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Nipah Virus Outbreaks in India: Epidemiological Insights, Response
Measures, and the One Health Perspective
Riya Nair
1
, Jipin Dan Shaji
2
, Angitha K. V.
2
, Theertha K. V.
2
, Pranav Sreeji
2
, Anupriya K.
2
, Anajli
Prasanth
2
, Anamika M.
2
, Shraddha Rani
3
, Vikhyath Bangera
4
, Ashlesh D. Alva
5
1
Assistant Professor, Department of Virology & Immunology, Srinivas Institute of Allied Health Science,
Mukka, Karnataka, India
2
BSc Students, Department of Virology & Immunology, Srinivas Institute of Allied Health Science,
Mukka, Karnataka, India
3
Assistant Professor, Department of Genetics & Molecular Biology, Srinivas Institute of Allied Health
Science, Mukka, Karnataka, India
4
Assistant Professor, Department of Neuroscience, Srinivas Institute of Allied Health Science, Mukka,
Karnataka, India
5
Assistant Professor, Department of Medical Physics, Srinivas Institute of Allied Health Science, Mukka,
Karnataka, India
DOI: https://doi.org/10.51244/IJRSI.2025.12110106
Received: 26 November 2025; Accepted: 02 December 2025; Published: 13 December 2025
ABSTRACT
Background:
Nipah virus (NiV) remains a major zoonotic threat due to its high mortality and potential for rapid spread.
Since its first detection in India in 2001, outbreaks have recurred intermittently, with Kerala emerging as a
hotspot in recent years. Understanding the interplay between viral reservoirs, clinical outcomes, and public
health responses is critical for strengthening preparedness and limiting future transmission.
Methodology:
This study adopted a descriptive, multi-source approach, integrating outbreak reports, clinical investigations,
sero-epidemiological surveys, and wildlife reservoir assessments from Kerala between 2018 and 2023. Data
were analysed to capture human case characteristics, surveillance outcomes, and bat sampling findings.
Laboratory methods included qRT-PCR, ELISA, and genome sequencing, while epidemiological patterns were
evaluated using descriptive statistics and comparative analysis across multiple outbreak years.
Results:
Investigations confirmed the persistence of NiV in Pteropus medius bats, with viral RNA and antibodies
detected, alongside evidence of distinct viral lineages. Human case data revealed variability in outbreak
severity: the 2018 Kozhikode event showed high fatality and nosocomial spread, while subsequent incidents in
2019 and 2021 were rapidly contained with minimal transmission. Public health interventions, including on-
site diagnostics, strict contact tracing, and infection control, proved effective in reducing secondary spread.
Sero-surveys among contacts indicated no subclinical infections during the 2019 outbreak, highlighting the
impact of timely intervention.
Conclusion:
Findings underscore both progress and persisting vulnerabilities in NiV management. Strengthened laboratory
capacity, rapid detection, and coordinated responses have contributed to reduced morbidity and mortality in
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recent outbreaks. However, the continued circulation of NiV within bat populations presents an ongoing risk.
Sustained surveillance, proactive wildlife monitoring, and community-level prevention strategies remain
essential for mitigating future spillovers and supporting global health security
Keywords: Nipah Virus, Real-time reverse transcriptase polymerase chain reaction, ELISA, Reservoirs
INTRODUCTION
Nipah virus (NiV) is an emerging zoonotic pathogen of considerable public health concern, recognized for its
ability to cause severe disease in humans with a high case fatality rate. First identified during outbreaks among
pig farmers in Malaysia and Singapore in 19981999, NiV belongs to the genus Henipavirus within the family
Paramyxoviridae(Hauser et al., 2021). Since its discovery, the virus has been associated with sporadic but
often deadly outbreaks across South and Southeast Asia, notably in Bangladesh and India. Transmission
pathways include direct contact with infected animals, most commonly fruit bats of the genus Pteropus, as well
as human-to-human spread through close contact or exposure to bodily fluids. Clinical manifestations range
from mild, self-limiting symptoms to acute respiratory distress (ARDS) and fatal encephalitis, often with rapid
deterioration(Luby et al., 2012).
In India, NiV has demonstrated a recurrent yet geographically constrained pattern of emergence. Early
outbreaks in West Bengal in 2001 and 2007 were followed by a long period of apparent absence until the virus
reappeared in Kerala in 2018(Thomas et al., 2019). That event was marked by a high mortality rate and
significant nosocomial transmission, drawing attention to gaps in preparedness, infection control, and
surveillance capacity. Subsequent, smaller outbreaks in 2019, 2021, and 2023 underscored the continuing risk
of NiV re-emergence in the state, despite intensified public health vigilance. The repeated involvement of
Pteropus bats as reservoirs and the close ecological interface between bat populations and human settlements
in Kerala suggest a persistent potential for spillover events(Hauser et al., 2021).
Kerala’s experience with NiV has also highlighted the critical role of rapid detection, coordinated response,
and rigorous contact tracing in limiting transmission. The establishment of on-site diagnostic facilities,
deployment of molecular and serological assays, and implementation of strict infection prevention measures
have been instrumental in reducing the scale of later outbreaks. Nevertheless, these responses have been largely
reactive, triggered by the recognition of clinical cases rather than proactive identification of viral circulation in
animal hosts or early-stage human infections.
The public health challenge posed by NiV lies not only in its high lethality but also in the unpredictable nature
of its emergence. Environmental factors, changing land-use patterns, and increasing human encroachment into
bat habitats may alter spillover dynamics, complicating prediction and prevention efforts. Current
understanding of NiV ecology in India remains incomplete, with limited longitudinal data on viral prevalence
in bat populations, the frequency of asymptomatic infections in humans, and the effectiveness of different
containment strategies across varying epidemiological contexts(Sanker et al., 2024a).
This study addresses these gaps by synthesizing multi-source evidence from recent NiV outbreaks in Kerala,
integrating findings from human case investigations, sero-epidemiological surveys, and wildlife reservoir
assessments. By comparing patterns across multiple outbreak years and examining the role of enhanced
surveillance and laboratory readiness, the research aims to identify factors that have contributed to both
containment successes and ongoing vulnerabilities.
The significance of this work extends beyond regional public health, as NiV is listed by the World Health
Organization among priority pathogens for research and development due to its epidemic potential and absence
of licensed vaccines or specific antiviral therapies(Madhukalya et al., 2025). Understanding how local
epidemiology, reservoir ecology, and response capacity interact to shape outbreak outcomes in Kerala can
inform not only state and national preparedness but also global strategies for managing high-consequence
zoonotic threats. Through this comprehensive analysis, the study seeks to provide evidence-based
recommendations to strengthen early detection, optimize containment, and reduce the human toll of future NiV
events.
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Objectives
i. Identify the presence of Nipah virus in bat populations within outbreak-prone regions of Kerala by
detecting viral RNA, evaluating antibody prevalence, and analysing genomic profiles of circulating
strains.
ii. Characterize the clinical presentation, epidemiological trends, and transmission dynamics of confirmed
human Nipah virus cases reported during multiple outbreaks, including assessments of case fatality
rates and disease severity.
METHODOLOGY
This research employed a descriptive, multi-source design, drawing upon data from confirmed Nipah virus
(NiV) outbreaks in Kerala between 2018 and 2023. The study integrated findings from human case
investigations, wildlife reservoir surveillance, and sero-epidemiological surveys of close contacts.
Human case data were obtained from outbreak reports, clinical studies, and public health records. Confirmed
cases were identified through laboratory testing using real-time reverse transcriptase polymerase chain reaction
(qRT-PCR) and enzyme-linked immunosorbent assay (ELISA) for NiV-specific IgM or IgG antibodies.
Information collected included demographic characteristics, clinical presentation, laboratory findings,
transmission routes, and outcomes.
Bat surveillance involved targeted sampling in locations linked to human cases. Pteropus medius and Rousettus
leschenaultii bats were captured using mist nets set near roost sites or feeding areas. Biological specimens
included throat and rectal swabs, serum, and, in selected cases, visceral organ tissues collected post-euthanasia
under approved ethical protocols. Viral RNA detection was performed via qRT-PCR, while serological
analysis for NiV antibodies employed ELISA techniques. Genomic sequencing of positive samples was
conducted using next generation sequencing to characterize circulating viral strains.
Sero-prevalence surveys among human contacts focused on individuals with documented exposure to
confirmed NiV cases, including healthcare workers, household members, and community contacts. Blood
samples were collected under aseptic conditions, and sera were tested for NiV-specific IgM and IgG
antibodies. Exposure histories were recorded to classify participants into high- and low-risk categories.
Data from all sources were collected and analysed to identify patterns in viral occurrence, transmission, and
clinical outcomes. Descriptive statistics summarized demographic, clinical, and laboratory findings, while
comparative analysis examined trends across different outbreak years. This integrative approach allowed for a
comprehensive assessment of NiV epidemiology and public health responses within the Kerala context.
EPIDEMIOLOGY
The 2018 Nipah virus outbreak in Kozhikode, Kerala, brought the pathogen back into India’s public health
spotlight. Investigations confirmed Pteropus fruit bats as the source and documented clear human-to-human
transmission, with 16 fatalities among 18 reported cases. This event emphasized the value of a One Health
approach, integrating human, animal, and environmental health strategies to counter zoonotic
threats(Sadanadan et al., 2018a).
In June 2019, a case in Ernakulam, Kerala, prompted researchers to examine Pteropus bats from areas visited
by the patient. Molecular diagnostics and genome sequencing were employed to detect NiV and explore its
genetic diversity, thereby assessing the risk of novel viral variants in southern India.
In the 2019 outbreak, testing 66 close contacts of the index case for NiV antibodies. Their findings provided
insight into the spectrum between symptomatic and subclinical infections and highlighted the effectiveness of
containment measures and contact tracing(Ramachandran et al., 2022).
In Siliguri, West Bengal 2001 the outbreak involved 45 cases and 16 deaths, with strong evidence of
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nosocomial transmission, underscoring the urgent need for improved infection control in healthcare
facilities(Chadha et al., 2006).
In the absence of vaccines or targeted therapies, countries must maintain robust healthcare systems ready to
address emerging infectious diseases. An innovative, low-cost disease surveillance system trialed in North
Arcot, Tamil Nadu, and adapted in Kerala’s public health sector, showed promise. Between 1999 and 2001, 14
diseases were routinely tracked through daily postcard-based case reporting by trained healthcare workers, with
monthly bulletins ensuring timely information sharing(T Jacob John et al., 2002).
WHO’s core outbreak control strategies, when implemented promptly, have enabled many nations to limit NiV
spread within their borders. India’s containment of certain outbreaks, at times down to a single case, has been
attributed to rigorous contact tracing and decisive public health action.
RESULT
Study Name
Sample Sources
Results
Detection of Nipah virus in Pteropus
medius in the 2019 outbreak from
Ernakulam (Sudeep et al., 2021)
141 throat/rectal swabs, 92
visceral organs, 52 serum
samples from bats
NiV RNA in 1 swab & 3 organs;
20.68% IgG positive; new I-India
genotype
Experiential learning from NiV
outbreaks in Kerala (Sahay et al.,
2020)
1 confirmed human case;
330 contacts traced; bat
sampling
On-site diagnostics; 57 suspected cases
negative; no secondary transmission
Clinical manifestations of NiV-
infected patients, Kerala 2018
(Chandni et al., 2020a)
12 confirmed human
patients
CFR 83.3%; encephalitis, ARDS,
myocarditis; nosocomial spread;
ribavirin trial inconclusive
Towards global health security NiV
2018 Kerala (Sadanadan et al., 2018b)
23 human cases; 52 bats
tested
CFR 88.9%; 19.2% bats NiV-positive;
rapid coordinated outbreak control
An impending public health threat,
Kerala 2023 outbreak (Verma et al.,
2024)
Human cases,
environmental sampling
11 cases, 8 deaths; 43 containment
zones; 950+ contacts traced; strict
PPE/isolation
Sero-prevalence of NiV antibodies
among close contacts, 2019 Ernakulam
(Ramachandran et al., 2022)
49 close contacts (HCWs,
family, friends)
No anti-NiV IgM/IgG detected; no
subclinical infections
Communicable diseases monitored
Kottayam (John et al., n.d.)
District-wide surveillance
data (14 diseases)
Frequent reports: dysentery,
leptospirosis, typhoid, hepatitis; early
outbreak detection effective
*CFR-Case Fatality Ratio, ARDS-Acute Respiratory Distress
Investigations across multiple outbreaks and surveillance studies revealed distinct patterns in Nipah virus
(NiV) occurrence, transmission, and host reservoir detection in Kerala and other affected regions of India.
Bat surveillance during the 2019 Ernakulam incident identified viral RNA in one rectal swab and three visceral
organ samples from Pteropus medius. Serological testing showed that approximately one-fifth of sampled
Pteropus bats (20.68%, 12 of 58) carried anti-NiV IgG antibodies. Genome sequencing of isolates from three
bats produced fragments ranging from 15.1 to 18.17 kilobases, indicating circulation of a genetically distinct
“I-India” lineage within South India(Sudeep et al., 2021).
In the same outbreak, rapid deployment of diagnostic capacity and strict contact tracing contributed to
successful containment. Fifty-seven suspected human cases were tested locally by point-of-care assay,
quantitative RT-PCR, and ELISA, all returning negative results apart from the single confirmed index case,
who survived. Among the 330 individuals identified through contact tracing, 52 were classified as high-risk
exposures, including healthcare workers, community members, and relatives. No secondary human infections
were detected(Sadanadan et al., 2018a).
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Sero-epidemiological assessment of 49 close contacts of the 2019 index case found no detectable IgM or IgG
antibodies, indicating the absence of asymptomatic or subclinical infections during that event. Most reported
exposure was through direct physical contact (59.2%), with a smaller proportion involving contact with body
fluids (22.4%)(Ramachandran et al., 2022).
Earlier outbreaks displayed markedly higher mortality. In the 2018 Kozhikode episode, 12 laboratory-
confirmed patients treated in a tertiary emergency department experienced a case fatality ratio (CFR) of 83.3%.
Clinical presentation was dominated by encephalitis (83%), bilateral pulmonary infiltrates, and, in some cases,
myocarditis. Transmission was predominantly nosocomial, with nearly one-fifth of secondary cases occurring
among healthcare workers. Experimental ribavirin administration did not produce statistically significant
differences in outcomes(Chandni et al., 2020b).
Complementary epidemiological reports from the same outbreak period indicated a total of 23 cases and 21
deaths (CFR 88.9%) across Kozhikode and Mallapuram districts. Reservoir investigation demonstrated that
19.2% (10 of 52) of sampled Pteropus bats tested positive for NiV RNA, further supporting the role of fruit
bats as a key source of infection(Sadanadan et al., 2018c).
The 2023 outbreak in Kerala comprised 11 confirmed cases, of which 8 were fatal. Public health authorities
established 43 containment zones, identified over 950 contacts, and implemented strict infection prevention
measures, including isolation of exposed healthcare workers and temporary closure of educational
institutions(Verma et al., 2024).
Comparative review of Kerala’s outbreak history shows substantial variation in scale and fatality. The 2018
event exhibited the highest CFR, while the 2019 and 2021 outbreaks each involved a single fatality and were
contained rapidly. Enhanced surveillance, diagnostic readiness, and targeted containment appear to have
contributed to these improved outcomes.
Although not specific to NiV, district-level communicable disease monitoring in Kerala has demonstrated that
early detection systems are capable of intercepting outbreaks. Surveillance records highlight frequent reporting
of leptospirosis, acute dysentery, typhoid fever, and acute hepatitis, with timely intervention curbing larger
epidemics such as cholera.
Overall, the compiled evidence underscores a progressive strengthening of outbreak response capacity in
Kerala, reflected in faster case detection, improved laboratory turnaround times, rigorous contact tracing, and
integration of wildlife reservoir monitoring. These measures have coincided with reduced transmission and, in
certain years, a marked decline in fatalities despite the continued presence of NiV in bat populations.
CONCLUSION
This study consolidates evidence from multiple Nipah virus outbreaks in Kerala, providing an integrated view
of the virus’s epidemiology, reservoir dynamics, clinical patterns, and the effectiveness of public health
interventions. Findings from bat surveillance confirmed ongoing NiV circulation in Pteropus medius
populations, with both viral RNA detection and measurable antibody prevalence, underscoring the role of these
species as a persistent reservoir. Genomic analysis revealed the presence of distinct viral lineages, indicating
evolutionary divergence within regional strains(Sahay et al., 2020).
Human case data from successive outbreaks demonstrated substantial variation in scale and severity. The 2018
Kozhikode event was marked by high mortality and extensive nosocomial transmission, while subsequent
outbreaks in 2019 and 2021 were rapidly contained, each involving a single fatality(Sanker et al., 2024a,
2024b). These improvements coincided with the establishment of on-site diagnostic capacity, systematic
contact tracing, and strengthened infection prevention measures. Serological surveys among close contacts
revealed no subclinical infections during the 2019 Ernakulam outbreak, suggesting that timely intervention
may have curtailed secondary spread.
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The analysis highlights the cumulative benefits of enhanced surveillance, rapid laboratory confirmation, and
coordinated response mechanisms in reducing morbidity and mortality. At the same time, the persistence of
NiV in local bat populations indicates an ongoing risk of re-emergence. Achieving sustainable control will
require not only maintaining current preparedness levels but also integrating proactive wildlife surveillance and
community-level prevention strategies. The evidence presented here offers actionable insights to strengthen
outbreak preparedness, guide targeted interventions, and inform broader strategies for managing high-
consequence zoonotic threats in endemic regions.
LIMITATIONS
While this study draws upon diverse data sources, several constraints should be acknowledged. First, the
reliance on published outbreak reports and surveillance data means findings are dependent on the accuracy and
completeness of those records, which may vary across events. In wildlife sampling, the geographic scope and
number of bats tested were limited to outbreak-associated areas, potentially underrepresenting the wider
distribution of viral activity. Similarly, sero-prevalence surveys among human contacts were restricted in size
and may not capture all asymptomatic infections, particularly in rural or hard-to-reach populations.
The integration of data from multiple years and differing methodologies may introduce inconsistencies in case
definitions, diagnostic protocols, and reporting standards. Additionally, genomic analysis was only possible for
a subset of positive samples, limiting broader phylogenetic comparisons. Despite these limitations, the
synthesis of available evidence provides a valuable, evidence-based understanding of NiV epidemiology and
control efforts in Kerala, while highlighting areas where more comprehensive, longitudinal research is needed.
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