Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India

Shyam Singh Dahiya; Saravanan Subramaniam; Jitendra Kumar Biswal; Biswajit Das; Bikash Ranjan Prusty; Syed Zeeshan Ali; Sagar Ashok Khulape; Jajati Keshari Mohapatra; Raj Kumar Singh

doi:10.1111/tbed.13954

Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India

Shyam Singh Dahiya
, Saravanan Subramaniam
, Jitendra Kumar Biswal
, Biswajit Das
, Bikash Ranjan Prusty
, Syed Zeeshan Ali
, Sagar Ashok Khulape
, Jajati Keshari Mohapatra
, Raj Kumar Singh

ICAR- Directorate of Foot-and-Mouth Disease

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

19 Scopus citations

Abstract

Foot-and-mouth disease (FMD) is endemic in India with a preponderance of outbreaks caused by FMD virus (FMDV) serotype O. Out of the 11 global topotypes of serotype O, only ME-SA topotype has been reported in the country so far. Lineage O/ME-SA/Ind2001 and O/ME-SA/PanAsia are documented as the most dominant ones in terms of the number of outbreaks caused by them. To understand the distribution of topotype/lineages in India and their antigenic behaviour during the year 2014–2018, a total of 286 FMDV serotype O viral isolates were sequence determined at the VP1 region, and 109 isolates were characterized antigenically. All the isolates grouped in the ME-SA topotype, being distributed in lineage O/ME-SA/Ind2001 (within sub-lineages O/ME-SA/Ind2001d and O/ME-SA/Ind2001e), and a new group designated here as O/ME-SA/2018 cluster. The sub-lineage O/ME-SA/Ind2001e reported for the first time in India during the year 2015, replaced sub-lineage O/ME-SA/Ind2001d gradually, which was dominating since 2008. During the years 2014–2018, the sub-lineage O/ME-SA/Ind2001e was found to be the most predominant one whose mean evolutionary rate was observed to be faster than that of the sub-lineage O/ME-SA/Ind2001d. The codon sites 45 and 85 of VP1 were found to be under diversifying selection in a large proportion of trees. The common ancestor predicted for sub-lineages O/ME-SA/Ind2001e and O/ME-SA/2018 dates back to 2012 and 2016, respectively. The sustenance and spread of the new O/ME-SA/2018 cluster need to be assessed by continued surveillance. The Indian vaccine strain O/INDR2/1975 was found to provide adequate antigenic coverage to the emerging and prevalent serotype O lineages. The trait association tests showed frequent virus exchange among different states, which could be an important confounder in the region-specific assessment of effectiveness of FMD control programme.

Original language	English
Pages (from-to)	3498-3508
Number of pages	11
Journal	Transboundary and Emerging Diseases
Volume	68
Issue number	6
DOIs	https://doi.org/10.1111/tbed.13954
State	Published - Nov 2021
Externally published	Yes

Bibliographical note

Publisher Copyright:
© 2020 Wiley-VCH GmbH.

UN SDGs

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

SDG 3 Good Health and Well-being

Keywords

Ind2001
VP1 region
antigenic relationship
lineage
serotype O

Access to Document

10.1111/tbed.13954

Cite this

Dahiya, S. S., Subramaniam, S., Biswal, J. K., Das, B., Prusty, B. R., Ali, S. Z., Khulape, S. A., Mohapatra, J. K., & Singh, R. K. (2021). Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India. Transboundary and Emerging Diseases, 68(6), 3498-3508. https://doi.org/10.1111/tbed.13954

@article{7f3672e7cfcf4925803ad4c89df78b74,

title = "Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India",

abstract = "Foot-and-mouth disease (FMD) is endemic in India with a preponderance of outbreaks caused by FMD virus (FMDV) serotype O. Out of the 11 global topotypes of serotype O, only ME-SA topotype has been reported in the country so far. Lineage O/ME-SA/Ind2001 and O/ME-SA/PanAsia are documented as the most dominant ones in terms of the number of outbreaks caused by them. To understand the distribution of topotype/lineages in India and their antigenic behaviour during the year 2014–2018, a total of 286 FMDV serotype O viral isolates were sequence determined at the VP1 region, and 109 isolates were characterized antigenically. All the isolates grouped in the ME-SA topotype, being distributed in lineage O/ME-SA/Ind2001 (within sub-lineages O/ME-SA/Ind2001d and O/ME-SA/Ind2001e), and a new group designated here as O/ME-SA/2018 cluster. The sub-lineage O/ME-SA/Ind2001e reported for the first time in India during the year 2015, replaced sub-lineage O/ME-SA/Ind2001d gradually, which was dominating since 2008. During the years 2014–2018, the sub-lineage O/ME-SA/Ind2001e was found to be the most predominant one whose mean evolutionary rate was observed to be faster than that of the sub-lineage O/ME-SA/Ind2001d. The codon sites 45 and 85 of VP1 were found to be under diversifying selection in a large proportion of trees. The common ancestor predicted for sub-lineages O/ME-SA/Ind2001e and O/ME-SA/2018 dates back to 2012 and 2016, respectively. The sustenance and spread of the new O/ME-SA/2018 cluster need to be assessed by continued surveillance. The Indian vaccine strain O/INDR2/1975 was found to provide adequate antigenic coverage to the emerging and prevalent serotype O lineages. The trait association tests showed frequent virus exchange among different states, which could be an important confounder in the region-specific assessment of effectiveness of FMD control programme.",

keywords = "Ind2001, VP1 region, antigenic relationship, lineage, serotype O",

author = "Dahiya, \{Shyam Singh\} and Saravanan Subramaniam and Biswal, \{Jitendra Kumar\} and Biswajit Das and Prusty, \{Bikash Ranjan\} and Ali, \{Syed Zeeshan\} and Khulape, \{Sagar Ashok\} and Mohapatra, \{Jajati Keshari\} and Singh, \{Raj Kumar\}",

note = "Publisher Copyright: {\textcopyright} 2020 Wiley-VCH GmbH.",

year = "2021",

month = nov,

doi = "10.1111/tbed.13954",

language = "אנגלית",

volume = "68",

pages = "3498--3508",

journal = "Transboundary and Emerging Diseases",

issn = "1865-1674",

publisher = "John Wiley and Sons Ltd",

number = "6",

}

Dahiya, SS, Subramaniam, S, Biswal, JK, Das, B, Prusty, BR, Ali, SZ, Khulape, SA, Mohapatra, JK & Singh, RK 2021, 'Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India', Transboundary and Emerging Diseases, vol. 68, no. 6, pp. 3498-3508. https://doi.org/10.1111/tbed.13954

Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India. / Dahiya, Shyam Singh; Subramaniam, Saravanan; Biswal, Jitendra Kumar et al.
In: Transboundary and Emerging Diseases, Vol. 68, No. 6, 11.2021, p. 3498-3508.

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

TY - JOUR

T1 - Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India

AU - Dahiya, Shyam Singh

AU - Subramaniam, Saravanan

AU - Biswal, Jitendra Kumar

AU - Das, Biswajit

AU - Prusty, Bikash Ranjan

AU - Ali, Syed Zeeshan

AU - Khulape, Sagar Ashok

AU - Mohapatra, Jajati Keshari

AU - Singh, Raj Kumar

PY - 2021/11

Y1 - 2021/11

N2 - Foot-and-mouth disease (FMD) is endemic in India with a preponderance of outbreaks caused by FMD virus (FMDV) serotype O. Out of the 11 global topotypes of serotype O, only ME-SA topotype has been reported in the country so far. Lineage O/ME-SA/Ind2001 and O/ME-SA/PanAsia are documented as the most dominant ones in terms of the number of outbreaks caused by them. To understand the distribution of topotype/lineages in India and their antigenic behaviour during the year 2014–2018, a total of 286 FMDV serotype O viral isolates were sequence determined at the VP1 region, and 109 isolates were characterized antigenically. All the isolates grouped in the ME-SA topotype, being distributed in lineage O/ME-SA/Ind2001 (within sub-lineages O/ME-SA/Ind2001d and O/ME-SA/Ind2001e), and a new group designated here as O/ME-SA/2018 cluster. The sub-lineage O/ME-SA/Ind2001e reported for the first time in India during the year 2015, replaced sub-lineage O/ME-SA/Ind2001d gradually, which was dominating since 2008. During the years 2014–2018, the sub-lineage O/ME-SA/Ind2001e was found to be the most predominant one whose mean evolutionary rate was observed to be faster than that of the sub-lineage O/ME-SA/Ind2001d. The codon sites 45 and 85 of VP1 were found to be under diversifying selection in a large proportion of trees. The common ancestor predicted for sub-lineages O/ME-SA/Ind2001e and O/ME-SA/2018 dates back to 2012 and 2016, respectively. The sustenance and spread of the new O/ME-SA/2018 cluster need to be assessed by continued surveillance. The Indian vaccine strain O/INDR2/1975 was found to provide adequate antigenic coverage to the emerging and prevalent serotype O lineages. The trait association tests showed frequent virus exchange among different states, which could be an important confounder in the region-specific assessment of effectiveness of FMD control programme.

AB - Foot-and-mouth disease (FMD) is endemic in India with a preponderance of outbreaks caused by FMD virus (FMDV) serotype O. Out of the 11 global topotypes of serotype O, only ME-SA topotype has been reported in the country so far. Lineage O/ME-SA/Ind2001 and O/ME-SA/PanAsia are documented as the most dominant ones in terms of the number of outbreaks caused by them. To understand the distribution of topotype/lineages in India and their antigenic behaviour during the year 2014–2018, a total of 286 FMDV serotype O viral isolates were sequence determined at the VP1 region, and 109 isolates were characterized antigenically. All the isolates grouped in the ME-SA topotype, being distributed in lineage O/ME-SA/Ind2001 (within sub-lineages O/ME-SA/Ind2001d and O/ME-SA/Ind2001e), and a new group designated here as O/ME-SA/2018 cluster. The sub-lineage O/ME-SA/Ind2001e reported for the first time in India during the year 2015, replaced sub-lineage O/ME-SA/Ind2001d gradually, which was dominating since 2008. During the years 2014–2018, the sub-lineage O/ME-SA/Ind2001e was found to be the most predominant one whose mean evolutionary rate was observed to be faster than that of the sub-lineage O/ME-SA/Ind2001d. The codon sites 45 and 85 of VP1 were found to be under diversifying selection in a large proportion of trees. The common ancestor predicted for sub-lineages O/ME-SA/Ind2001e and O/ME-SA/2018 dates back to 2012 and 2016, respectively. The sustenance and spread of the new O/ME-SA/2018 cluster need to be assessed by continued surveillance. The Indian vaccine strain O/INDR2/1975 was found to provide adequate antigenic coverage to the emerging and prevalent serotype O lineages. The trait association tests showed frequent virus exchange among different states, which could be an important confounder in the region-specific assessment of effectiveness of FMD control programme.

KW - Ind2001

KW - VP1 region

KW - antigenic relationship

KW - lineage

KW - serotype O

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DO - 10.1111/tbed.13954

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C2 - 33305514

AN - SCOPUS:85097780066

SN - 1865-1674

VL - 68

SP - 3498

EP - 3508

JO - Transboundary and Emerging Diseases

JF - Transboundary and Emerging Diseases

IS - 6

ER -

Genetic characterization of foot-and-mouth disease virus serotype O isolates collected during 2014–2018 revealed dominance of O/ME-SA/Ind2001e and the emergence of a novel lineage in India

Abstract

Bibliographical note

UN SDGs

Keywords

Access to Document

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