Our results showed that we were able to generate, by a phage display procedure, mimotopes with sequence motifs PGxI/LN and CxPDDSSxC, and to identify them as functional motifs of the Pet, Pic and other SPATEs involved in their biological activities.
The differential display procedure was performed as previously described [ 15- 18].
The differential display procedure and other analytical steps were developed with R [ 47].
VN developed the algorithm for the differential display procedure, participated in the data analyses and reviewed the manuscript.
VN developed the algorithm for the differential display procedure, processed the SAGE data, participated in the data analyses and reviewed the manuscript.
We thank Randy Kerstetter for suggesting the modified transposon display procedure to characterize Ds insertion sites in W22 and Yubin Li, Qinghua Wang, and Jun Huang for valuable comments on the manuscript.
More specifically, the genome complexity reduction step was achieved thanks to a MITE-display procedure which utilizes the Ae. aegypti Pony element [ 15] as an additional primer anchor.
To estimate the fraction of Ds insertion sites in W22 that are not shared with B73, we proceeded to isolate Ds 5' junction sequences in W22 by a modified transposon display procedure, sequenced a set of random clones, identified 25 different junctions, and BLASTed them against the B73 genome.
Our TE display procedure followed [ 5], including the extensive technical replication, to produce A. thaliana TE polymorphism data for Ac-like III (henceforth " Ac"); Helitron Basho TEs (" Basho"); CACTA; Gypsy-like (" Gypsy"); LINE-like ("LINE"); SINE-like I ("SINE"); and Tourist-like MITE ("MITE") elements.
We have even undertaken the extraordinary step of commissioning an independent audit of our flight display procedures.
