Shotgun Optical Maps of the Whole Escherichia coli O157:H7 Genome Export

@article{citeulike:2989116, abstract = {We have constructed NheI and XhoI optical maps of Escherichia coli O157:H7 solely from genomic DNA molecules to provide a uniquely valuable scaffold for contig closure and sequence validation. E. coli O157:H7 is a common pathogen found in contaminated food and water. Our approach obviated the need for the analysis of clones, PCR products, and hybridizations, because maps were constructed from ensembles of single DNA molecules. Shotgun sequencing of bacterial genomes remains labor-intensive, despite advances in sequencing technology. This is partly due to manual intervention required during the last stages of finishing. The applicability of optical mapping to this problem was enhanced by advances in machine vision techniques that improved mapping throughput and created a path to full automation of mapping. Comparisons were made between maps and sequence data that characterized sequence gaps and guided nascent assemblies. 10.1101/gr.172101}, author = {Lim, Alex and Dimalanta, Eileen T. and Potamousis, Konstantinos D. and Yen, Galex and Apodoca, Jennifer and Tao, Chunhong and Lin, Jieyi and Qi, Rong and Skiadas, John and Ramanathan, Arvind and Perna, Nicole T. and Plunkett, Guy and Burland, Valerie and Mau, Bob and Hackett, Jeremiah and Blattner, Frederick R. and Anantharaman, Thomas S. and Mishra, Bhubaneswar and Schwartz, David C.}, citeulike-article-id = {2989116}, citeulike-linkout-0 = {http://dx.doi.org/10.1101/gr.172101}, citeulike-linkout-1 = {http://www.genome.org/cgi/content/abstract/11/9/1584}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/11544203}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=11544203}, day = {1}, doi = {10.1101/gr.172101}, journal = {Genome Res.}, keywords = {assembly, gaps, genomics, opticalmapping}, month = {September}, number = {9}, pages = {1584--1593}, posted-at = {2008-07-11 18:24:05}, priority = {3}, title = {Shotgun Optical Maps of the Whole Escherichia coli O157:H7 Genome}, url = {http://dx.doi.org/10.1101/gr.172101}, volume = {11}, year = {2001} }

TY - JOUR ID - citeulike:2989116 L3 - citeulike-article-id:2989116 N2 - We have constructed NheI and XhoI optical maps of Escherichia coli O157:H7 solely from genomic DNA molecules to provide a uniquely valuable scaffold for contig closure and sequence validation. E. coli O157:H7 is a common pathogen found in contaminated food and water. Our approach obviated the need for the analysis of clones, PCR products, and hybridizations, because maps were constructed from ensembles of single DNA molecules. Shotgun sequencing of bacterial genomes remains labor-intensive, despite advances in sequencing technology. This is partly due to manual intervention required during the last stages of finishing. The applicability of optical mapping to this problem was enhanced by advances in machine vision techniques that improved mapping throughput and created a path to full automation of mapping. Comparisons were made between maps and sequence data that characterized sequence gaps and guided nascent assemblies. 10.1101/gr.172101 IS - 9 JF - Genome Res. EP - 1593 TI - Shotgun Optical Maps of the Whole Escherichia coli O157:H7 Genome VL - 11 SP - 1584 KW - assembly KW - gaps KW - genomics KW - opticalmapping AU - Lim, Alex AU - Dimalanta, Eileen AU - Potamousis, Konstantinos AU - Yen, Galex AU - Apodoca, Jennifer AU - Tao, Chunhong AU - Lin, Jieyi AU - Qi, Rong AU - Skiadas, John AU - Ramanathan, Arvind AU - Perna, Nicole AU - Plunkett, Guy AU - Burland, Valerie AU - Mau, Bob AU - Hackett, Jeremiah AU - Blattner, Frederick AU - Anantharaman, Thomas AU - Mishra, Bhubaneswar AU - Schwartz, David PY - 2001/09/01/ UR - http://dx.doi.org/10.1101/gr.172101 ER -