Open Access Highly Accessed Research article

Genome sequence of adherent-invasive Escherichia coli and comparative genomic analysis with other E. coli pathotypes

John HE Nash1, Andre Villegas1, Andrew M Kropinski2, Renan Aguilar-Valenzuela3, Paulina Konczy2, Mariola Mascarenhas2, Kim Ziebell2, Alfredo G Torres3, Mohamed A Karmali12 and Brian K Coombes4*

Author Affiliations

1 Office of Biotechnology, Genomics and Population Health, Public Health Agency of Canada, 180 Queen Street West, Toronto, Ontario M5V 3L7, Canada

2 Laboratory for Foodborne Zoonoses, Public Health Agency of Canada, 110 Stone Road West, Guelph, Ontario N1G 3W4, Canada

3 Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston, Texas, 77555-1070, USA

4 Michael G. DeGroote Institute for Infectious Disease Research and the Department of Biochemistry and Biomedical Sciences, McMaster University, 1200 Main Street West, Hamilton, Ontario L8N 3Z5, Canada

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BMC Genomics 2010, 11:667  doi:10.1186/1471-2164-11-667

Published: 25 November 2010

Additional files

Additional File 1:

Alignment of NcoI optical map of NRC857c with nine super-contigs generated from shotgun sequencing. The NcoI optical restriction map of NRG857c was aligned with the in silico-generated NcoI restriction maps of nine super-contigs arising from the shotgun sequencing and assembly of the genome. The vertical lines are alignment marks identifying similar restriction fragments between two aligned contigs.

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Additional File 2:

Accession numbers and gene coordinates used for in silico MLST analysis.

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Additional File 3:

Alignment of NcoI optical map of NRC857c with the in silico-generated map of LF82. The vertical lines are alignment marks identifying similar restriction fragments between two aligned contigs. The region highlighted in red is a region of DNA that is translocated in LF82.

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Additional File 4:

Table S2: Predicted Genomic Islands in NRG857c.

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Additional File 5:

Genes unique to NRG857c and/or LF82.

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Additional File 6:

Iron transport in AIEC NRG857c and aerobactin uptake mutant.

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Additional File 7:

List of E. coli genomes used for comparative genomics analyses.

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