Patent ID: 8367322

Claim:
A method of assembling a map of an organism's genome or portions thereof comprising: providing a library of an organism's DNA, wherein individual genomic segments are found in more than one clone in the library with at least some of the said individual genomic segments have overlapping DNA sequences; creating representations of the genomic segments in individual clones by selecting a subpopulation of genomic segments out of a larger set of the genomic segments in each of the individual clones, wherein said selecting a subpopulation of genomic segments comprises: subjecting more than one individual clone to a restriction endonuclease, wherein the restriction endonuclease is effective in recognizing a restriction site recognition sequence and cleaving the DNA in said more than one individual clone at a restriction site of the restriction site recognition sequence thereby creating a plurality of clone fragments having 2 base overhangs and adding 1 to 12 linker-adapters, each of which is non-palindromic, to the overhangs in the presence of ligase and the restriction endonuclease and producing a plurality of clone fragments comprising said 1 to 12 linker-adapters, wherein said plurality of clones fragments comprising said 1 to 12 linker-adapters are selected as the representations, wherein the linker-adapters contain single stranded overhangs of a formula NN/N′N′ where said NN/N′N′ is selected from the group consisting of AA/TT, AC/GT, AG/CT, CA/TG, GA/TC, and GG/CC; generating DNA sequence information from the representations; analyzing the DNA sequence information thereby determining clone overlap from the representations; and combining said clone overlap and DNA sequence information from the representations thereby assembling a map of the organism's genome or portions thereof.