Emergence of a multidrug-resistant and virulent Streptococcus pneumoniae lineage mediates serotype replacement after PCV13: an international whole-genome sequencing study

被引：40

作者：

Lo, Stephanie W. ^{[1
]}

Mellor, Kate ^{[1
]}

Cohen, Robert ^{[2
,3
,4
,5
,6
,7
]}

Alonso, Alba Redin ^{[9
,10
,11
]}

Belman, Sophie ^{[1
]}

Kumar, Narender ^{[1
]}

Hawkins, Paulina A. ^{[12
]}

Gladstone, Rebecca A. ^{[14
]}

von Gottberg, Anne ^{[15
]}

Veeraraghavan, Balaji ^{[16
]}

Ravikumar, K. L. ^{[17
]}

Kandasamy, Rama ^{[18
,19
,20
,21
]}

Pollard, Sir Andrew J. ^{[18
,19
]}

Saha, Samir K. ^{[22
]}

Bigogo, Godfrey ^{[23
]}

Antonio, Martin ^{[24
]}

Kwambana-Adams, Brenda ^{[24
,25
]}

Mirza, Shaper ^{[26
]}

Shakoor, Sadia ^{[27
]}

Nisar, Imran ^{[27
]}

Cornick, Jennifer E. ^{[28
,29
]}

Lehmann, Deborah ^{[30
]}

Ford, Rebecca L. ^{[31
]}

Sigauque, Betuel ^{[32
]}

Turner, Paul ^{[33
,34
]}

Moisi, Jennifer ^{[35
]}

Obaro, Stephen K. ^{[36
,37
]}

Dagan, Ron ^{[38
]}

Diawara, Idrissa ^{[39
,40
]}

Skoczynska, Anna ^{[41
]}

Wang, Hui ^{[42
]}

Carter, Philip E. ^{[43
]}

Klugman, Keith P. ^{[12
]}

Rodgers, Gail ^{[44
]}

Breiman, Robert F. ^{[12
,13
]}

McGee, Lesley ^{[45
]}

Bentley, Stephen D. ^{[1
]}

Munoz-Almagro, Carmen ^{[9
,10
,11
]}

Varon, Emmanuelle ^{[8
]}

机构：

[1] Wellcome Sanger Inst, Parasites & Microbes Programme, Hinxton CB10 1SA, England

[2] Assoc Clin & Therapeut Infantile Val de Marne, ACTIV, St Maur Des Fosses, France

[3] Grp Pathol Infect Pediat, GPIP, Paris, France

[4] Assoc Francaise Pediat Ambulatoire, AFPA, St Germain En Laye, France

[5] Univ Paris Est, IMRB GRC GEMINI, Creteil, France

[6] Ctr Hosp Intercommunal Creteil, Clin Res Ctr, Creteil, France

[7] Ctr Hosp Intercommunal Creteil, Unite Court Sejour, Petits Nourrissons, Serv Neonatal, Creteil, France

[8] Ctr Hosp Intercommunal Creteil, Natl Reference Ctr Pneumococci, Creteil, France

[9] Hosp St Joan de Deu, Dept RDI Microbiol, Inst Recerca St Joan de Deu, Barcelona, Spain

[10] Univ Int Catalunya, Sch Med, Barcelona, Spain

[11] Inst Salud Carlos III, CIBERESP, Spanish Network Epidemiol & Publ Hlth, Madrid, Spain

[12] Emory Univ, Rollins Sch Publ Hlth, Atlanta, GA 30322 USA

[13] Emory Univ, Emory Global Hlth Inst, Atlanta, GA USA

[14] Univ Oslo, Fac Med, Inst Basic Med Sci, Dept Biostat, Oslo, Norway

[15] Natl Inst Communicable Dis, Ctr Resp Dis & Meningitis, Johannesburg, South Africa

[16] Christian Med Coll & Hosp, Dept Clin Microbiol, Vellore, Tamil Nadu, India

[17] Kempegowda Inst Med Sci, Cent Res Lab, Bangalore, Karnataka, India

[18] Univ Oxford, Dept Paediat, Oxford Vaccine Grp, Churchill Hosp, Oxford, England

[19] NIHR Oxford Biomed Res Ctr, Oxford, England

[20] Univ New South Wales, Sch Women & Childrens Hlth, Sydney, NSW, Australia

[21] Univ New South Wales, Sch Clin Med, Discipline Paediat & Child Hlth, Sydney, NSW, Australia

[22] Child Hlth Res Fdn, Dhaka, Bangladesh

[23] Kenya Govt Med Res Ctr, Kisumu, Kenya

[24] Gambia London Sch Hyg & Trop Med, Med Res Council Unit, WHO Collaborating Ctr New Vaccines Surveillance, Fajara, Gambia

[25] UCL, NIHR Global Hlth Res Unit Mucosal Pathogens, Div Infect & Immun, London, England

[26] Lahore Univ Management Sci, Dept Biol, Microbiol & Immunol Lab, Lahore, Pakistan

[27] Aga Khan Univ, Dept Pediat & Child Hlth, Karachi, Pakistan

[28] Malawi Liverpool Wellcome Trust, Blantyre, Malawi

[29] Univ Liverpool, Inst Infect Vet & Ecol Sci, Liverpool, Merseyside, England

[30] Univ Western Australia, Wesfarmers Ctr Vaccines & Infect Dis, Telethon Kids Inst, Perth, WA, Australia

[31] Papua New Guinea Inst Med Res, Goroka, Papua N Guinea

[32] Ctr Invest Saude Manhica, Maputo, Mozambique

[33] Angkor Hosp Children, Cambodia Oxford Med Res Unit, Siem Reap, Cambodia

[34] Univ Oxford, Nuffield Dept Med, Ctr Trop Med & Global Hlth, Oxford, England

[35] Agence Med Prevent, Abidjan, Cote Ivoire

[36] Univ Nebraska Med Ctr, Div Pediat Infect Dis, Omaha, NE USA

[37] Int Fdn Infect Dis Nigeria, Abuja, Nigeria

[38] Ben Gurion Univ Negev, Beer Sheva, Israel

[39] Hassan II Univ Casablanca, Fac Med & Pharm Casablanca, Dept Microbiol, Casablanca, Morocco

[40] Mohammed VI Univ Hlth Sci, Natl Reference Lab, Casablanca, Morocco

[41] Natl Med Inst, Dept Epidemiol & Clin Microbiol, Warsaw, Poland

[42] Peking Univ Peoples Hosp, Beijing, Peoples R China

[43] Kenepuru Sci Ctr, Inst Environm Sci & Res Ltd, Porirua, New Zealand

[44] Bill & Melinda Gates Fdn, Pneumonia Program, Seattle, WA USA

[45] Ctr Dis Control & Prevent, Atlanta, GA USA

来源：

LANCET MICROBE | 2022年 / 3卷 / 10期

基金：

比尔及梅琳达.盖茨基金会;

关键词：

PNEUMOCOCCAL CONJUGATE VACCINE; CLONAL EVOLUTION; ANTIMICROBIAL RESISTANCE; CHILDREN; DISEASE; 19A; ERA; EXPANSION; NORWAY; ADULTS;

D O I：

10.1016/S2666-5247(22)00158-6

中图分类号：

R51 [传染病];

学科分类号：

100401 ;

摘要：

Background Serotype 24F is one of the emerging pneumococcal serotypes after the introduction of pneumococcal conjugate vaccine (PCV). We aimed to identify lineages driving the increase of serotype 24F in France and place these findings into a global context. Methods Whole-genome sequencing was performed on a collection of serotype 24F pneumococci from asymptomatic colonisation (n=229) and invasive disease (n=190) isolates among individuals younger than 18 years in France, from 2003 to 2018. To provide a global context, we included an additional collection of 24F isolates in the Global Pneumococcal Sequencing (GPS) project database for analysis. A Global Pneumococcal Sequence Cluster (GPSC) and a clonal complex (CC) were assigned to each genome. Phylogenetic, evolutionary, and spatiotemporal analysis were conducted using the same 24F collection and supplemented with a global collection of genomes belonging to the lineage of interest from the GPS project database (n=25 590). Findings Serotype 24F was identified in numerous countries mainly due to the clonal spread of three lineages: GPSC10 (CC230), GPSC16 (CC156), and GPSC206 (CC7701). GPSC10 was the only multidrug-resistant lineage. GPSC10 drove the increase in 24F in France and had high invasive disease potential. The international dataset of GPSC10 (n=888) revealed that this lineage expressed 16 other serotypes, with only six included in 13-valent PCV (PCV13). All serotype 24F isolates were clustered in a single clade within the GPSC10 phylogeny and long-range transmissions were detected from Europe to other continents. Spatiotemporal analysis showed GPSC10-24F took 3-5 years to spread across France and a rapid change of serotype composition from PCV13 serotype 19A to 24F during the introduction of PCV13 was observed in neighbouring country Spain. Interpretation Our work reveals that GPSC10 alone is a challenge for serotype-based vaccine strategy. More systematic investigation to identify lineages like GPSC10 will better inform and improve next-generation preventive strategies against pneumococcal diseases. Copyright (c) 2022 The Author(s). Published by Elsevier Ltd.

引用

页码：E735 / E743

页数：9

共 24 条

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