Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission

Gavin K Paterson; Ewan M Harrison; Gemma G R Murray; John J Welch; James H Warland; Matthew T G Holden; Fiona J E Morgan; Xiaoliang Ba; Gerrit Koop; Simon R Harris; Duncan J Maskell; Sharon J Peacock; Michael E Herrtage; Julian Parkhill; Mark A Holmes

doi:10.1038/ncomms7560

Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission

Gavin K Paterson
, Ewan M Harrison
, Gemma G R Murray
, John J Welch
, James H Warland
, Matthew T G Holden
, Fiona J E Morgan
, Xiaoliang Ba
, Gerrit Koop
, Simon R Harris
, Duncan J Maskell
, Sharon J Peacock
, Michael E Herrtage
, Julian Parkhill
, Mark A Holmes

Research output: Contribution to journal › Article › peer-review

Abstract

Genome sequencing is revolutionizing clinical microbiology and our understanding of infectious diseases. Previous studies have largely relied on the sequencing of a single isolate from each individual. However, it is not clear what degree of bacterial diversity exists within, and is transmitted between individuals. Understanding this 'cloud of diversity' is key to accurate identification of transmission pathways. Here, we report the deep sequencing of methicillin-resistant Staphylococcus aureus among staff and animal patients involved in a transmission network at a veterinary hospital. We demonstrate considerable within-host diversity and that within-host diversity may rise and fall over time. Isolates from invasive disease contained multiple mutations in the same genes, including inactivation of a global regulator of virulence and changes in phage copy number. This study highlights the need for sequencing of multiple isolates from individuals to gain an accurate picture of transmission networks and to further understand the basis of pathogenesis.

Original language	English
Article number	6560
Number of pages	10
Journal	Nature Communications
Volume	6
DOIs	https://doi.org/10.1038/ncomms7560
Publication status	Published - 27 Mar 2015

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SDG 3 Good Health and Well-being

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Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission (dataset)
Paterson, G. K. (Creator), Harrison, E. M. (Creator), Murray, G. G. R. (Creator), Welch, J. J. (Creator), Holden, M. T. G. (Creator), Morgan, F. J. E. (Creator), Ba, X. (Creator), Koop, G. (Creator), Harris, S. R. (Creator), Maskell, D. J. (Creator), Peacock, S. J. (Creator), Herrtage, M. E. (Creator), Parkhill, J. (Creator) & Holmes, M. A. (Creator), European Nucleotide Archive (ENA), 23 Sept 2013
https://www.ebi.ac.uk/ena/data/view/PRJEB4141
Dataset

Cite this

Paterson, G. K., Harrison, E. M., Murray, G. G. R., Welch, J. J., Warland, J. H., Holden, M. T. G., Morgan, F. J. E., Ba, X., Koop, G., Harris, S. R., Maskell, D. J., Peacock, S. J., Herrtage, M. E., Parkhill, J., & Holmes, M. A. (2015). Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission. Nature Communications, 6, Article 6560. https://doi.org/10.1038/ncomms7560

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title = "Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission",

abstract = "Genome sequencing is revolutionizing clinical microbiology and our understanding of infectious diseases. Previous studies have largely relied on the sequencing of a single isolate from each individual. However, it is not clear what degree of bacterial diversity exists within, and is transmitted between individuals. Understanding this 'cloud of diversity' is key to accurate identification of transmission pathways. Here, we report the deep sequencing of methicillin-resistant Staphylococcus aureus among staff and animal patients involved in a transmission network at a veterinary hospital. We demonstrate considerable within-host diversity and that within-host diversity may rise and fall over time. Isolates from invasive disease contained multiple mutations in the same genes, including inactivation of a global regulator of virulence and changes in phage copy number. This study highlights the need for sequencing of multiple isolates from individuals to gain an accurate picture of transmission networks and to further understand the basis of pathogenesis.",

author = "Paterson, \{Gavin K\} and Harrison, \{Ewan M\} and Murray, \{Gemma G R\} and Welch, \{John J\} and Warland, \{James H\} and Holden, \{Matthew T G\} and Morgan, \{Fiona J E\} and Xiaoliang Ba and Gerrit Koop and Harris, \{Simon R\} and Maskell, \{Duncan J\} and Peacock, \{Sharon J\} and Herrtage, \{Michael E\} and Julian Parkhill and Holmes, \{Mark A\}",

note = "Funding: M.T.G.H., S.R.H. and J.P. were funded by Wellcome Trust grant no. 098051. ",

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Paterson, GK, Harrison, EM, Murray, GGR, Welch, JJ, Warland, JH, Holden, MTG, Morgan, FJE, Ba, X, Koop, G, Harris, SR, Maskell, DJ, Peacock, SJ, Herrtage, ME, Parkhill, J & Holmes, MA 2015, 'Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission', Nature Communications, vol. 6, 6560. https://doi.org/10.1038/ncomms7560

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T1 - Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission

AU - Paterson, Gavin K

AU - Harrison, Ewan M

AU - Murray, Gemma G R

AU - Welch, John J

AU - Warland, James H

AU - Holden, Matthew T G

AU - Morgan, Fiona J E

AU - Ba, Xiaoliang

AU - Koop, Gerrit

AU - Harris, Simon R

AU - Maskell, Duncan J

AU - Peacock, Sharon J

AU - Herrtage, Michael E

AU - Parkhill, Julian

AU - Holmes, Mark A

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PY - 2015/3/27

Y1 - 2015/3/27

N2 - Genome sequencing is revolutionizing clinical microbiology and our understanding of infectious diseases. Previous studies have largely relied on the sequencing of a single isolate from each individual. However, it is not clear what degree of bacterial diversity exists within, and is transmitted between individuals. Understanding this 'cloud of diversity' is key to accurate identification of transmission pathways. Here, we report the deep sequencing of methicillin-resistant Staphylococcus aureus among staff and animal patients involved in a transmission network at a veterinary hospital. We demonstrate considerable within-host diversity and that within-host diversity may rise and fall over time. Isolates from invasive disease contained multiple mutations in the same genes, including inactivation of a global regulator of virulence and changes in phage copy number. This study highlights the need for sequencing of multiple isolates from individuals to gain an accurate picture of transmission networks and to further understand the basis of pathogenesis.

AB - Genome sequencing is revolutionizing clinical microbiology and our understanding of infectious diseases. Previous studies have largely relied on the sequencing of a single isolate from each individual. However, it is not clear what degree of bacterial diversity exists within, and is transmitted between individuals. Understanding this 'cloud of diversity' is key to accurate identification of transmission pathways. Here, we report the deep sequencing of methicillin-resistant Staphylococcus aureus among staff and animal patients involved in a transmission network at a veterinary hospital. We demonstrate considerable within-host diversity and that within-host diversity may rise and fall over time. Isolates from invasive disease contained multiple mutations in the same genes, including inactivation of a global regulator of virulence and changes in phage copy number. This study highlights the need for sequencing of multiple isolates from individuals to gain an accurate picture of transmission networks and to further understand the basis of pathogenesis.

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DO - 10.1038/ncomms7560

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SN - 2041-1723

VL - 6

JO - Nature Communications

JF - Nature Communications

M1 - 6560

ER -

Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission

Abstract

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Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission (dataset)

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