Whole-genome shotgun optical mapping of Deinococcus radiodurans.
A whole-genome restriction map of Deinococcus radiodurans, a radiation-resistant bacterium able to survive up to 15,000 grays of ionizing radiation, was constructed without using DNA libraries, the polymerase chain reaction, or electrophoresis. Very large, randomly sheared, genomic DNA fragments were used to construct maps from individual DNA molecules that were assembled into two circular overlapping maps (2.6 and 0.415 megabases), without gaps. A third smaller chromosome (176 kilobases) was identified and characterized. Aberrant nonlinear DNA structures that may define chromosome structure and organization, as well as intermediates in DNA repair, were directly visualized by optical mapping techniques after gamma irradiation.
Lin
J
J
W. M. Keck Laboratory for Biomolecular Imaging, Department of Chemistry, New York University, 31 Washington Place, New York, NY 10003, USA.
Qi
R
R
Aston
C
C
Jing
J
J
Anantharaman
T S
TS
Mishra
B
B
White
O
O
Daly
M J
MJ
Minton
K W
KW
Venter
J C
JC
Schwartz
D C
DC
D002876:Chromosomes, Bacterial; D020451:Contig Mapping / Q000379:methods*; D004249:DNA Damage; D004260:DNA Repair; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics / Q000528:radiation effects; D004270:DNA, Circular / Q000737:chemistry; D005720:Gamma Rays; D016680:Genome, Bacterial; D006095:Gram-Positive Cocci / Q000235:genetics* / Q000528:radiation effects; D007091:Image Processing, Computer-Assisted; D008856:Microscopy, Fluorescence; D009690:Nucleic Acid Conformation; D010957:Plasmids; D011836:Radiation Tolerance; D011995:Recombination, Genetic; D015183:Restriction Mapping / Q000379:methods*
D004269:DNA, Bacterial; D004270:DNA, Circular