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Characterization and modeling of the Haemophilus influenzae core and supragenomes based on the complete genomic sequences of Rd and 12 clinical nontypeable strains

Justin S Hogg, Fen Z Hu*, Benjamin Janto, Robert Boissy, Jay Hayes, Randy Keefe, J Christopher Post and Garth D Ehrlich*

Genome Biology 2007, 8:R103  doi:10.1186/gb-2007-8-6-r103

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Supra-genome vs. pangenome

David Ussery   (2007-06-13 15:55)  Center for Biological Sequence analysis, Technical Uni. Denmark email

What is the difference between the "Supra-genome" mentioned in this article, and the "pangenome" first used to describe several sequenced Streptococcus agalactiae genomes, back in 2005? I can find the phrase "pan-genome" 16 times in PubMed, but "Supra-genome" is found only 3 times - once in this paper, and twice other by papers from the same group. Can't we reach an agreement on what to call all the combined genes in a set of sequenced genomes from the same species?

Why should it be called "pan-genome" for Burkholderia, Campylobacter, E. coli, Streptococcus, and Vibrio, but for Haemophilus it is the "supra-genome"?

Competing interests

Along with Tim Read, I wrote an editorial overview with the title "Opening the PanGenomics Box" in 2006 for Current Opinion in Microbiology.


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