TY - JOUR
T1 - Genetic analysis of Enterovirus D68 associated with pneumonia in children from South India
AU - Sanjay, Ramachandran Erathodi
AU - Sabeena, Sasidharanpillai
AU - Robin, Sudandiradas
AU - Shaji, John T.
AU - Jayakrishnan, M. P.
AU - Suresh, E. K.Kumar
AU - Michael, C. J.
AU - Aswathyraj, S.
AU - Josmi, Joseph
AU - Shahin, Sheik
AU - Anup, Jayaram
AU - Arunkumar, Govindakarnavar
N1 - Funding Information:
The authors acknowledge the staff of the Manipal Institute of Virology and the hospitals in South India associated with the study. We are also grateful to the Indian Council of Medical Research (ICMR), Government of India for the Ad-hoc grant.
Funding Information:
The study was supported by the Indian Council of Medical Research (ICMR), Government of India (Ad-hoc grant No: 5/8/7/15/2010-ECD-I).
Publisher Copyright:
© 2021 Microbiology Society. All rights reserved.
PY - 2021
Y1 - 2021
N2 - EV-D68 is an emerging enterovirus infection associated with severe acute respiratory illness (SARI), acute flaccid myelitis (AFM) and acute flaccid paralysis (AFP). While EV-D68 outbreaks and sporadic cases are reported globally, a single case has been reported from India. The present study aims to investigate the molecular epidemiology and clinical characteristics of EV-D68-associated SARI cases from South India. We screened influenza-negative archived throat swab specimens from Influenza-Like Illness (ILI) and SARI cases (n=959; 2016 to 2018 period) for enteroviruses by pan-enterovirus real-time RT-PCR. Thirteen samples positive for enteroviruses were typed by PCR and sequencing based on VPI, VP2 and/or 5′NCR regions. One EV-D68 RNA sample was subjected to next-generation sequencing for whole genome characterisation. Among 13 enterovirus cases, four were ECHO-11, three EV-D68, two CV-A16 and one each EV-71, CV-B1, CV-B2 and CV-A9. All three cases of EV-D68 infection were reported in children below 2 years of age from Kerala state of South India during June and July 2017. The patients developed pneumonia without any neurological complications. Sequencing based on VPI and 5′NCR regions showed that EV-D68 strains belong to the novel subclade B3. The EV-D68 complete genome identified with two unique amino acid substitutions in VP1 (T-246-I) and 3D (K-344-R) regions. This study reiterates the EV-D68 novel subclade B3 circulation in India and indicates the urgent need for structured EV-D68 surveillance in the country to describe the epidemiology.
AB - EV-D68 is an emerging enterovirus infection associated with severe acute respiratory illness (SARI), acute flaccid myelitis (AFM) and acute flaccid paralysis (AFP). While EV-D68 outbreaks and sporadic cases are reported globally, a single case has been reported from India. The present study aims to investigate the molecular epidemiology and clinical characteristics of EV-D68-associated SARI cases from South India. We screened influenza-negative archived throat swab specimens from Influenza-Like Illness (ILI) and SARI cases (n=959; 2016 to 2018 period) for enteroviruses by pan-enterovirus real-time RT-PCR. Thirteen samples positive for enteroviruses were typed by PCR and sequencing based on VPI, VP2 and/or 5′NCR regions. One EV-D68 RNA sample was subjected to next-generation sequencing for whole genome characterisation. Among 13 enterovirus cases, four were ECHO-11, three EV-D68, two CV-A16 and one each EV-71, CV-B1, CV-B2 and CV-A9. All three cases of EV-D68 infection were reported in children below 2 years of age from Kerala state of South India during June and July 2017. The patients developed pneumonia without any neurological complications. Sequencing based on VPI and 5′NCR regions showed that EV-D68 strains belong to the novel subclade B3. The EV-D68 complete genome identified with two unique amino acid substitutions in VP1 (T-246-I) and 3D (K-344-R) regions. This study reiterates the EV-D68 novel subclade B3 circulation in India and indicates the urgent need for structured EV-D68 surveillance in the country to describe the epidemiology.
KW - Accute flaccid myelitis
KW - Acute flaccid paralysis
KW - Enterovirus D68
KW - Pediatric patients
KW - Pneumonia
KW - Severe acute respiratory illness
UR - http://www.scopus.com/inward/record.url?scp=85106639446&partnerID=8YFLogxK
U2 - 10.1099/JMM.0.001356
DO - 10.1099/JMM.0.001356
M3 - Article
C2 - 33999799
AN - SCOPUS:85106639446
SN - 0022-2615
VL - 70
JO - Journal of Medical Microbiology
JF - Journal of Medical Microbiology
IS - 5
M1 - 001356
ER -
