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© Veterinary Business Development Ltd 2025

IPSO_regulated

23 Mar 2022

Equine flu – disease monitoring initiatives and surveillance in 2021

Fleur Whitlock, Richard Newton

Job Title



Equine flu – disease monitoring initiatives and surveillance in 2021

Equine infectious disease occurrences in the UK are monitored, and actions for their control and prevention are taken to optimise the health and welfare of the equine population, and to try to avoid interruptions to the equestrian calendar.

Equine Infectious Disease Surveillance (EIDS) is a newly established initiative, based at the Department of Veterinary Medicine at the University of Cambridge. EIDS encompasses the work previously conducted by the Epidemiology and Disease Surveillance group that was based at the AHT prior to its closure in 2020, and then hosted in the interim by the British Horseracing Authority, with funding continuing to be provided by the Thoroughbred racing and breeding industry. EIDS collaborates with equine industry stakeholders, including veterinary surgeons, vaccine manufacturers, commercial diagnostic laboratories, scientific researchers, equine competition regulatory bodies and government, and provides a disease control advice service for veterinary surgeons in the UK dealing with infectious disease outbreaks.

Several EIDS surveillance schemes exist to aid the identification and reporting of specific equine infectious disease occurrences, and the Horserace Betting Levy Board (HBLB) equine influenza testing scheme has been relaunched. The scheme funds PCR testing for suspected cases of equine influenza (EI) in Great Britain, with the laboratory testing conducted by Rossdales Laboratories in Newmarket.

Veterinary practices must be signed up to the scheme and samples need to be submitted with an appropriately completed scheme submission form.

Why use the HBLB-funded equine influenza surveillance scheme?

The scheme aims to assist treating vets in confirming if influenza virus is present on a premises, and in particular where there may be financial constraints on pursuing diagnostic testing. Importantly, the scheme is intended to also encourage testing in EI vaccinated horses with clinical respiratory signs, which may be suggestive of failure of vaccine efficacy.

A prompt diagnosis helps to ensure successful implementation of control measures for an infected premises, limiting spread of flu and its impacts on the industry, and welfare of horses. On confirmation of a positive diagnosis of EI, veterinary epidemiologists at EIDS will be able to assist equine vets with relevant outbreak advice. The scheme also enables epidemiological and virological information to be obtained that is vital to ensure preventive measures such as vaccination are optimally used in our horse population in Great Britain. Identifying risk factors for outbreaks can assist in the design of premises-specific biosecurity measures.

Virological analyses are conducted by HBLB-funded virologists at the University of Cambridge, to determine if current vaccines are likely to maintain levels of protection against the circulating field strains of flu virus. Anonymised data also contribute to further equine influenza research studies, ultimately intended to mitigate future major outbreaks of this highly infectious disease.

Which horses can be sampled on the HBLB-funded scheme?

  • Any unvaccinated horse with typical influenza clinical signs, which may include combinations of coughing, nasal discharge, fever and inappetence.
  • Vaccinated horses with clinical respiratory signs, which may, though, be milder than those seen in unvaccinated animals.

Which samples are covered for free PCR testing on the HBLB scheme?

  • Nasopharyngeal swabs, ideally taken within five days of clinical signs first being noted (Figure 1).

Equine vets are encouraged to sample the most recently affected animal, or several cases, to optimise the chance of confirming a diagnosis of EI. This is because horses in the acute phase of infection are most likely to be shedding virus and, therefore, be found to be positive for EI by PCR.

Once a diagnosis has been reached for a particular premises, if vaccinated animals go on to demonstrate clinical signs, we strongly encourage that they also be sampled through this scheme.

Figure 1. Understanding equine influenza viral shedding and antibody response following exposure to optimise diagnostic testing success.
Figure 1. Understanding equine influenza viral shedding and antibody response following exposure to optimise diagnostic testing success.

Influenza surveillance in Great Britain

For a case or outbreak of EI to reach the reporting stage, a number of steps must be completed. These include keepers identifying an animal is sick and contacting the vet, cases being seen by a vet, diagnostic samples being taken and submitted to the laboratory for diagnosis, EIDS being informed, and anonymised data being shared through disease reporting platforms.

In addition to the HBLB-funded equine influenza surveillance scheme, EIDS has a surveillance network that includes all the commercial diagnostic laboratories in Great Britain that conduct agent detection testing for EI. Laboratories and referring veterinary surgeons are encouraged to share anonymous outbreak information with EIDS, and viral isolates for further analysis – forms for these submissions are available under the “Forms and Resources” tab on the EIDS website.

The collating and sharing of anonymised disease information is at the core of EIDS’ work, and EIDS oversee the International Collating Centre (ICC), an international disease reporting platform, for real-time reporting of disease occurrences, which is supported by members of the International Thoroughbred Breeders Federation (ITBF). The team also produces the Equine Quarterly Disease Surveillance report on behalf of industry and Government.

For occurrences of EI and equine herpesvirus-1 abortion, neonatal infection and neurological disease, EIDS has access to Tell-Tail text alerts, sponsored by Boehringer Ingelheim, which include a link to the ICC report.

Domestic and international EI reports are also available on an equine influenza specific website (EquiFluNet; bit.ly/34NSvYd), with additional presentations of data available such as choropleth maps and epidemic curves for any periods set by the user between the beginning of 2019 and the present (see info box on equine infectious disease surveillance reporting for details on how to sign up for the reports).

A summary of the findings from EI surveillance during 2021

United Kingdom

During 2021, 30 infected premises confirmed EI, involving 36 laboratory-confirmed positive cases. This contrasted with six infected premises confirmed during 2020. These numbers are a far cry from the 2019 epidemic, but the change in influenza activity is worth noting. Infected premises were confirmed in 23 counties in Great Britain during 2021 (Figure 2a) and 16 of the 30 outbreaks (53%) occurred since 9 November (Figure 2b).

Figure 2a. Outbreak curve showing reported equine influenza outbreak timings and frequencies in the UK.
Figure 2a. Outbreak curve showing reported equine influenza outbreak timings and frequencies in the UK.
Figure 2b. Choropleth map depicting locations of single EI outbreak reports in 23 counties of the UK for 1 January 2021 to 31 December 2021 (www.equinesurveillance.org/equiflunet).
Figure 2b. Choropleth map depicting locations of single EI outbreak reports in 23 counties of the UK for 1 January 2021 to 31 December 2021 (www.equinesurveillance.org/equiflunet).

New arrivals were reported by 23 out of 30 infected premises (77%) in the preceding few weeks before clinical signs were noted on the premises, including a majority that had received horses that had been imported from elsewhere in Europe. Descriptive data for infected premises level factors is detailed in Table 1 and horse-specific factors are in Table 2.

Table 1. Data for Great Britain premises confirmed with EI in 2021
Infected premises level factors N = 30 % 100
Premises type

Private
Undefined
Livery
Riding school
Stud
Competition yard

30

11
9
7
1
1
1

 

37%
30%
23%
3.3%
3.3%
3.3%

Biosecurity measures on infected premises

Isolation facilities

Yes
No

17

 

4
13

 

 

24%
76%

New arrivals subject to a quarantine period

Yes
No

16

2
14

 

12.5%
87.5%

Horses on premises share equipment

Yes
No

11

5
6

 

45%
55%

Horses on premises share tack

Yes
No

13

3
10

 

23%
77%

New arrivals on to infected premises

Within two weeks

30

23

 

77%

Table 2. Descriptive data for horses confirmed with equine influenza infected during 2021 in Great Britain
Confirmed cases N = 36 % 100
General breed type

Sports horses
Undefined
UK-native pony breeds
UK-native horse breeds
Non-UK native horses
Cross-breeds

36

12
9
8
4
2
1

 

33%
25%
22%
11%
5%
3%

Sex

Gelding
Stallion
Mare
Undefined

36

11
6
11
8

 

31%
16%
31%
22%

Age

Range
Interquartile range
Median

33

0.5 months to 17 years
3 to 5 years
4 years

Influenza vaccination status

Unvaccinated
Fully vaccinated
Undefined
Lapsed vaccinated

36

25
7
3
1

 

69%
20%
8%
3%

Class of last influenza vaccination

V2 (and >14 days beyond)
V3
6-month booster
12-month booster

7

2
1
1
3

 

29%
14%
14%
43%

Age by vaccination status

Unvaccinated

Range
Interquartile range
Median

Vaccinated

Range
Interquartile range
Median

 

23

0.5 to 17 years
2.5 to 5 years
3 years

7

3 to 13 years
4 to 10.5 years
5 years

Virological analyses of the 2021 EI strains have shown that although some genetic differences can be seen between strains, the viruses are antigenically similar and are all from Clade 1 of the Florida sublineage of H3N8, and similar to viruses that caused the European epidemic in 2019.

Worldwide

Although EI is endemic in most countries worldwide, the number of reported outbreaks may not be a true reflection of the actual number of EI outbreaks a country actually experiences. This is because the outbreaks that reach the reporting stage are only those that have been subject to diagnostic testing by laboratories and that are then reported on systems that are monitored by the ICC.

Table 3 summarises the number of outbreaks reported worldwide during 2021, and an outbreak curve demonstrates the frequency and timing of each outbreak report.

Table 3. Number of outbreaks of EI worldwide reported by the International Collating Centre for 1 January 2021 to 31 December 2021
Country or continent Reported EI outbreaks
Belgium 1
Canada 2
France 10
Germany 11
Netherlands 5
Tunisia 1
UK 30
US 20
North Africa 1
North America 22
Northern Europe 57
Total 80

Key take-home messages

Veterinary surgeons are encouraged to understand that they play an essential role in the identification, control and prevention of equine infectious diseases, in particular EI.

Sampling suspected EI cases, even in vaccinated horses where signs may be mild, is vital in surveillance of this disease, and for the implementation of successful control and prevention measures to limit the spread of the virus. EI viral isolates that are recovered from clinical samples are analysed by HBLB-funded virologists to monitor the evolution of the virus and ensure preventive measures remain effective, such as ensuring vaccines are performing appropriately and their viral strains are kept up to date.

The HBLB-funded EI surveillance testing scheme has been relaunched and covers the cost of PCR testing for EI at Rossdales Laboratories in Newmarket. Vets signing up to the scheme and sampling eligible cases are encouraged when sending samples for testing to fully complete the laboratory submission form, thereby ensuring EIDS has all relevant information supplied for all sampled animals.

Several different infectious disease reports are regularly collated and issued by EIDS to inform industry about infectious disease occurrences and communicate measures for their optimal control and prevention, and vets attending any horses in Britain are encouraged to sign up to receive these reports.

  • To contact EIDS, email [email protected] or telephone 01223 766496.
  • Sign up to the HBLB-funded EI surveillance scheme here.