The global meningitis genome partnership

Elizabeth Rodgers; Stephen D. Bentley; Raymond Borrow; Holly B. Bratcher; Sylvain Brisse; Angela B. Brueggemann; Dominique A. Caugant; Jamie Findlow; Le Anne Fox; Linda Glennie; Lee H. Harrison; Odile B. Harrison; Robert S. Heyderman; Melissa Jansen van Rensburg; Keith A. Jolley; Brenda Kwambana-Adams; Shamez Ladhani; Marc LaForce; Michael Levin; Jay Lucidarme; Neil MacAlasdair; Jenny Maclennan; Martin C.J. Maiden; Laura Maynard-Smith; Alessandro Muzzi; Philipp Oster; Charlene M.C. Rodrigues; Olivier Ronveaux; Laura Serino; Vinny Smith; Arie van der Ende; Julio Vázquez; Xin Wang; Saber Yezli; James Stuart

doi:10.1016/j.jinf.2020.06.064

The global meningitis genome partnership

Elizabeth Rodgers^*
, Stephen D. Bentley
, Raymond Borrow
, Holly B. Bratcher
, Sylvain Brisse
, Angela B. Brueggemann
, Dominique A. Caugant
, Jamie Findlow
, Le Anne Fox
, Linda Glennie
, Lee H. Harrison
, Odile B. Harrison
, Robert S. Heyderman
, Melissa Jansen van Rensburg
, Keith A. Jolley
, Brenda Kwambana-Adams
, Shamez Ladhani
, Marc LaForce
, Michael Levin
, Jay Lucidarme

Neil MacAlasdair, Jenny Maclennan, Martin C.J. Maiden, Laura Maynard-Smith, Alessandro Muzzi, Philipp Oster, Charlene M.C. Rodrigues, Olivier Ronveaux, Laura Serino, Vinny Smith, Arie van der Ende, Julio Vázquez, Xin Wang, Saber Yezli, James Stuart

^*Corresponding author for this work

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

18 Citations (Scopus)

Abstract

Genomic surveillance of bacterial meningitis pathogens is essential for effective disease control globally, enabling identification of emerging and expanding strains and consequent public health interventions. While there has been a rise in the use of whole genome sequencing, this has been driven predominately by a subset of countries with adequate capacity and resources. Global capacity to participate in surveillance needs to be expanded, particularly in low and middle-income countries with high disease burdens. In light of this, the WHO-led collaboration, Defeating Meningitis by 2030 Global Roadmap, has called for the establishment of a Global Meningitis Genome Partnership that links resources for: N. meningitidis (Nm), S. pneumoniae (Sp), H. influenzae (Hi) and S. agalactiae (Sa) to improve worldwide co-ordination of strain identification and tracking. Existing platforms containing relevant genomes include: PubMLST: Nm (31,622), Sp (15,132), Hi (1935), Sa (9026); The Wellcome Sanger Institute: Nm (13,711), Sp (> 24,000), Sa (6200), Hi (1738); and BMGAP: Nm (8785), Hi (2030). A steering group is being established to coordinate the initiative and encourage high-quality data curation. Next steps include: developing guidelines on open-access sharing of genomic data; defining a core set of metadata; and facilitating development of user-friendly interfaces that represent publicly available data.

Original language	English
Pages (from-to)	510-520
Number of pages	11
Journal	Journal of Infection
Volume	81
Issue number	4
DOIs	https://doi.org/10.1016/j.jinf.2020.06.064
Publication status	Published - Oct 2020

Bibliographical note

Funding Information:
The findings and conclusions in this report are those of the author(s) and do not necessarily represent the official position of the Centers for Disease Control and Prevention. This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors.

Funding Information:
ER, LG & VS represent Meningitis Research Foundation, which receives grants from Sanofi Pasteur, GSK and Pfizer.

Funding Information:
Molecular Epidemiology for Vaccination Policy (MEVacP) is another example of a project-based approach that aims to improve global public health by enhancing the diagnosis and surveillance of bacterial meningitis caused by meningococcus, pneumococcus, H. influenzae and GBS, through building networks in low-income countries, with an initial emphasis on Africa. The aim of this project, funded by National Institute for Health Research (NIHR) and led by the University of Oxford, is to improve the characterisation and visualisation of outbreaks across the meningitis belt and inform public health vaccination policies, through development and implementation of a PubMLST-associated web-based platform ‘African Meningitis Epidemiology in Real Time’ (AMERT). AMERT will operate a peer-to-peer private website similar to the European counterpart, EMERT 72 , whereby data in the system are only available to submitters. With restricted access, reference laboratories are reassured that data will remain private, which encourages submissions to be made. Once published in journals, the data can be made publicly available.

Funding Information:
AvdE has received grants from Pfizer, consultancy fees paid directly to the institution from GSK and participated in Science Advisory Boards for Pfizer, GSK and Sanofi Pasteur.

Publisher Copyright:
© 2020 The Authors

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Keywords

Bacterial meningitis
Epidemiology
Genome partnership
Haemophilus influenzae
Neisseria meningitidis
Streptococcus agalactiae
Streptococcus pneumoniae
Whole genome sequencing

Access to Document

10.1016/j.jinf.2020.06.064

Cite this

Rodgers, E., Bentley, S. D., Borrow, R., Bratcher, H. B., Brisse, S., Brueggemann, A. B., Caugant, D. A., Findlow, J., Fox, L. A., Glennie, L., Harrison, L. H., Harrison, O. B., Heyderman, R. S., van Rensburg, M. J., Jolley, K. A., Kwambana-Adams, B., Ladhani, S., LaForce, M., Levin, M., ... Stuart, J. (2020). The global meningitis genome partnership. Journal of Infection, 81(4), 510-520. https://doi.org/10.1016/j.jinf.2020.06.064

@article{34ab272e28ec4ff49c29b498973ab67d,

title = "The global meningitis genome partnership",

abstract = "Genomic surveillance of bacterial meningitis pathogens is essential for effective disease control globally, enabling identification of emerging and expanding strains and consequent public health interventions. While there has been a rise in the use of whole genome sequencing, this has been driven predominately by a subset of countries with adequate capacity and resources. Global capacity to participate in surveillance needs to be expanded, particularly in low and middle-income countries with high disease burdens. In light of this, the WHO-led collaboration, Defeating Meningitis by 2030 Global Roadmap, has called for the establishment of a Global Meningitis Genome Partnership that links resources for: N. meningitidis (Nm), S. pneumoniae (Sp), H. influenzae (Hi) and S. agalactiae (Sa) to improve worldwide co-ordination of strain identification and tracking. Existing platforms containing relevant genomes include: PubMLST: Nm (31,622), Sp (15,132), Hi (1935), Sa (9026); The Wellcome Sanger Institute: Nm (13,711), Sp (> 24,000), Sa (6200), Hi (1738); and BMGAP: Nm (8785), Hi (2030). A steering group is being established to coordinate the initiative and encourage high-quality data curation. Next steps include: developing guidelines on open-access sharing of genomic data; defining a core set of metadata; and facilitating development of user-friendly interfaces that represent publicly available data.",

keywords = "Bacterial meningitis, Epidemiology, Genome partnership, Haemophilus influenzae, Neisseria meningitidis, Streptococcus agalactiae, Streptococcus pneumoniae, Whole genome sequencing",

author = "Elizabeth Rodgers and Bentley, \{Stephen D.\} and Raymond Borrow and Bratcher, \{Holly B.\} and Sylvain Brisse and Brueggemann, \{Angela B.\} and Caugant, \{Dominique A.\} and Jamie Findlow and Fox, \{Le Anne\} and Linda Glennie and Harrison, \{Lee H.\} and Harrison, \{Odile B.\} and Heyderman, \{Robert S.\} and \{van Rensburg\}, \{Melissa Jansen\} and Jolley, \{Keith A.\} and Brenda Kwambana-Adams and Shamez Ladhani and Marc LaForce and Michael Levin and Jay Lucidarme and Neil MacAlasdair and Jenny Maclennan and Maiden, \{Martin C.J.\} and Laura Maynard-Smith and Alessandro Muzzi and Philipp Oster and Rodrigues, \{Charlene M.C.\} and Olivier Ronveaux and Laura Serino and Vinny Smith and \{van der Ende\}, Arie and Julio V{\'a}zquez and Xin Wang and Saber Yezli and James Stuart",

note = "Funding Information: The findings and conclusions in this report are those of the author(s) and do not necessarily represent the official position of the Centers for Disease Control and Prevention. This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors. Funding Information: ER, LG \& VS represent Meningitis Research Foundation, which receives grants from Sanofi Pasteur, GSK and Pfizer. Funding Information: Molecular Epidemiology for Vaccination Policy (MEVacP) is another example of a project-based approach that aims to improve global public health by enhancing the diagnosis and surveillance of bacterial meningitis caused by meningococcus, pneumococcus, H. influenzae and GBS, through building networks in low-income countries, with an initial emphasis on Africa. The aim of this project, funded by National Institute for Health Research (NIHR) and led by the University of Oxford, is to improve the characterisation and visualisation of outbreaks across the meningitis belt and inform public health vaccination policies, through development and implementation of a PubMLST-associated web-based platform {\textquoteleft}African Meningitis Epidemiology in Real Time{\textquoteright} (AMERT). AMERT will operate a peer-to-peer private website similar to the European counterpart, EMERT 72 , whereby data in the system are only available to submitters. With restricted access, reference laboratories are reassured that data will remain private, which encourages submissions to be made. Once published in journals, the data can be made publicly available. Funding Information: AvdE has received grants from Pfizer, consultancy fees paid directly to the institution from GSK and participated in Science Advisory Boards for Pfizer, GSK and Sanofi Pasteur. Publisher Copyright: {\textcopyright} 2020 The Authors",

year = "2020",

month = oct,

doi = "10.1016/j.jinf.2020.06.064",

language = "English",

volume = "81",

pages = "510--520",

journal = "Journal of Infection",

issn = "0163-4453",

publisher = "W.B. Saunders Ltd",

number = "4",

}

Rodgers, E, Bentley, SD, Borrow, R, Bratcher, HB, Brisse, S, Brueggemann, AB, Caugant, DA, Findlow, J, Fox, LA, Glennie, L, Harrison, LH, Harrison, OB, Heyderman, RS, van Rensburg, MJ, Jolley, KA, Kwambana-Adams, B, Ladhani, S, LaForce, M, Levin, M, Lucidarme, J, MacAlasdair, N, Maclennan, J, Maiden, MCJ, Maynard-Smith, L, Muzzi, A, Oster, P, Rodrigues, CMC, Ronveaux, O, Serino, L, Smith, V, van der Ende, A, Vázquez, J, Wang, X, Yezli, S & Stuart, J 2020, 'The global meningitis genome partnership', Journal of Infection, vol. 81, no. 4, pp. 510-520. https://doi.org/10.1016/j.jinf.2020.06.064

TY - JOUR

T1 - The global meningitis genome partnership

AU - Rodgers, Elizabeth

AU - Bentley, Stephen D.

AU - Borrow, Raymond

AU - Bratcher, Holly B.

AU - Brisse, Sylvain

AU - Brueggemann, Angela B.

AU - Caugant, Dominique A.

AU - Findlow, Jamie

AU - Fox, Le Anne

AU - Glennie, Linda

AU - Harrison, Lee H.

AU - Harrison, Odile B.

AU - Heyderman, Robert S.

AU - van Rensburg, Melissa Jansen

AU - Jolley, Keith A.

AU - Kwambana-Adams, Brenda

AU - Ladhani, Shamez

AU - LaForce, Marc

AU - Levin, Michael

AU - Lucidarme, Jay

AU - MacAlasdair, Neil

AU - Maclennan, Jenny

AU - Maiden, Martin C.J.

AU - Maynard-Smith, Laura

AU - Muzzi, Alessandro

AU - Oster, Philipp

AU - Rodrigues, Charlene M.C.

AU - Ronveaux, Olivier

AU - Serino, Laura

AU - Smith, Vinny

AU - van der Ende, Arie

AU - Vázquez, Julio

AU - Wang, Xin

AU - Yezli, Saber

AU - Stuart, James

N1 - Funding Information: The findings and conclusions in this report are those of the author(s) and do not necessarily represent the official position of the Centers for Disease Control and Prevention. This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors. Funding Information: ER, LG & VS represent Meningitis Research Foundation, which receives grants from Sanofi Pasteur, GSK and Pfizer. Funding Information: Molecular Epidemiology for Vaccination Policy (MEVacP) is another example of a project-based approach that aims to improve global public health by enhancing the diagnosis and surveillance of bacterial meningitis caused by meningococcus, pneumococcus, H. influenzae and GBS, through building networks in low-income countries, with an initial emphasis on Africa. The aim of this project, funded by National Institute for Health Research (NIHR) and led by the University of Oxford, is to improve the characterisation and visualisation of outbreaks across the meningitis belt and inform public health vaccination policies, through development and implementation of a PubMLST-associated web-based platform ‘African Meningitis Epidemiology in Real Time’ (AMERT). AMERT will operate a peer-to-peer private website similar to the European counterpart, EMERT 72 , whereby data in the system are only available to submitters. With restricted access, reference laboratories are reassured that data will remain private, which encourages submissions to be made. Once published in journals, the data can be made publicly available. Funding Information: AvdE has received grants from Pfizer, consultancy fees paid directly to the institution from GSK and participated in Science Advisory Boards for Pfizer, GSK and Sanofi Pasteur. Publisher Copyright: © 2020 The Authors

PY - 2020/10

Y1 - 2020/10

N2 - Genomic surveillance of bacterial meningitis pathogens is essential for effective disease control globally, enabling identification of emerging and expanding strains and consequent public health interventions. While there has been a rise in the use of whole genome sequencing, this has been driven predominately by a subset of countries with adequate capacity and resources. Global capacity to participate in surveillance needs to be expanded, particularly in low and middle-income countries with high disease burdens. In light of this, the WHO-led collaboration, Defeating Meningitis by 2030 Global Roadmap, has called for the establishment of a Global Meningitis Genome Partnership that links resources for: N. meningitidis (Nm), S. pneumoniae (Sp), H. influenzae (Hi) and S. agalactiae (Sa) to improve worldwide co-ordination of strain identification and tracking. Existing platforms containing relevant genomes include: PubMLST: Nm (31,622), Sp (15,132), Hi (1935), Sa (9026); The Wellcome Sanger Institute: Nm (13,711), Sp (> 24,000), Sa (6200), Hi (1738); and BMGAP: Nm (8785), Hi (2030). A steering group is being established to coordinate the initiative and encourage high-quality data curation. Next steps include: developing guidelines on open-access sharing of genomic data; defining a core set of metadata; and facilitating development of user-friendly interfaces that represent publicly available data.

AB - Genomic surveillance of bacterial meningitis pathogens is essential for effective disease control globally, enabling identification of emerging and expanding strains and consequent public health interventions. While there has been a rise in the use of whole genome sequencing, this has been driven predominately by a subset of countries with adequate capacity and resources. Global capacity to participate in surveillance needs to be expanded, particularly in low and middle-income countries with high disease burdens. In light of this, the WHO-led collaboration, Defeating Meningitis by 2030 Global Roadmap, has called for the establishment of a Global Meningitis Genome Partnership that links resources for: N. meningitidis (Nm), S. pneumoniae (Sp), H. influenzae (Hi) and S. agalactiae (Sa) to improve worldwide co-ordination of strain identification and tracking. Existing platforms containing relevant genomes include: PubMLST: Nm (31,622), Sp (15,132), Hi (1935), Sa (9026); The Wellcome Sanger Institute: Nm (13,711), Sp (> 24,000), Sa (6200), Hi (1738); and BMGAP: Nm (8785), Hi (2030). A steering group is being established to coordinate the initiative and encourage high-quality data curation. Next steps include: developing guidelines on open-access sharing of genomic data; defining a core set of metadata; and facilitating development of user-friendly interfaces that represent publicly available data.

KW - Bacterial meningitis

KW - Epidemiology

KW - Genome partnership

KW - Haemophilus influenzae

KW - Neisseria meningitidis

KW - Streptococcus agalactiae

KW - Streptococcus pneumoniae

KW - Whole genome sequencing

UR - https://www.scopus.com/pages/publications/85087667266

U2 - 10.1016/j.jinf.2020.06.064

DO - 10.1016/j.jinf.2020.06.064

M3 - Article

C2 - 32615197

AN - SCOPUS:85087667266

SN - 0163-4453

VL - 81

SP - 510

EP - 520

JO - Journal of Infection

JF - Journal of Infection

IS - 4

ER -

The global meningitis genome partnership

Abstract

Bibliographical note

UN SDGs

Keywords

Access to Document

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