TY - JOUR
T1 - A Streptococcus pneumoniae lineage usually associated with pneumococcal conjugate vaccine (PCV) serotypes is the most common cause of serotype 35B invasive disease in South Africa, following routine use of PCV
AU - The Global Pneumococcal Sequencing Consortium
AU - Ndlangisa, Kedibone M.
AU - du Plessis, Mignon
AU - Lo, Stephanie
AU - de Gouveia, Linda
AU - Chaguza, Chrispin
AU - Antonio, Martin
AU - Kwambana-Adams, Brenda
AU - Cornick, Jennifer
AU - Everett, Dean B.
AU - Dagan, Ron
AU - Hawkins, Paulina A.
AU - Beall, Bernard
AU - Corso, Alejandra
AU - Almeida, Samanta Cristine Grassi
AU - Ochoa, Theresa J.
AU - Obaro, Stephen
AU - Shakoor, Sadia
AU - Donkor, Eric S.
AU - Gladstone, Rebecca A.
AU - Ho, Pak Leung
AU - Paragi, Metka
AU - Doiphode, Sanjay
AU - Srifuengfung, Somporn
AU - Ford, Rebecca
AU - Moïsi, Jennifer
AU - Saha, Samir K.
AU - Bigogo, Godfrey
AU - Sigauque, Betuel
AU - Eser, Özgen Köseoglu
AU - Elmdaghri, Naima
AU - Titov, Leonid
AU - Turner, Paul
AU - Ravi Kumar, K. L.
AU - Kandasamy, Rama
AU - Egorova, Ekaterina
AU - Margaret, I. P.
AU - Breiman, Robert F.
AU - Klugman, Keith P.
AU - McGee, Lesley
AU - Bentley, Stephen D.
AU - von Gottberg, Anne
N1 - Publisher Copyright:
© 2022 The Authors.
PY - 2022
Y1 - 2022
N2 - Pneumococcal serotype 35B is an important non-conjugate vaccine (non-PCV) serotype. Its continued emergence, post-PCV7 in the USA, was associated with expansion of a pre-existing 35B clone (clonal complex [CC] 558) along with post-PCV13 emergence of a non-35B clone previously associated with PCV serotypes (CC156). This study describes lineages circulating among 35B isolates in South Africa before and after PCV introduction. We also compared 35B isolates belonging to a predominant 35B lineage in South Africa (GPSC5), with isolates belonging to the same lineage in other parts of the world. Serotype 35B isolates that caused invasive pneumococcal disease in South Africa in 2005–2014 were characterized by whole-genome sequencing (WGS). Multi-locus sequence types and global pneumococcal sequence clusters (GPSCs) were derived from WGS data of 63 35B isolates obtained in 2005–2014. A total of 262 isolates that belong to GPSC5 (115 isolates from South Africa and 147 from other countries) that were sequenced as part of the global pneumococcal sequencing (GPS) project were included for comparison. Serotype 35B isolates from South Africa were differentiated into seven GPSCs and GPSC5 was most common (49%, 31/63). While 35B was the most common serotype among GPSC5/CC172 isolates in South Africa during the PCV13 period (66%, 29/44), 23F was the most common serotype during both the pre-PCV (80%, 37/46) and PCV7 period (32%, 8/25). Serotype 35B represented 15% (40/262) of GPSC5 isolates within the global GPS database and 75% (31/40) were from South Africa. The predominance of the GPSC5 lineage within non-vaccine serotype 35B, is possibly unique to South Africa and warrants further molecular surveillance of pneumococci.
AB - Pneumococcal serotype 35B is an important non-conjugate vaccine (non-PCV) serotype. Its continued emergence, post-PCV7 in the USA, was associated with expansion of a pre-existing 35B clone (clonal complex [CC] 558) along with post-PCV13 emergence of a non-35B clone previously associated with PCV serotypes (CC156). This study describes lineages circulating among 35B isolates in South Africa before and after PCV introduction. We also compared 35B isolates belonging to a predominant 35B lineage in South Africa (GPSC5), with isolates belonging to the same lineage in other parts of the world. Serotype 35B isolates that caused invasive pneumococcal disease in South Africa in 2005–2014 were characterized by whole-genome sequencing (WGS). Multi-locus sequence types and global pneumococcal sequence clusters (GPSCs) were derived from WGS data of 63 35B isolates obtained in 2005–2014. A total of 262 isolates that belong to GPSC5 (115 isolates from South Africa and 147 from other countries) that were sequenced as part of the global pneumococcal sequencing (GPS) project were included for comparison. Serotype 35B isolates from South Africa were differentiated into seven GPSCs and GPSC5 was most common (49%, 31/63). While 35B was the most common serotype among GPSC5/CC172 isolates in South Africa during the PCV13 period (66%, 29/44), 23F was the most common serotype during both the pre-PCV (80%, 37/46) and PCV7 period (32%, 8/25). Serotype 35B represented 15% (40/262) of GPSC5 isolates within the global GPS database and 75% (31/40) were from South Africa. The predominance of the GPSC5 lineage within non-vaccine serotype 35B, is possibly unique to South Africa and warrants further molecular surveillance of pneumococci.
KW - South Africa
KW - Streptococcus pneumoniae
KW - global pneumococcal sequence cluster
KW - serotype 35B
UR - http://www.scopus.com/inward/record.url?scp=85127720873&partnerID=8YFLogxK
U2 - 10.1099/mgen.0.000746
DO - 10.1099/mgen.0.000746
M3 - Article
C2 - 35384831
AN - SCOPUS:85127720873
SN - 2057-5858
VL - 8
JO - Microbial genomics
JF - Microbial genomics
IS - 4
M1 - 000746
ER -