RT Journal
A1 Freeling, Michael
A1 Lyons, Eric
A1 Pedersen, Brent
A1 Alam, Maqsudul
A1 Ming, Ray
A1 Lisch, Damon
T1 Many or most genes in Arabidopsis transposed after the origin of the order Brassicales
JF Genome Research 
JO Genome Research 
YR 2008 
FD December 01 
VO 18 
IS 12 
SP 1924 
OP 1937 
DO 10.1101/gr.081026.108 
UL http://genome.cshlp.org/content/18/12/1924.abstract 
AB Previous to this work, typical genes were thought to move from one position to another infrequently. On the contrary, we now estimate that between one-fourth and three-fourths of the genes in Arabidopsis transposed in the Brassicales. We used the CoGe comparative genomics system to perform and visualize multiple orthologous chromosomal alignments. Using this tool, we found large differences between different categories of genes. Ten of the gene families examined, including genes in most transcription factor families, exhibited a median frequency of 5% transposed genes. In contrast, other gene families were composed largely of transposed genes: NB-LRR disease-resistance genes, genes encoding MADS-box and B3 transcription factors, and genes encoding F-box proteins. A unique method involving transposition-rich regions of genome allowed us to obtain an indirect estimate of the positional stability of the average gene. The observed differences between gene families raise important questions concerning the causes and consequences of gene transposition.