Home > Learning Center > References > Publications

Publications

Publications

Author Date Reference Abstract
Li, Z. et al. 2011 Dec Comparison of the two major classes of assembly algorithms: overlap-layout-consensus and de-bruijn-graph. Briefing in Functional Genomics. Link
Eppinger, M. et al. 2011 Dec Genomic anatomy of Escherichia coli O157:H7 outbreaks. PNAS. Link
Jackson et al. 2011 Dec Rapid Genomic-Scale Analysis of Escherichia coli O104:H4 Using High-Resolution. Applied Environmental Microbiology Link
Riley et al. 2011 Nov Optically Mapping Multiple Bacterial Genomes. PLoS One. Link
Chaston et al. 2011 Nov The Entomopathogenic Bacterial Endosymbionts. PLoS One. Link
Turner et al.

2011 Nov

Optical mapping and sequencing of the Escherichia coli KO11. Journal of Industrial Microbiological Biotechnology. Link
Brown, C.T., et al. 2011 Oct “Whole-Genome Sequencing and Phenotypic Analysis of Bacillus subtilis Mutants Following Evolution under Conditions of Relaxed Selection for Sporulation.” Applied and Environmental Microbiology.
Weill, F-X., et al. 2011 Oct Escherichia coli O104:H4 South-West France, June 2011.” The Lancet.
Desjardins, C.A., et al. 2011 Oct “Comparative Genomic Analysis of Human Fungal Pathogens Causing Paracoccidioidomycosis.” PLoS Genetics.
Schott, T., et al. 2011 Oct “Comparative Genomics of Helicobacter pylori and the human-derivedHelicobacter bizzozeronii CIII-1 strain reveal the molecular basis of the zoonotic nature of non-pylori gastric Helicobacter infections in humans.” BMC Genomics.
Turner, P.C., et al. 2011 Oct “Optical mapping and sequencing of the Escherichia coli KO11 genome reveal extensive chromosomal rearrangements, and multiple tandem copies of the Zymomonas mobilis pdc and adhB genes.” Journal of Industrial Microbiology & Biotechnology.
Wang, N. et al. 2011 Sep “Comparative genomic analysis of Xanthomonas axonopodis pv. citrumelo F1 causing citrus bacterial spot and related strains provides insights into virulence and host-specificity.” Journal of Bacteriology.
Santos, A., et al. 2011 Sep “Genome of Mycoplasma haemofelis, unraveling its strategies for survival and persistence.” Veterinary Research.
Riley, M.C., et al. 2011 Aug “Rapid Whole Genome Optical Mapping of Plasmodium falciparum.” Malaria Journal.
Mellmann, A., Harmsen, D., et al. 2011 Jul “Prospective Genomic Characterization of the German Enterohemorrhagic Escherichia coli O104:H4 Outbreak by Rapid Next Generation Sequencing Technology.” PLoS One.
Ziegler, D.R. 2011 Jul “The genome sequence of Bacillus subtillus subsp. Spizizenii W23:insights into speciation within the B. subtilis complex and into the history of B. subtilis genetics.” Microbiology.
Fricke, W.F., et al. 2011 Jul “Comparative Genomics of 28 Salmonella enterica Isolates: Evidence for CRISPR-mediated Adaptive Sublineage Evolution.” Journal of Bacteriology.
Petersen, R.F., et al. 2011 Jun “Molecular Characterization of Salmonella Typhimurium Highly Successful Outbreak Strains.” Foodborne Pathogens and Disease.
Eppinger, M., et al. 2011 May “Genome Signatures of Escherichia coli O157:H7 Isolates from the Bovine Host Reservoir.” Applied Environmental Microbiology.
Macklaim, J.M., et al. 2011 Mar “At the crossroads of vaginal health and disease, the genome sequence of Lactobacillus iners AB-1.” PNAS.
Gibbons, H.S., et al. 2011 Mar “Genomic Signatures of Strain Selection and Enhancement in Bacillus var. globigii, a Historical Biowarfare Simulant.” PLoS One.
Ramirez, M.S., et al. 2011 Mar “Genomic Analysis of Acinetobacter baumannii A118 by Comparison of Optical Maps.” Antimicrobial Agents and Chemotherapy.
Blackburn, M.B., et al. 2011 Mar “The Occurrence of Photorhabdus-Like Toxin Complexes in Bacillus thuringiensis.” PLoS One.
Song, J., et al. 2010 Dec “Draft Genome Sequence of Streptomyces clavuligerus NRRL 3585, a Producer of Diverse Secondary Metabolites.” Journal of Bacteriology.
Howden, B., et al. 2010 Nov “Complete Genome Sequence of Staphylococcus aureus Strain JKD6008, an ST239 Clone of Methicillin-Resistant Staphylococcus aureus with Intermediate-Level Vancomycin Resistance.” Journal of Bacteriology.
Johnson, P., et al. 2010 Oct “A Sustained Hospital Outbreak of Vancomycin-Resistant Enterococcus faecium Bacteremia due to Emergence of van B E. faecium Sequence Type 203.” Journal of Infectious Disease.
Chua, K., et al. 2010 Oct “Complete Genome Sequence of Staphylococcus aureus Strain JKD6159, a Unique Australian Clone of ST93-IV Community Methicillin-Resistant Staphylococcus aureus.” Journal of Bacteriology.
Saunders, M., et al. 2010 Sep “Optical genetic mapping defines regions of chromosomal variation in serovars of S. enterica subsp. enterica of concern for human and animal health.” Epidemiology and Infection.
Giongo, A., et al. 2010 Jun “Two genome sequences of the same bacterial strain, Gluconacetobacter diazotrophicus PAI 5, suggest a new standard in geome sequence submillion.” Standards in Genome Sciences.
Chen, C., et al. 2010 May “Genome Sequence of Naturally Competent Aggregatibacter actinomycetemcomitans Serotype a Strain D7S-1.” Journal of Bacteriology.
Garrigues, C., et al. 2010 May “Complete Genome Sequence of Bifidobacterium animalis subsp. Lactis BB-12, a Widely Consumed Probiotic Strain.” Journal of Bacteriology.
Fujisawa, T., et al. 2010 Apr “Genomic Structure of an Economically Important Cyanobacterium, Arthrospira (Spirulina) platensis NIES-39.” DNA Research.
Nagarajan, N., et al. 2010 Apr “Finishing genomes with limited resources: lessons from an ensemble of microbial genomes.” BMC Genomics.
Chen, P.E., et al. 2010 Jan “Genomic characterization of the Yersinia genus.” Genome Biology.
2008 – 2009
Shukla, S.K., et al. 2009 Sep “Optical Mapping Reveals A Large Genetic Inversion between Two Methicillin-Resistant Staphylococcus aureus Strains.” Journal of Bacteriology.
Barrangou, R. et al. 2009 Jul “Comparison of the complete genome sequences of Bifidobacterium animalis subsp. lactis DSM 10140 and Bl-04.” Journal of Bacteriology.
Nakao, Y., et al. 2009 Apr “Genome Sequence of the Lager Brewing Yeast, an Interspecies Hybrid.” DNA Research.
Baba, T., et al. 2009 Feb “Complete Genome Sequence of Macrococcus caseolyticus Strain JSCS5402, Reflecting the Ancestral Genome of the Human-Pathogenic Staphylococci.” Journal of Bacteriology.
Wu, C.W., et al. 2009 Jan “Optical mapping of the Mycobacterium avium subspecies paratuberculosis genome.” BMC Genomics.
Kotewicz, M.L., et al. 2008 Nov “Optical mapping and 454 sequencing of Escherichia coli O157:H7 isolates linked to the US 2006 spinach-associated outbreak.” Microbiology.
Nagarajan, N., et al. 2008 Jul “Scaffolding and validation of bacterial genome assemblies using optical restriction maps.” Bioinformatics.
Ananiev, G.E., et al. 2008 Jul “Optical mapping discerns genome wide DNA methylation profiles.” BMC Molecular Biology.
2006 – 2007
Latreille, P., et al. 2007 Sep “Optical mapping as a routine tool in bacterial genome sequencing.” BMC Genomics.
Mussmann, M., et al. 2007 Sep “Insights into the Genome of Large Sulfur Bacteria Revealed by Analysis of Single Filaments.” PLoS Biol.
Kotewicz, M.L., et al. 2007 Jun “Optical maps distinguish individual strains of Escherichia coli O157:H7.” Microbiology.
van het Hoog, M., et al. 2007 Jun “Assembly of the Candida albicans genome into sixteen supercontigs aligned on the eight chromosomes.” Genome Biology.
Chen, Q., et al. 2006 Apr “Subtractive hybridization and optical mapping of the enterotoxigenic Escherichia coli H10407 chromosome: isolation of unique sequences and demonstration of significant similarity to the chromosome of E. coli K-12.” Microbiology.
2004 – 2005
Galagan, J.E., et al. 2005 Dec “Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae.” Nature.
Machida, M., et al. 2005 Dec “Genome sequencing and analysis of Aspergillus oryzae.” Nature.
Nierman, W.C., et al. 2005 Dec “Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus.” Nature.