TY  - JOUR
A1  - van Oeveren, Jan
A1  - de Ruiter, Marjo
A1  - Jesse, Taco
A1  - van der Poel, Hein
A1  - Tang, Jifeng
A1  - Yalcin, Feyruz
A1  - Janssen, Antoine
A1  - Volpin, Hanne
A1  - Stormo, Keith E.
A1  - Bogden, Robert
A1  - van Eijk, Michiel J.T.
A1  - Prins, Marcel
T1  - Sequence-based physical mapping of complex genomes by whole genome profiling
Y1  - 2011/04/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 618 
EP  - 625 
DO  - 10.1101/gr.112094.110 
VL  - 21 
IS  - 4 
UR  - http://genome.cshlp.org/content/21/4/618.abstract 
N2  - We present whole genome profiling (WGP), a novel next-generation sequencing-based physical mapping technology for construction of bacterial artificial chromosome (BAC) contigs of complex genomes, using Arabidopsis thaliana as an example. WGP leverages short read sequences derived from restriction fragments of two-dimensionally pooled BAC clones to generate sequence tags. These sequence tags are assigned to individual BAC clones, followed by assembly of BAC contigs based on shared regions containing identical sequence tags. Following in silico analysis of WGP sequence tags and simulation of a map of Arabidopsis chromosome 4 and maize, a WGP map of Arabidopsis thaliana ecotype Columbia was constructed de novo using a six-genome equivalent BAC library. Validation of the WGP map using the Columbia reference sequence confirmed that 350 BAC contigs (98%) were assembled correctly, spanning 97% of the 102-Mb calculated genome coverage. We demonstrate that WGP maps can also be generated for more complex plant genomes and will serve as excellent scaffolds to anchor genetic linkage maps and integrate whole genome sequence data. 
ER  -