Open Access Research article

Independent evolution of the core and accessory gene sets in the genus Neisseria: insights gained from the genome of Neisseria lactamica isolate 020-06

Julia S Bennett1*, Stephen D Bentley2, Georgios S Vernikos2, Michael A Quail2, Inna Cherevach2, Brian White2, Julian Parkhill2 and Martin CJ Maiden1

Author Affiliations

1 Department of Zoology, University of Oxford, South Parks Road, Oxford, OX1 3PS, UK

2 The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK

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BMC Genomics 2010, 11:652  doi:10.1186/1471-2164-11-652

Published: 23 November 2010

Additional files

Additional file 1:

Isolates.

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Additional file 2:

Genealogical relationships of Neisseria isolates inferred from 19 loci using split decomposition and neighbour joining. A: Neighbour joining. B: Split decomposition. Phylogenies were drawn from concatenated sequences from the 19 housekeeping gene fragments used for the CLONALFRAME tree.

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Additional file 3:

Neighbour joining trees of the nucleotide sequences from the individual loci: abcZ, adk, aroE, aspA, carB, dhps. Nla = red, Nme = blue, Ngo = green.

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Additional files 4:

Neighbour joining trees of the nucleotide sequences from the individual loci: fumC, gdh, glnA, gpm, pdhC, pgm. Nla = red, Nme = blue, Ngo = green

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Additional files 5:

Neighbour joining trees of the nucleotide sequences from the individual loci: pilA, pip, ppk, pykA, rpiA, serC, talA. Nla = red, Nme = blue, Ngo = green. Alleles shared between Nme and Nla = yellow.

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Additional file 6:

GC deviation in Neisseria.

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Additional file 7:

The 1190 genes common to N. meningitidis, N. gonorrhoeae and N. lactamica.

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Additional file 8:

CDSs absent from N. lactamica 020-06.

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Additional file 9:

Candidate virulence genes in N. lactamica.

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