNAo
vere
x
pressor) hunting system in which full-length
cDNA
s are overexpressed in
Arabidopsis
plants. This system was applied to high-throughput analysis of rice genes through heterologous expression in
Arabidopsis
(rice FOX
Arabidopsis
lines). We demonstrated that it is possible to carry out high-throughput analysis of gene function by utilizing rice FOX
Arabidopsis
lines. In this protocol, we describe how to isolate candidate rice FOX
Arabidopsis
lines and to determine the rice fl-cDNA that is responsible for the observed phenotype.