Assembly of high-resolution restriction maps based on multiple complete digests of a redundant set of overlapping clones.
An approach to restriction-site mapping and contig building that uses fragment-size data from multiple complete digests of a set of clones that oversample a genomic region is presented. Maps containing both fragment-length data and clone-end data are maintained for each restriction enzyme. Synchronization between the maps for the different enzymes is achieved by requiring the clone-end maps for all enzymes to be compatible. Basic concepts that underlie multiple-complete-digest mapping--including the match/merge approach to map incorporation, extension vs assimilation, ambiguity, and clone-end compatibility--are presented. An initial application of multiple-complete-digest mapping to real data on a set of cosmid clones suggests that this mapping method has exceptional power to produce accurate maps that are well suited to the needs of large-scale DNA-sequencing projects.
Gillett
W
W
Department of Computer Science, Washington University, St. Louis, Missouri, 63130, USA.
Hanks
L
L
Wong
G K
GK
Yu
J
J
Lim
R
R
Olson
M V
MV
D000465:Algorithms; D001483:Base Sequence; D015825:Chromosomes, Fungal; D003001:Cloning, Molecular; D003360:Cosmids; D004247:DNA / Q000737:chemistry* / Q000235:genetics; D004262:DNA Restriction Enzymes / Q000378:metabolism; D004271:DNA, Fungal / Q000737:chemistry / Q000235:genetics; D015246:Deoxyribonuclease EcoRI; D015247:Deoxyribonuclease HindIII; D008433:Mathematics; D008962:Models, Theoretical; D009838:Oligodeoxyribonucleotides / Q000737:chemistry; D015183:Restriction Mapping; D012440:Saccharomyces / Q000235:genetics
D004271:DNA, Fungal; D009838:Oligodeoxyribonucleotides; D004247:DNA; D004262:DNA Restriction Enzymes; D015246:Deoxyribonuclease EcoRI; D015247:Deoxyribonuclease HindIII