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Items: 8

1.

PIRATE: A fast and scalable pangenomics toolbox for clustering diverged orthologues in bacteria.

Bayliss SC, Thorpe HA, Coyle NM, Sheppard SK, Feil EJ.

Gigascience. 2019 Oct 1;8(10). pii: giz119. doi: 10.1093/gigascience/giz119.

2.

Whole genome sequencing and phylogenetic analysis of strains of the agent of Lyme disease Borrelia burgdorferi from Canadian emergence zones.

Tyler S, Tyson S, Dibernardo A, Drebot M, Feil EJ, Graham M, Knox NC, Lindsay LR, Margos G, Mechai S, Van Domselaar G, Thorpe HA, Ogden NH.

Sci Rep. 2018 Jul 12;8(1):10552. doi: 10.1038/s41598-018-28908-7.

3.

Piggy: a rapid, large-scale pan-genome analysis tool for intergenic regions in bacteria.

Thorpe HA, Bayliss SC, Sheppard SK, Feil EJ.

Gigascience. 2018 Apr 1;7(4):1-11. doi: 10.1093/gigascience/giy015.

4.

The use of Oxford Nanopore native barcoding for complete genome assembly.

Bayliss SC, Hunt VL, Yokoyama M, Thorpe HA, Feil EJ.

Gigascience. 2017 Mar 1;6(3):1-6. doi: 10.1093/gigascience/gix001.

5.

Comparative Analyses of Selection Operating on Nontranslated Intergenic Regions of Diverse Bacterial Species.

Thorpe HA, Bayliss SC, Hurst LD, Feil EJ.

Genetics. 2017 May;206(1):363-376. doi: 10.1534/genetics.116.195784. Epub 2017 Mar 9.

6.

Transmission of Staphylococcus aureus from Humans to Green Monkeys in The Gambia as Revealed by Whole-Genome Sequencing.

Senghore M, Bayliss SC, Kwambana-Adams BA, Foster-Nyarko E, Manneh J, Dione M, Badji H, Ebruke C, Doughty EL, Thorpe HA, Jasinska AJ, Schmitt CA, Cramer JD, Turner TR, Weinstock G, Freimer NB, Pallen MJ, Feil EJ, Antonio M.

Appl Environ Microbiol. 2016 Sep 16;82(19):5910-7. doi: 10.1128/AEM.01496-16. Print 2016 Oct 1.

7.

The Stealthy Superbug: the Role of Asymptomatic Enteric Carriage in Maintaining a Long-Term Hospital Outbreak of ST228 Methicillin-Resistant Staphylococcus aureus.

Senn L, Clerc O, Zanetti G, Basset P, Prod'hom G, Gordon NC, Sheppard AE, Crook DW, James R, Thorpe HA, Feil EJ, Blanc DS.

MBio. 2016 Jan 19;7(1):e02039-15. doi: 10.1128/mBio.02039-15.

8.

Evolutionary Trade-Offs Underlie the Multi-faceted Virulence of Staphylococcus aureus.

Laabei M, Uhlemann AC, Lowy FD, Austin ED, Yokoyama M, Ouadi K, Feil E, Thorpe HA, Williams B, Perkins M, Peacock SJ, Clarke SR, Dordel J, Holden M, Votintseva AA, Bowden R, Crook DW, Young BC, Wilson DJ, Recker M, Massey RC.

PLoS Biol. 2015 Sep 2;13(9):e1002229. doi: 10.1371/journal.pbio.1002229. eCollection 2015.

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