The applied development of a tiered multilocus sequence typing (MLST) scheme for Dichelobacter nodosus

Blanchard, Adam M.; Jolley, Keith A.; Maiden, Martin C.J.; Coffey, Tracey J.; Maboni, Grazieli; Staley, Ceri E.; Bollard, N.J.; Warry, Andrew; Emes, Richard D.; Davies, Peers; T�temeyer, Sabine

doi:10.3389/fmicb.2018.00551

The applied development of a tiered multilocus sequence typing (MLST) scheme for Dichelobacter nodosus

Blanchard, Adam M.; Jolley, Keith A.; Maiden, Martin C.J.; Coffey, Tracey J.; Maboni, Grazieli; Staley, Ceri E.; Bollard, N.J.; Warry, Andrew; Emes, Richard D.; Davies, Peers; T�temeyer, Sabine

Authors

ADAM BLANCHARD ADAM.BLANCHARD@NOTTINGHAM.AC.UK
Associate Professor

Keith A. Jolley

Martin C.J. Maiden

TRACEY COFFEY TRACEY.COFFEY@NOTTINGHAM.AC.UK
Professor of Sustainable Livestock Production

Grazieli Maboni

Ceri E. Staley

N.J. Bollard

Andrew Warry

Richard D. Emes

Peers Davies

SABINE TOTEMEYER SABINE.TOTEMEYER@NOTTINGHAM.AC.UK
Associate Professor

Abstract

Dichelobacter nodosus (D. nodosus) is the causative pathogen of ovine footrot, a disease that has a significant welfare and financial impact on the global sheep industry. Previous studies into the phylogenetics of D. nodosus have focused on Australia and Scandinavia, meaning the current diversity in the United Kingdom (U.K.) population and its relationship globally, is poorly understood. Numerous epidemiological methods are available for bacterial typing; however, few account for whole genome diversity or provide the opportunity for future application of new computational techniques. Multilocus sequence typing (MLST) measures nucleotide variations within several loci with slow accumulation of variation to enable the designation of allele numbers to determine a sequence type. The usage of whole genome sequence data enables the application of MLST, but also core and whole genome MLST for higher levels of strain discrimination with a negligible increase in experimental cost. An MLST database was developed alongside a seven loci scheme using publically available whole genome data from the sequence read archive. Sequence type designation and strain discrimination was compared to previously published data to ensure reproducibility. Multiple D. nodosus isolates from U.K. farms were directly compared to populations from other countries. The U.K. isolates define new clades within the global population of D. nodosus and predominantly consist of serogroups A, B and H, however serogroups C, D, E, and I were also found. The
scheme is publically available at https://pubmlst.org/dnodosus/.

Citation

Blanchard, A. M., Jolley, K. A., Maiden, M. C., Coffey, T. J., Maboni, G., Staley, C. E., …Tötemeyer, S. (in press). The applied development of a tiered multilocus sequence typing (MLST) scheme for Dichelobacter nodosus. Frontiers in Microbiology, 9, Article 551. https://doi.org/10.3389/fmicb.2018.00551

Journal Article Type	Article
Acceptance Date	Mar 12, 2018
Online Publication Date	Mar 23, 2018
Deposit Date	Mar 19, 2018
Publicly Available Date	Mar 23, 2018
Journal	Frontiers in Microbiology
Electronic ISSN	1664-302X
Publisher	Frontiers Media
Peer Reviewed	Peer Reviewed
Volume	9
Article Number	551
DOI	https://doi.org/10.3389/fmicb.2018.00551
Keywords	footrot, Dichelobacter nodosus, MLST genotyping, core genome multilocus sequence typing, whole genome multilocus sequence typing (wgMLST), cgMLST
Public URL	https://nottingham-repository.worktribe.com/output/921388
Publisher URL	https://www.frontiersin.org/articles/10.3389/fmicb.2018.00551/full