Patent ID: 8685650

Claim:
Method for the generation of a physical map of at least part of a genome comprising the steps of: (a) providing a sample DNA; (b) generating an artificial chromosome clone bank wherein each artificial chromosome clone contains part of the sample DNA; (c) combining the artificial chromosome clones in a plurality of pools, wherein each clone is present in more than one pool of the plurality of pools, to create a library; (d) digesting the DNA contained in the plurality of pools with one or more restriction endonucleases to provide for a set of restriction fragments for each pool; (e) ligating adaptors to one or both sides of the restriction fragments, wherein at least one adaptor contains a pool-specific identifier or a degenerate identifier section, respectively, to provide adaptor-ligated restriction fragments; (f) combining the adaptor-ligated restriction fragments of step (e); (g) amplifying the adaptor-ligated fragments with at least one primer to provide amplicons; (h) determining the sequence of at least the pool-specific identifier and part of the restriction fragment of the amplicons; (i) assigning the restriction fragment sequences determined in the amplicons to the corresponding clones using the pool-specific identifiers; (j) building a contig based on sequence matching of the restriction fragment derived sections; and (k) ordering the restriction fragments of step (i) to thereby build a clone-contig and generating a physical map.