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PREVALENCE AND ASSOCIATED RISK FACTORS OF BLUETONGUE VIRUS IN PUNJAB AND BALOCHISTAN TAYYEBAH SOHAIL 2009-VA-209 A THESIS SUBMITTED IN THE PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY IN MICROBIOLOGY UNIVERSITY OF VETERINARY AND ANIMAL SCIENCES, LAHORE 2019

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Page 1: PREVALENCE AND ASSOCIATED RISK FACTORS OF …

PREVALENCE AND ASSOCIATED RISK FACTORS OF

BLUETONGUE VIRUS IN PUNJAB AND BALOCHISTAN

TAYYEBAH SOHAIL

2009-VA-209

A THESIS SUBMITTED IN THE PARTIAL FULFILLMENT OF THE

REQUIREMENTS FOR THE DEGREE

OF

DOCTOR OF PHILOSOPHY

IN

MICROBIOLOGY

UNIVERSITY OF VETERINARY AND ANIMAL SCIENCES,

LAHORE

2019

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To,

The Controller of Examinations,

University of Veterinary and Animal Sciences,

Lahore.

We, the Supervisory Committee, certify that the contents and form of the thesis, submitted by Miss

Tayyebah Sohail, Registration No. 2009-VA-209 have been found satisfactory and recommended that it

to be processed for the evaluation by the External Examiner(s) for award of the Degree.

Supervisor

Dr. Muhammad Zubair shabbir

Member

Prof. Dr. Masood Rabbani

Member

Muhammad Yasir Zahoor

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i

DEDICATION

I would like to dedicate my thesis to my beloved parents for being the lantern of hope throughout

my life, my teachers and friends whose support gave me strength and confidence to complete my

studies.

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ii

ACKNOWLEDGEMENTS

In the name of ALLAH, the Most Gracious and the Most Merciful. All praises to ALLAH for giving me

strength, opportunity and his blessing to complete my thesis. I am also thankful to the holy prophet

MUHAMMAD (PBUH), as a symbol of guidance and hope for me in life.

Foremost, I would like to express sincere gratitude to my supervisor Dr. Muhammad Zubair

Shabbir, Associate Professor, Department of Microbiology, University of Veterinary and Animal

Sciences, Lahore for his continuous support, patience, motivation, enthusiasm, and immense knowledge

throughout my study and research. His invaluable help with constructive comments and suggestions have

contributed to the success of this research.

Besides my supervisor, I would like to pay my special thanks to my supervisory committee:

Prof. Dr. Masood Rabbani, Pro Vice Chanceller/Dean Faculty of Veterinary Sciences, UVAS Lahore

and Dr. Muhammad Yasir Zahoor, Assistant Professor, Institute of Biochemistry and Biotechnology,

UVAS Lahore for their encouragement, insightful comments, and sincere advice.

I am thankful to the Chairman of Department of Microbiology, Prof. Dr. Tahir Yaqub.

Finally, my deepest gratitude to my beloved friends and class fellows for all their moral support,

encouragement and sincere advice during my research work.

Tayyebah Sohail

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iii

CONTENTS

DEDICATION (i)

ACKNOWLEDGEMENTS (ii)

LIST OF TABLES (iv)

LIST OF FIGURES (v)

LIST OF ABBREVIATIONS (vi)

LIST OF ANNEXURES (vii)

ABSTRACT (viii)

SR. NO. CHAPTERS PAGE NO.

1 INTRODUCTION 1

2 REVIEW OF LITERATURE 3

3 MATERIALS AND METHODS 10

4 RESULTS 15

5 DISCUSSION 31

6 SUMMARY 35

7 LITERATURE CITED 36

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iv

LIST OF TABLES

TABLE.NO. TITLE PAGE.NO.

2.1 Epidemiological pattern and distribution of different serotypes of

bluetongue virus worldwide

8

4.1. Herd-wise seroprevalence and serotype distribution of BTV among

different districts of Punjab.

16

4.2. Animal species-wise distribution and seroprevalence of sheep, goat, cattle and buffalo in Punjab province.

17

4.3 Univariate analysis of anti-VP7 antibodies in small ruminants and their

potential association to categorical variables.

19

4.4 Univariate analysis of anti-VP7 antibodies in large ruminants and their

potential association to categorical variables.

21

4.5 Multivariable mixed effects logistic regression model (p < 0.05) for BTV

serological status amongst ruminants originating from traditional

farms/villages in Punjab province (2013-15).

23

4.6 Summary of the number of sheep and goats sampled, the prevalence of anti-

VP7 antibodies and the BTV serotypes present in the Kech, Mastung, Killa

Saifullah and Quetta districts of Balochistan province.

26

4.7 Univariate analysis of anti-VP7 antibodies in goats and their potential

association to categorical variables.

27

4.8 Univariate analysis of anti-VP7 antibodies in sheep and their potential

association to categorical variables.

28

4.9 Multivariate logistic regression model determining the relationship between

categorical predictors and seropositivity in goats.

28

4.10 Multivariate logistic regression model determining the relationship between

categorical predictors and seropositivity in sheep.

29

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v

LIST OF FIGURES

FIGURE NO. TITLE PAGE NO.

3.1 The cELISA plate showing positive and negative results of samples

along with positive control (PC) and negative control (NC). 12

4.1 Geographical distribution pattern of sites for blood sampling and

identified serotypes across selected districts of Punjab province,

Pakistan

25

4.2 Geographical distribution pattern of sites for blood sampling and

identified serotypes across selected districts of Balochistan province,

Pakistan

30

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vi

LIST OF ABBREVIATIONS

BT: Bluetongue

BTV: Bluetongue virus

VP: Viral protein

NS: Non-structural protein

cELISA: Competitive enzyme-linked immune sorbent assay

PCR: Polymerase chain reaction

RT-PCR: Real-time polymerase chain reaction

OIE: Office International des Epizooties

DTRA: Defense threat reduction agency

HEC: Higher Education Commission

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vii

LIST OF ANNEXURES

SR. NO. TITLE PAGE NO.

1 Blood sample collection Performa ix

2 Seroprevalence of Bluetongue Virus in small ruminants in Balochistan

province, Pakistan

x

3 Seroprevalence of Bluetongue Virus in small and large ruminants in Punjab

province, Pakistan xi

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viii

ABSTRACT

Bluetongue (BT) is a vector-borne disease of immense economic importance for small and large

ruminants. Despite frequent disease reports from neighboring countries, a little is known about current

disease status and prevalent serotypes in Pakistan. We screened a total of 1,312 healthy animals (sheep=

326, goat= 476, cattle= 234, buffalo= 276) from Punjab and 876 from clinically healthy sheep (475) and

goats (401) from Balochistan for the detection of group-specific antibodies and serotype-specific genome

for BT virus through competitive ELISA and real-time PCR, respectively. An overall prevalence of

group-specific VP7 antibodies [28.81% (n= 378/1312, 95% CI=26.4 – 31.4)] was observed in Punjab.

The prevalence was higher in goats [40.75% (n=194/476, 95% CI=36.4 – 45.3)] followed by buffalo

[29.34% (n=81/276, 95% CI=24.3 – 34.9)], sheep [18.40% (n= 60/326, 95% CI=14.5 – 22.9)] and cattle

[17.94% (n= 42/234, 95% CI= 13.56 – 23.4)]. The odds of seropositivity were more in buffalo of Nili

breed (OR= 2.06, 95% CI= 1.19-3.58) as well as those found with a presence of vector (OR= 2.04, 95%

CI= 1.16-3.59). Buffalo and cattle with history of abortion [(OR= 3.95, 95% CI= 1.33-11.69) and (OR=

5.89, 95% CI= 1.80-19.27) respectively] were much likely to be infected with the disease. Serotype 8

was detected in all animal species while, serotypes 4 and 6 were detected in sheep, 2, 6 and 11 in goat,

and 2 and 16 in buffalo. The study concludes a much frequent exposure of different serotypes of

Bluetongue virus (BTV) in small and large ruminants and indicates its expansion to enzootic range

worldwide.In Balochistan, none of the study herds (n = 97) were seronegative for BTV, and at the

individual level, the overall prevalence of BTV seroconversion was 47.26% (n = 414/876, 95%

CI=43.92-50.63%). A higher percentage of goats (50.87%, 95% CI = 45.99-55.73%) were seropositive

for anti-VP7 immunoglobulins (IgG) than sheep (44.21%, 95% CI= 39.81-48.70%). Odds of

seroconversion for goats were associated with breed-type (χ2 = 16.84, p = 0.01), parity (χ2 = 23.66, p =

0.00) and presence of vector (χ2 = 2.63, p = 0.10), whereas for sheep, it was associated with breed-type

(χ2 = 13.80, p = 0.01) and parity (χ2 = 53.40, p = 0.00). The presence of vector was also observed to be a

risk factor in goat. Serotype 8 was the most prevalent (26.82%, 95% CI=14.75-43.21%) followed by an

equal prevalence of serotypes 2 and 9 (7.31%, 95% CI= 1.91-21.01%). To the best of our knowledge,

this is the first study conducted in Balochistan province and the results indicate that there is a necessity to

initiate intervention strategies to control BT disease burden not only in this region of Pakistan but also in

adjacent areas of the neighboring countries, Iran and Afghanistan.

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1

CHAPTER 1

INTRODUCTION

Bluetongue (BT) is a vector borne viral disease of small and large ruminants including both

domestic and wild animals. The virus responsible of disease transmission is Bluetongue virus, which

belongs to genus Orbivirus within the family Reoviridae. Bluetongue virus (BTV) is icosahedral, 90 nm

in diameter and is non-enveloped with triple layered protein capsid. It has segmented dsRNA genome

consisting of ten segments each segment coding for different viral proteins. Seven structural (VP1–VP7)

and four non-structural (NS1–NS3 and NS3A) proteins are produced by viral genome. Numerous species

of Culicoides biting midges serve as a vector for transmission of virus from one susceptible host to

another (Legisa et al. 2013). Also some mechanical vectors play role in disease transmission such as

ticks and mosquitoes. These vectors do not help in viral replication in the carrier but just act as a vehicle

to transmit the virus from one host to the other (Bouwknegt et al. 2010; Hoffmann et al. 2012). To-date,

27 BTV serotypes are identified worldwide (Maan et al. 2012; Jenckel et al. 2015). Bluetongue is widely

spread to latitudes 35ºS and 40ºN, extending further to North-Western America, China and Kazakhstan

up to 50º (Lundervold 2011). It is believed that BTV is established worldwide in each continent but

Antarctica (Maclachalan 2011).

Office International des Epizooties (OIE) has declared Bluetongue, ‘notifiable disease’ due to

direct losses by mortality, infertility, rare abortions, reduced milk and weight gain and indirect losses by

international animals trade restriction, cost on countrywide disease surveillance, mass vaccination,

treatment and vector control strategies (Wilson and Mellor 2009; Coetzee et al. 2012; OIE 2014). An

annual loss of US$ 125 million has been estimated in US alone due to this disease (Nicoletti et al. 2014).

Clinical signs include erosions and oedema of oral mucosa, conjunctivitis, salivation, fever, apathy and

tiredness, lameness, and dysphagia, muscle necrosis, coronitis and limb stiffness.

Although BT equally infects all ruminants but the disease is mainly observed in goat, sheep,

cattle, llamas, camels, antelopes and deer. Comparatively severe clinical disease is observed in sheep and

white-tailed deer (Odocoileus virginianus) but often is subclinical in cattle (Tabachnick 1996; Bitew et

al. 2013; Arun et al. 2014). Except ruminants, BT is also reported in carnivores. In a report, it was

observed that BTV was found in dogs that were given BTV contaminated vaccine (Wilbur et al. 1994;

Evermann, 2008).

Pakistan shares borders with India to the east, Iran to the southwest, China to the northeast and

Afghanistan to the west. In China, Afghanistan and Iran, the prevalence of BTV has been investigated by

several researchers using indirect or competitive ELISAs (Panda et al. 2011; Joardar et al. 2013;

Mozaffari et al. 2014; Ma. et al. 2017). A prevalence of group-specific anti-VP7 antibodies in sheep

(68.6%), goats (71.8%) and cattle (48.6%) were reported from Afghanistan (Ali et al. 2014). The

seroconversion rates for anti-VP7 antibodies in sheep (58.82%), goats (66.95%) and cattle (70.0%) were

reported from India (Panda et al. 2011; Joardar et al. 2013). Seroprevalence of BTV in goats (67.7%)

and sheep (46%) was studied in Iran (Mozaffari et al. 2014; Yavari et al. 2018), whilst a prevalence of

20.3% and 13.3% in sheep and yaks was reported from the Tibetan Plateau of China, respectively (Ma et

al. 2017). In Jilin province, China a recent study showed 17% prevalence in Sika deer (Liu et al. 2018).

In this context, one can assess potential spread and persistency of BTV in Pakistan, particularly in

scenarios when cross-border movement of animals and animal products is not unusual, such as that in

areas adjacent to Afghanistan and Iran (Raziq et al. 2010; Zahur et al. 2011). The open-access and free-

movement of the disease vector (Culicoides spp., mosquitoes and ticks) presents another potential source

for transboundary transmission of BTV in the region (Saegerman et al. 2008; Lam et al. 2011; Busch et

al. 2014).

Bluetongue virus infection is considered as endemic in Pakistan (Sarwar 1962; Akhtar et al.

1995; Sreenivasulu et al. 2003). High seropositivity (48.4%) was documented in 34 sheep flocks of

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Introduction

2

North West Frontier Province Pakistan (Akhtar et al. 1997). It was also found that seropositivity

was associated with abortion risk and distance travelled by flock during transhumant movements. A

recent study conducted in Khyber Pakhtunkhwa province showed a seroprevalence of 56.60% and

42.86% in sheep and goat respectively (Malik et al. 2018). In the same district, BTV serotypes 2, 6, 8

and 9 were detected (Malik et al. 2019).

However, currently in Pakistan, there is an absolute lack of surveillance, routine diagnosis or

vaccination for BTV. Given the evolutionary dynamics and global relevance of BTV as a trans-boundary

pathogen, data on the current disease status, epidemiology and prevalent serotypes are pre-requisites for

devising appropriate interventions for disease control strategies. To collect such data, we conducted a

surveillance study in areas of the Punjab and Balochistan province of Pakistan that were selected due to

their close proximity to the borders with Afghanistan, Iran and India. The outcomes of this study provide

novel details on the epidemiology of BTV in this previously unexplored geographical area that will

contribute to an enhanced understanding of this pathogen and the development of intervention strategies

to control it.

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3

CHAPTER 2

REVIEW OF LITERATURE

Bluetongue is an infection of small and large ruminants caused by Bluetongue virus. Virus is

transmitted by the bite of insect vector among domestic and wild ruminant species. Disease is found in

temperate, tropical and subtropical regions worldwide (Pandrangi 2012). Bluetongue is included as

notifiable disease according to the classification mentioned by OIE due to its economic importance (OIE

2008). Notifiable diseases are basically the diseases that have the potential of fast spread and

communicability. These diseases are usually important regarding socioeconomic impact and public

health concerns (Alexander et al. 1996).

2.1. Etiology: Bluetongue virus belongs to genus Orbivirus and family Reoviridae. It is non-developed virus

with icosahedral symmetry. Virus diameter is 90nm and has triple layered capsid. Genome consists of

double-stranded RNA that is segmented to 10 segments while each segment coding for different protein.

These segments code for seven structural and four non-structural proteins (VP1–VP7 and NS1–NS3,

NS3A respectively). Two proteins VP2 and VP5 form the outermost layer of the virus, (Roy and Noad

2006). Protein responsible for determining the virus serotype is VP2 because it is responsible for binding

to the receptors, haemagglutination and stimulating host-specific immune response. The second major

protein, VP5 is responsible for interaction with host cell endosomal membrane that is responsible for

playing a slight role in provoking antibody response against the virus (Roy 2008). The VP7 protein forms

the middle or inner capsid called core (Nason et al. 2004). This protein is the main determinant of

serotype specificity and the target for most of the serological tests for identification of antibody against

BTV. The other proteins VP1, VP3, VP4 and VP6 form the innermost layer (subcore), that plays role in

genome replication and transcription (Anthony et al. 2007; Schwartz-Cornil et al. 2008). The non-

structural proteins control many other important functions such as virus replication, maturation and

export of new virus progeny from the infected cell (Ratinier et al. 2011).

2.2. Historical Background: Bluetongue disease has been endemic in Africa for more than a hundred years especially in wild

ruminants in sub-Saharan regions (Verwoerd and Erasmus 2004). In South Africa, the first report came

to light in 18th century from the province “Cape” in an imported Marino sheep from Europe. The disease

was first referred to as “fever” or “epizootic catarrh” but after that name was mistakenly changed to

“malarial catarrhal fever” due to its similarity with the disease caused by intracorpuscular parasite

(Hutcheon 1881; Hutcheon 1902). Later the distinct symptoms and cyanotic tongues in infected sheep

lead to changing the name to bluetongue in 1905 (Spreull 1905).

The first epidemic outside the African continent occurred in the European continent amongst

sheep of Cyprus in 1943 with mortality reaching up to 70% in some sheep flocks. It is estimated that

about 2500 sheep died in that outbreak (Gambles 1949; MacLachlan 2004). Serotype 10 of BTV entered

Portugal and South West Spain between 1956-1960 causing deaths in almost 180,000 sheep (Lopez and

Botija 1958; Manso-Ribeiro and Noronha 1958; Gorman 1990).

In 1948 the virus was observed in Texas, USA (Hourrigan and Klingsporn 1975). European

serotypes (1, 2, 4, 5, 8, 9, 11, 16) were also observed from Florida, Mississippi, and Lousiana (Mellor et

al. 2009; Wilson et al. 2009). Reports of similar outbreaks were observed from other continents as in

Israel the disease was observed in 1949 (Komarov and Goldsmit 1951). Afterwards, the disease was also

observed Asia, Middle East and Southern Europe (MacLachlan 2004). In 1980s it was also observed in

South America (Clavijo et al. 2002). Bluetongue virus of serotype 20 in Australia was first isolated in the

Northern region of the country from Culicoides in 1976 (Kirkland 2004). Bluetongue has successively

been detected from all continents as Africa, the Americas, the Indian subcontinent, the Middle East,

northern Australia, China, South-East Asia and Europe. Antarctica is the only continent exempt of BTV

infection (Maclachlan et al. 2009).

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Review of Literature

4

Bluetongue in Greece was first reported in an island named Lesbos in 1979. In a period of just

three months sheep flocks suffered from morbidity (10-90%) and mortality (28%) in 17 communes with

29,300 sheep population and 68 flocks each harboring 5000 sheep (Vassalos 1980; Mastrogiannis et al.

1981; Nomikou et al. 2004), while goats and cattle did not show any clinical signs (Dragonas 1981). In

Turkey, BT was first reported in Aydin province in 1977 in west Anatolia (Yonguç et al. 1982). The

serotype 4 caused an outbreak covering western Provinces Antalya, Balikesir, Çanakkale, Manisa,

Kocaeli and Denizli on the Black Sea coast (Erturk et al. 2004). After 1998, bluetongue distribution was

changed dramatically spreading to North-western Europe and Scandinavia (Tollersrud 2009; Mellor et al.

2008). In late 1999 and early 2000 BT was first observed in Tunisia in north-eastern part (Hammami

2004). BTV-2 was reported in July-September 2000, from the eastern Bulgeria near Tunisian border

(Hammami 2004).

2.3. Bluetongue Virus Life Cycle: VP2 protein helps the virus for attachment to the cell surface. Virus internalization in the

endosome occurs with the help of clathrin-dependent endocytosis pathway (Forzan et al. 2007). From the

capsid layer the dissociation of VP2 protein takes place. The process of acidification inside endosome

stimulates the fusion of VP5 protein with the endosomal membrane (Forzan et al. 2004). This process

results in transport of active virus core protein into the cytoplasm after which replication takes place

inside cytoplasm. Transcription of all the ten segments to positive sense ssRNA takes place with help of

VP1 protein (Boyce et al. 2004). Capping of mRNAs is done with the help of transmethylase and

guanylyl transferase and enzymes produced from VP4 gene (Sutton et al. 2007). VP1 then constructs the

negative strand RNA using that template producing dsRNA (Boyce et al. 2004). The outer capsid protein

is constructed with VP2 and VP5 that surrounds the core particles of progeny viruses while entering to

the host cell cytoplasm. Transportation of virus particles occurs with the assistance of microtubules

(Bhattacharya et al. 2007). Finally, the cell membrane destabilizes and virions are released from the

infected cells. This process is mediated by the activity of NS3 protein (Han and Harty 2004).

2.4. Culicoides species:

Culicoides (C.) imicola is considered the major bluetongue disease vector especially in the parts

of Mediterranean areas that encountered the disease before 1998 such as Israel, the Greek islands of

Rhodes, Anatolian Turkey, Morocco, Portugal and southwestern Spain (Mellor and Wittmann 2002). The

vector was assumed to be very important in disease transmission in Mediterranean Basin. Despite the

movement of this vector to the north parts, BTV was also observed to the areas where either C. imicola

was absent or very rare (Sicily, Lazio and Tuscany in Italy) suggesting that some novel vector other than

C. imicola were responsible for the disease transmission (De Liberato et al. 2005; Purse et al. 2005). For

instance, C. obsoletus along with C. pulicaris and C. dewulfi were reported more frequently in non-

Imicola and BTV outbreak reported areas suggesting that may be these vectors were responsible for the

disease outbreaks (De Liberato et al. 2003; Torina et al. 2004; De Liberato et al. 2005). However, these

vectors were found to have lower susceptibility to the virus (Jennings and Mellor 1988). In Europe due to

increased global warming, these vectors gained much importance due to increase growth, increase in

feeding, egg production and oral susceptibility as described by (Mellor 2004).

2.5. Transmission by Biting Midges: Adult female haematophagous midges belonging to genus Culicoides (Diptera: Ceratopogonidae)

is mainly responsible for BTV transmission (Du Toit 1944). These midges feed blood to obtain protein to

produce eggs. Once virus is in the gut of insect vector, it infects the wall of posterior mid gut. After that

inside the body cavity, the progeny virus particles are released. From there, these particles move towards

the salivary glands. Second cycle of replication takes place in salivary glands. Once the virus is turned to

active virus it is freely available with the higher chances to get entry to the blood stream of susceptible

host in the process of blood feeding by the vector (Wilson and Mellor 2008). Depending upon the

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Review of Literature

5

temperature and virus serotype the time required from insect gut to salivary gland varies from a few days

to several weeks (Mullens et al. 1995; Wittmann et al. 2002).

There are 1400 known species of midges from which only about 30 species are BTV vectors

(Meiswinkel et al. 2008). The susceptibility of the vector to the infection by normal blood feeding is low

but selective breeding or/and artificial feeding techniques can encourage probability of infection. Even

low virus particle number is sufficient to cause an infection with a probability of almost 100%

(O'Connell 2002).

2.6. Factors contributing towards bluetongue transmission: The vector activity is dependent on the competent midges species, temperature and climatic

conditions and certain other factors.

2.6.1. Overwintering:

The BT outbreaks usually follow a pattern with re-appearing after some months and the term

used for this phenomenon is called overwintering (Yonguç et al. 1982; Taylor and Mellor 1994; Wilson

et al. 2007). During this period the virus either stays hidden in the host or the vector. Exact mechanism is

unknown. The average time of incubation of the virus inside the host cattle and sheep is only a few

weeks (Koumbati et al. 1999; Bonneau et al. 2002; Gubbins et al. 2008). But occasionally in some

animals can last up to 100 days (Sellers and Taylor 1980; MacLachlan et al. 1991). After the viremia

stage is over, the virus can come to the skin for over a month. The virus can cause a persistent infection

in γδ T-cells. Skin fibroblast cells have counter ligands for WC-1 surface specific molecules on γδ T-cells.

The interaction of γδ T-cells and skin fibroblast-cells can cause increased virus production and hence

increased chances of virus transmission at biting sites on animal’s skin (Takamatsu et al. 2003).

Most of the Culicoides species are capable of surviving at a temperature of 10 ˚C and some may

survive for upto 3 months (Lysyk and Danyk 2007) but at this temperature the viral replication is

effectively reduced (Mullens et al. 1995). Likewise, BTV serotype 8 infection reappeared in the spring

2007 when the average incubation period in the vector after the cessation of previous transmission period

(Wilson et al. 2007). Vertical transmission of viruses in vectors was not observed (Mellor 1990; Mellor

2000). However, sometimes the virus transmission can occur via mechanical vectors as ticks and

mosquitoes (Brown et al. 1992; Bouwknegt et al. 2010).

2.6.2. Temperature:

For the purpose of breeding and feeding these vectors necessitate warmness and humidity

between 28°C and 30°C for maximum activity. A cold temperature and dry hot weather can markedly

reduce vector numbers. So, climate is a major risk factor for BTV transmission (Purse et al. 2005). So for

BTV transmission the climate change plays vital role regarding the distribution and availability of

suitable habitat for the vectors to live in. for example, C. obsoletus adults like shady and leafy habitats

i.e., forest. C. imicola mostly inhabit the vegetation more inclined towards daylight (Conte et al. 2007). Animal dung, irrigation, agriculture practice, river floodings, storms and rise of see level are used by C.

pulicaris, C. newsteadi, C. salinarius, C. halophilus and other species like C. circumscriptus, and C.

maritimus as these provide the breeding areas for these vectors. However, the role of these midges in

disease transmission is unknown (Wilson and Mellor 2008).

2.6.3. Moisture availability:

Precipitation is important in terms of its role in determining the area and tenacity of the semi-

aquatic sites used for breeding of insect larvae, moist sites for adults in autumn/summer and protection

from desiccation (Murray 1991; Mellor et al. 2000). For example, C. imicola breeds in wet soil

especially rich in organic materials but on the other hand, the pupae are prone to flooding of these sites

(Braverman et al. 1974; Braverman 1978).

2.7. Transmission by Other Means: Some other arthropods also showed the presence of BTV such as sheep ked (Melophagus ovinus)

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Review of Literature

6

and in some tick species (Bouwknegt et al. 2010). However, these arthropods act as mechanical vectors

which play a minor role in disease establishment. BTV transmission can also occur from one animal to

another through placenta (Santman-Berends et al. 2010) and through semen (Kirkland et al. 2004). Live

attenuated vaccines of bluetongue virus or vaccines against other antigens contaminated with bluetongue

virus can transmit virus (Pandrangi 2012). Oral transmission can occur by direct ingestion of the

contaminated placental or foetal material (Menzies et al. 2008). Fetus can be infected from mother

through placenta. In most of the cases it causes abortion, still birth or viable offsprings with defected

nervous system (Osburn 1994; MacLachlan et al. 2000).

2.8. Intra-region transmission: Transmission of BTV from one area into another can occur in four ways, firstly, through the

movement of animal hosts or their products like semen and embryos, secondly, by the movement of

infected vector species. These vectors are carried by various living or inanimate means. The third way is

the active flight of infected vector. Fourth way is through the passive transport of infected vector by the

wind. This mode of transmission is responsible for long distance dissemination of virus (Saegerman et

al. 2008).

2.9. Mechanism of Pathogenesis: Infected midge transmits the bluetongue virus through the bite to the susceptible animal. From

the skin, virus is transported to the local lymph nodes via host dendritic cells (Hemati et al. 2009). Virus

then infects the endothelial linings of blood vessels, mononuclear phagocytic cells and dendritic cells

(Mahrt and Osburn 1986; Barratt-Boyes et al. 1992; Hemati et al. 2009). This results in necrosis, tissue

infarction and vascular thrombosis resulting in hemorrhage (Pini 1976; Mahrt and Osburn 1986;

Verwoerd and Erasmus 2004). Subsequently, the virus spreads to the other parts of the body via blood

circulation inducing primary viremia. From blood, virus is transmitted to secondary organs such as lungs,

spleen and lymph nodes (Sánchez-Cordón et al. 2010). In early viremia, virus associates itself with blood

components. On following stages, the virus particles attach and are sequestered in the invaginations of

erythrocyte membrane (MacLachlan 2004). The tissue damage results in the clinical manifestation of the

disease as malaise, serous or sometimes bloody discharge from nose, severe pulmonary and facial

oedema, ulcers in mouth and lameness (Verwoerd and Erasmus 2004; Maclachlan et al. 2009).

BTV infection causes cell apoptosis and necrosis (Mortola et al. 2004). p38MAP kinase is

activated that increases the vascular permeability. This initiates the production of TNFα, IFN-I, IL-1, IL-

6, IL-8, and cyclooxygenase-2 that cause the increased production of prostacyclin and thromboxane in

blood plasma resulting in excessive inflammatory response. This inflammatory response is responsible

for the development of clinical signs of the disease caused by damage to infected animal cells and tissues

(Drew et al. 2010).

The mortality rate in sheep is ranged between 2-30% (Verwoerd and Erasmus 2004) but

occasionally can be up to 70% (Gambles 1949). The recovery of the infected animals can be prolonged

and during that period animals can suffer reduced fertility, milk production and wool quality (Verwoerd

and Erasmus 2004; Maclachlan et al. 2009). These cause the direct economic loss due to mortality and

morbidity in susceptible and infected animals. Furthermore, the restrictions on animal trades

internationally and the germ plasm cells from the BT endemic countries cause significant indirect

economic losses (MacLachlan and Osburn 2006). The cost for surveillance, mass vaccination aming

susceptible animals, vector control strategies and treatment of infected animals also contributes to

economic loss (Wilson and Mellor 2008).

2.10. Host Range and Clinical Signs: Bluetongue virus infects ruminant species, including goat, sheep, cattle, deer and camelids. The

virus usually remains subclinical and asymptomatic in cattle and goats. Sheep and deer are more

susceptible to the disease with the development of clinical disease (Elbers et al. 2008). Clinical signs

developed in infected animals include fever, lameness, cattaral inflammation of lips and hooves,

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conjunctivitis, salivation and hyperaemia (Darpel et al. 2007). In severe cases, it can also cause abortion

in infected pregnant animals. Even after the disease recovery of the animal, it may exhibit different long-

lasting secondary effects. These include reduced milk production, less weight gain, wool breakage and

sometimes sterility in animal (Wilson and Mellor 2009).

The virus can cause an acute infection in an immunologically naïve population where BTV is not

usually prevalent. For instance, in Europe BTV infection of serotype 8 caused the clinical signs of

disease in both cattle and goat despite of the fact that the disease is usually sub-clinical in cattle. The

clinical signs observed in cattle included conjunctivitis, discharge from eyes, necrotic lesions and ulcers

and odema of lips and tongue and ocular discharge, oral mucosal congestion, ulcer formation and

necrosis on the lips and tongue (Dal Pozzo et al. 2009), while the signs observed in goats included facial

odema, odema of lips, discharge from nose and erythema of skin and udder (Dercksen et al. 2007).

Cattle usually plays the role of a virus amplifying host in BTV endemic areas (Barratt-Boyes et al.

1992).

2.11. Impact of Bluetongue on economy:

OIE classified BT as a ‘notifiable disease’ in 1960s. This decision lead to many restrictions on

animal trade and the germ plasm from BT endemic countries which had severe economic loss in BT

infected countries and overall international livestock industry which was more than the damage due to

the disease itself (Gibbs and Greiner 1994). Despite of these restrictions BT continues to emerge in BT

non-infected areas like observed in northern Europe (Scandinavia) and in south-eastern regions of US

and Australia (Purse et al. 2005; Maclachlan and Guthrie 2010).

2.12. Global Epidemiology and Distribution:

The global dissemination of BTV corresponds to the worldwide distribution of Culicoides vector

and changes in climatic. Climate change is a potential cause of this change especially in Europe. There

are twenty-seven BTV serotypes circulating worldwide (Maan et al. 2012; Jenckel et al. 2015) of which

twenty-two serotypes are endemic and co-circulate in southern Africa (Zulu and Venter 2014). Many

serotypes (BTV-1, 2, 4, 6, 8, 9, 11 and 16) entered Europe since 1998. BTV-10, 11, 13 and 17 are

present throughout the North America. Many serotypes as 1, 3, 5, 6, 9, 12, 14, 19, 22 and 24 have found

to exist in the southeastern parts of United States after 1998 (Maclachlan et al. 2013). The virus was

detected in 12 countries of Europe between 1998-2005 that caused death and culling of over I million

sheep (Purse et al. 2005).

In Australia, ten serotypes (1, 2, 3, 7, 9, 15, 16, 20, 21 and 23) of BTV were reported (Boyle et

al. 2012). BTV-6 was reported from Netherlands and Germany while, BTV-11 was identified from

Belgium in 2008 (Maclachlan and Guthrie 2010). In 2008, new serotype BTV-25 was isolated in

Switzerland. In Kuwait serotype 26 was identified in 2010 (Maan et al. 2012). Twenty-two different

serotypes of BTV were observed from all over India (Shafiq et al. 2013).

During 2003, a serological survey in cattle was performed in European Turkey and 23 provinces

in Anatolia that showed up to 90% of seroprevalence. BTV serotypes 4, 9 and 16 were observed

circulating in Anatolia, Turkey (see: Final Report EU project QLK2-CT-2000-00611). To device the

constrains on disease spread different strategies were applied such as disease surveillance, constraints on

animal whereabouts and live vaccination of animals with locally produced live attenuated vaccine

against serotype 4 (Mellor and Wittmann 2002).

A brief overview of epidemiological pattern and distribution of various serotypes in

chronological order is given in the table 2.1.

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Table 2.1: Epidemiological pattern and distribution of different serotypes of bluetongue virus

worldwide

Sr.

No.

Location Serotypes Year of

discovery

Reference

1 Portugal and South

West Spain

10 1956-1960 (Lopez and Botija 1958;

Manso-Ribeiro and Noronha

1958; Gorman 1990).

2 Australia 20 1976 (Kirkland 2004)

3 Europe 1, 2, 4, 6, 8, 9, 11, 16 1998 (Maclachlan et al. 2013)

4 Western and central

Europe

1, 6, 8, 11, 14, 25, 27 ---- (Jenckel et al. 2015;

Martinelle et al. 2016)

5 North America 10, 11, 13, 17 1998 (Maclachlan et al. 2013)

6 South-eastern United

States

1, 3, 5, 6, 9, 12, 14,

19, 22, 24

1998 (Maclachlan et al. 2013)

7 Australia 1, 2, 3, 7, 9, 15, 16,

20, 21, 23

---- (Boyle et al. 2012)

8 India 1–4, 6, 9, 10, 12, 16–

18, 21, 23

1967-

2014

(Rao et al. 2014)

9 Bulgaria 2 2000 (Hammami 2004)

10 Netherland and

Germany

6 2008 (Maclachlan and Guthrie

2010)

11 Belgium 11 2008 (Maclachlan and Guthrie

2010)

12 Switzerland 25 2008 (Maclachlan and Guthrie

2010)

13 Kuwait 26 2010 (Maan et al. 2012)

14 Anatolia, Turkey 4, 9, 16 ---- (Mellor and Wittmann 2002).

15 Western provinces,

Turkey

4 ---- (Erturk et al. 2004)

16 Corsica, France 27 2014 (Jenckel et al. 2014)

17 Morocco 1, 4, 8 2004-2015 (Cêtre-Sossah et al. 2011)

18 Pakistan 2, 6, 8, 9 2019 (Malik et al. 2019)

2.13. Molecular and Serological Diagnosis:

For antigen identification, both serological and molecular detection approach can be used. For

serological analysis, sandwich enzyme linked immunosorbent assay (ELISA) is used. Molecular assays

include serotype specific reverse transcriptase Polymerase chain reaction (RT-PCR), Serogroup-specific

RT-PCR, RNA polyacrylamide gel electrophoresis (RNA-PAGE), Real time quantitative PCR,

Restriction enzyme profile analysis (REPA), Sequencing and phylogenetic analysis, Molecular probes

for BTV identification (Bitew et al. 2013).

For antibody detection variety of serological tests are used. These are haemagglutination-

inhibition (HI), complement fixation test (CF), agar gel immunodiffusion (AGID), competitive enzyme-

linked immunosorbent assay (c-ELISA) and serotype-specific serum neutralization (SN) test (Khezri and

Azimi 2013). Competitive ELISA is higher in sensitivity and specificity than other serological tests that

exclude the chances of cross-reactivity at serogroup-level. It is rapid, reliable and ideally suitable test for

serotype confirmation (Yilmaz et al. 2012).

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2.14. Prevention and Control:

No specific therapy is available for the treatment of infected animals with BTV. The control

strategies include restriction on animal trade and movement, establishment of vector control by usage of

insecticides, slaughtering of infected animals and vaccination of vulnerable animals. Prophylaxis is most

effective in controlling bluetongue infection. Both the inactivated and live attenuated vaccines are

currently available and used (Bhanuprakash et al. 2009). Other vaccines are also being developed such

as recombinant vector vaccines and sub-unit vaccines etc. The development of new vaccines is necessary

because it rules out the risk of virus transmission and development of rapid onset of immune response

(Sperlova and Zendulkova 2011).

2.15. Statement of problem: Scarce information is available about seroprevalence and association of risk factors with

bluetongue virus in Pakistan. To establish an overall prevalence status of BTV in different livestock rich

areas of the country and later determine if the prevalence has any potential association with a range of

categorical variables or not was the main purpose of the study. Hence the study has been designed with

the following main objectives:

i. To determine the serum-based surveillance of antibodies against bluetongue virus in

different species of animals to fill up the paucity of data in wide geographical area of

Punjab and Balochistan, Pakistan

ii. To evaluate the association of potential risk factor with the absence or presence of

antibodies against bluetongue virus in different animals

iii. To perform molecular surveillance of BTV with the help of RT-PCR to establish the

understanding about genotype of BTV

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CHAPTER 3

MATERIALS AND METHODS

3.1. Research funding statement:

The research activity was conducted under Higher Education Commission of Pakistan funded

project named “sero-epidemiology and molecular characterization of Bluetongue virus in Pakistan”

(grant no. 20-3307/NRPU/R&D/HEC/13/674) and DTRA (Defense threat reduction agency), USA

funded project named, “spatial ecology and epidemiology of soil borne human and animal bacterial

pathogens and its public health significance in Pakistan” (USA funded project (Project ID: HDTRA1-10-

1-0080) respectively.

3.2. Work station:

All the experimental studies and pratical laboratory work was done in molecular virology lab

(room# 104), Quality Operations Laboratories, UVAS, Lahore.

3.3. Experimental design:

Livestock is the major sub-sector that contributes 56% to country’s agriculture sector and 11% to

overall economy (Rehman et al. 2017). Punjab and Balochistan provinces were selected in the study. The

basis for selection of these provinces was to represent the seroprevalence status in economically most

important but representative areas that could also represent the two different animal breeding cultures.

Punjab is the most populous province contributing the major part of gross domestic product (GDP) of the

country and on the other hand Balochistan is the largest province in terms of area. Punjab represents the

in-house and manger feeding culture but on the other hand Balochistan represents totally nomadic

breeding. Keeping this in mind, a different sampling strategy was employed for both the provinces.

3.3.1. Sampling strategy for Punjab:

The used sera (n = 1312) and data were collected from select districts of Punjab province in

2013-2015 under an international collaborative research project related to epidemiology of soil-borne

zoonotic pathogens in Pakistan (Project ID: HDTRA1-10-1-0080). In multi-stage random sampling,

1312 animals (476 goats, 326 sheep, 234 cattle and 276 buffaloes) were selected from small select

villages where animal numbers in livestock barns ranged from 8-41. At first stage nine districts of the

province were selected through purposive sampling approach. The select districts named Faisalabad,

Chakwal, Attock, Gujranwala, Lahore, Dera Ghazi Khan, Sahiwal, Sargodha and Sheikhupura the main

rearing areas for livestock in Punjab, represent traditional agro-livestock mixed production system in the

country, with higher number of human and animal diseases incidence annually (Directorate of Animal

and Human Health, Punjab). In second stage, a sample size of villages (357) was estimated out of total

villages (4883) assuming prevalence (50%), confidence interval (95%), intra-class coefficient (0.4), and

margin of error (5%). According to probability proportional to size sampling, ten percent villages were

selected for valid sampling. Third stage involved convenient blood sampling of animals according to

prior history of soil-borne pathogen detection, farmer’s consent, presence of adult animals at livestock

barn, available resources and logistics. Given the frequent contact among animals while sharing water-

canal, grazing fields and nature of disease transmission being vector-borne, a village was considered as a

single large herd. In case, owner was not available or unwilling to cooperate, the next nearest neighbor

was approached for sampling. For better response from resident farms, the sampling was carried out in

close liaison with Livestock and Dairy Development Department of Punjab province and private

veterinary practitioners, whichever available for a particular region. A summary of number of samples

and herds from each district is given in Table 4.1, while different sampling locations are presented in

Figure 4.1.

3.3.2. Sampling strategy for Balochistan:

We used a multi-stage sampling technique for collection of blood from February to May in 2016.

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Four districts; Kech, Killa Saifullah, Mastung and Quetta were selected for sampling. Quetta, Killa

Saifullah and Mastung are adjacent to Afghanistan whilst Kech shares a boundary with Iran and, to some

extent, coastal region via district Gawadar. According to a livestock census completed in 2015, the total

number of herds in these districts was 4768 (Livestock and Dairy Development Department,

Balochistan). Based on this, assuming 50% disease prevalence, 95% CI and 10% precision, the number

of herds required for sampling was estimated to be 97 using a proportional allocation method of stratified

sampling [ni= n×(Ni/N)] as described in Figure 4.2 (Pandey & Verma, 2008). A brief summary of the

number of herds and animals selected for blood collection from each district is given in Table 4.6.

Collection of blood involved convenient sampling of 10% of animals in each herd depending upon

secure accessibility and consent of the herd-owner. Collectively, 475 sheep and 401 goat samples were

collected (total n= 876).

3.4. Ethical approval: Prior approval of sampling and processing was obtained from the “Ethical Review Committee for

the Use of Laboratory Animals (ERCULA)” vide letter no. DR/69, dated: 17-1-2016 of UVAS, Lahore.

3.5. Sample collection: Approximately 5ml of blood samples from different species including goat, sheep, cattle and

buffalo were collected aseptically from the jugular vein directly and blood was added into the gel clot

activator tubes (VACUETTE®, VWR, Radnor, Pennsylvania, USA) placed on ice followed by

transportation at 4 ºC. A questionnaire was also filled at the sample collection site including the

information such as age, sex, breed, history of abortion, BTV vaccination, herd size, presence of midges

and use of acaricides etc. This information was used for further risk factor-based analysis in the study. A

copy of questionnaire is also attached at the end of this section.

3.6. Serum analysis through cELISA: Serum was separated from the blood samples contained in Gel/clot activator tube by

centrifugation for 10-15 minutes at 1300-1800xg. These serum samples were collected into separate

tubes and until further use was kept at -80 ºC. These samples were thawed and analyzed through

Competitive ELISA against BTV VP7 antigen for the detection of anti-VP7 antibodies. ID.VET kit

(Grabels, FRANCE) was used for this purpose. This kit (ID SCREEN® BLUETONGUE

COMPETITION) was suitable for sheep, goat, cattle, buffalo serum or plasma. The kit components were,

microplate coated with recombinant VP7 antigen (12 strips of 8 micro wells each), Anti-VP7-HRP-

conjugate (10X concentrated), Positive and Negative control, Wash concentrate (20X), Dilution buffer 2,

Substrate solution (TMB), Stop solution (H2SO4, 0.5 M). As per manufacturer’s instructions the protocol

was followed.

Anti-VP7-HRP-conjugate solution (1X) was prepared by diluting the Anti-VP7-HRP-conjugate

(10X) to 1/10 in Dilution Buffer 2. Washing solution (1X) was prepared by diluting the Wash

Concentrate (20X) to 1/20 in Distilled water. Dilution Buffer 2 (50 µl) was added in each well of

microtiter plate coated with recombinant VP7 protein of virus. Positive Control (50 µl) was added in well

A1 and 50 µl of negative Control was added in well B1. Serum samples to be tested were added 50 µl in

remaining wells. Plate was incubated at 21°C (±5 ºC) for 45 minutes ± 4 min. Then 100 µl of Anti-VP7-

conjugate (1X) was added in each well of plate. Plate was incubated for 30 minutes ±3 min at 21°C (±5

ºC). To wash each well three times 300 µl of washing solution (1X). Then in each well substrate solution

(100 µl) was added. Plate was incubated in dark at 21°C (±5 °C) for 15 minutes ±2 min. To stop the

reaction, 100 µl stop solution was added in each well. Optical density (OD) values were observed and

recorded at 450 nm by iMark™ Microplate Absorbance Reader (BIO-RAD) at serology lab in University

Diagnostic Laboratory of UVAS. For each sample competition percentage (S/N %) was calculated by

(S/N % = ODsample /ODNC × 100). Samples presenting S/N % greater than or equal to 40% were

considered negative, less than 40% were considered positive.

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Figure 3.1: The cELISA plate showing positive and negative results of samples along with positive

control (PC) and negative control (NC)

3.7. Risk factor analysis of BTV:

The data obtained by cELISA and the information obtained through the questionnaire was

compiled in Microsoft Excel file and a univariate analysis was carried out in IBM SPSS statistics for

Windows version 21.0. (IBM SPSS Inc, Armonk, NY). In our study we used Chi-square test and

multivariable logistic regression model to analyze the association between different risk factors and

seroprevalence status of bluetongue disease. Risk factors or predictor variables are independent variables

that can predict the outcome variables. In our study the outcome variable was seropositive status in

animals. The predictor variables and outcome variables were both categorical. When both the predictor

variables and outcome are categorical then the suitable statistical tool is Chi-square test and/or regression

model. The logistic regression relates the natural logarithm of the odds ratio to linear combination of the

predictor variables (Rizzo et al. 2014). The odds ratio is a statistic that quantifies the strength of

association between two events. The methodology was followed as done previously for similar studies

for estimation of risk factors and the association with the disease seropositivity such as Shabbir et al.

2016. Association between seropositivity and categorical predictor variables was analyzed by Pearson’s

chi-square (χ2) test as mentioned by (Shabbir et al. 2016). Fisher’s Exact test was used as an alternate

method when any assumption of the chi-square test was violated. All variables with p-value ≤ 0.2 (two-

sided) in a univariate analysis were included in a mixed-effects logistic regression model with villages as

random effect. The mixed model was used to account for clustering effect as BTV is a vector borne

disease and frequent contact amongst animals within village is not unexpected. The regression model

included serological status of animals (positive versus negative) as dependent variable. The independent

fixed effects variables in the model were age, sex, breed, parity, presence of vector, history of abortion,

and herd size depending on outcome of univariate analysis. For each explanatory variable, category with

lowest prevalence was used as a reference. Any variable showing an association of ≤ 0.05 in regression

analysis carried out in R-software version 3.4.4 (lme4 package) was considered as statistically significant

for the disease. The sampling sites and the study outcomes in terms of seropositive or seronegative herd

and the distribution of BTV serotypes were mapped with Q GIS version 2.18.14.

3.8. Pooled samples from Balochistan:

A total of 41 herds were screened for BTV serotyping. The selected herds were comprised of 11

from Killa Saifullah, 8 from Mastung, 9 from Quetta and 13 from Kech district. From each herd, a pool

of 5-8 sera was processed for RNA extraction using QIAamp® DSP Virus Spin Kit (QIAGEN, Hilden,

Germany). The samples were pooled irrespective of their species (sheep or goat) as the two species are

reared in close proximity within the study sites and are equally susceptible to the virus.

PC

NC

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3.9. Pooled samples from Punjab: A pool of 6-8 sera of each animal species from seropositive and seronegative herds was

processed in equal numbers for genome extraction and real-time PCR based genotyping. The pooled

samples (n = 30) included sheep (n = 9), goat (n = 11), cattle (n = 4) and buffalo (n = 6).

3.10. Genome extraction and quantification:

Total RNA was extracted from the serum samples using QIAamp viral RNA extraction kit

(QIAGEN, Hilden, Germany). An amount of 300 µl of serum sample was taken in vial to which 5.60 µl

RNA carrier was added and vortexed for 2-3 min. Then 560 µl a viral lysis buffer (AVL) was added and

incubated for 10 minutes at room temperature. Thereafter, chilled ethanol was added followed by

centrifugation of the all contents at 8000 rpm for 1 minute. After centrifugation, the column was washed

with wash buffer 1 (AW1) and wash buffer 2 (AW2) respectively. Finally, elusion buffer was added and

tube was centrifuged to collect the fluid having extracted RNA. Quantification was done through Nano-

drop sample retention system (Thermo Scientific™). An amount of 0.1 µl of extracted fluid was placed

on pedestal and concentration of genome was measured spectrophotometrically and value was given on

monitor screen connected with Nano-drop.

3.11. Real-time based genotyping:

The RNA samples were subjected to genome-based genotyping with the help of LSI VetMAXTM

European BTV Typing Real Time PCR kit (Thermo-Fisher Scientific-LSI, Lissieu, France) that is

capable of detection of eight serotypes individually (1, 2, 4, 6, 8, 9, 11 and 16) simultaneously from one

sample aliquot in eight different reaction tubes. The same well was used for the detection of both the

virus RNA as well as IPC (internal positive control). The detection of IPC in the sample indicates both

the efficiency of the extraction as well as the absence of the inhibitors in the sample. Eight external

positive controls (EPC BTVEUG(X) corresponding to eight different serotypes consisted of already

extracted genome of respective serotype were used to be denatured and then amplified in RT-PCR in the

same way as the samples.

3.12. RNA denaturation and amplification:

A total of 40µl of each RNA sample was used for one analysis requiring 5µl for eight serotypes.

5µl of RNA sample was added to each well in eight-well PCR strip. The strip was covered with the

caps and briefly spun the samples to settle them in mini centrifuge (MyFuge; Benchmark Scientific,

USA). The sample strip was then put into the Applied Biosystems™ MiniAmp™ Thermal Cycler

(Applied Biosystems, Foster City, California, USA) and the samples were heated for 3 minutes at 94 ºC

for denaturation of genome. After denaturation, the samples were placed on the ice block until further

use. Thawed all the eight tubes of Mix-BTVEUG(X) on ice block, where X corresponds to different

serotypes. Tubes were gently homogenized with the help of Digital mini vortex mixer

(VWR international, Germany) for about 10 seconds then were briefly centrifuged to settle down the

contents at bottom. Added 20µl of the Mix-BTVEUG(X) to each well of the eight-well PCR strip

containing denatured RNA samples. Positive amplification control, negative extraction control (NCS)

and negative amplification controls (NC) were also run along with the samples. For positive

amplification control, 5µl of denatured EPC BTVEUG(X) were used instead of samples. NCS

consisted of the contents used in the RNA extraction but the sample was replaced with RNA-free water

that undergoes the same treatment for extraction followed by RT-PCR as the sample. NC consists of

the amplification mix but the sample is replaced with RNA-free water. The strip wells were covered

with the lids and were placed in CFX96TM Real-time PCR Detection System (BioRad, California, USA)

and set up as follows; step 1: 45 ºC for 10 minutes (1x), step 2: 95 ºC for 10 minutes (1x), step 3: 95 ºC

for 15 seconds followed by 60 ºC for 45 seconds (40x). The fluorescence detection was measured at 60

ºC and 45 seconds part in step 3. The detectors for BTV(X) detections were set for FAMTM reporter

(non-fluorescent quencher) while for IPC, were set for VIC® reporter (non-fluorescent quencher) in

thermocycler with ROXTM as passive reference. The kit has been reported to be highly sensitive and

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specific with high efficiency (95-100%). Determined by a series of dilution (usually 10-fold), the

efficiency of an assay corresponds to constant increase in target amplicon per cycle during exponential

phase. An ideal assay should have an efficiency value ranging from 90-100%, where one can have

confidence on primer and probe specificity, reaction condition and pipetting error etc. The assay was

performed, and Ct-values were recorded for interpretation as per manufacturer’s instruction keeping the threshold Ct-value to 40.

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15

CHAPTER 4

RESULTS

4.1. Seroprevalence of BTV in Punjab:

A total of 1,312 samples were processed for detection of group-specific (VP7 protein) antibodies

against BTV from nine districts of Punjab province. Out of 117 total herds sampled, 71 were found

positive for group-specific antibodies against BTV giving an overall herd prevalence of 60.68% (95%

CI= 51.20-69.45) in the selected geographical area of the province. A maximum herd-wise

seroprevalence was found in DG Khan, Sahiwal, Chakwal, Attock i.e, 100% while least seroprevalence

was detected in district Sheikhupura i.e, 30.0% (Table. 4.1). An overall prevalence of 28.81% (95% CI=

26.39-31.36) was observed in both small and large ruminants combined. The level of seroconversion was

more in goats [40.76% (n= 194/476, 95% CI= 36.33-45.34)] followed by buffalo [29.34% (n= 81/276,

95% CI= 24.12-35.16)], sheep [18.40% (n= 60/326, 95% CI= 14.43-23.13)], and cattle [17.94% (n=

42/234, 95% CI= 13.38-23.60)]. The seroprevalence varied with respect to species and districts. A

district-wise summary of seroprevalence in each animal species is given in Table. 4.2.

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Table. 4.1. Herd-wise seroprevalence and serotype distribution of BTV among different districts of Punjab

No. Districts Herds Samples Seroprevalence Serotype distribution

Positive % prevalence 95% CI Sheep Goat Cattle Buffalo

1 Faisalabad 25 252 15 60.00 38.89 - 78.19 6 11 8 8

2 Sahiwal 9 65 9 100.0 62.88 - 100.0 8 - - -

3 Chakwal 4 20 4 100.0 39.58-100.0 8 2, 8, 16

4 Sargodha 8 56 3 37.50 10.24 - 74.11 - - - -

5 Attock 4 29 4 100.0 39.58-100.0 4 8

6 Gujranwala 15 157 11 73.33 44.83 - 91.08 8

7 Sheikhupura 30 524 9 30.00 15.41 - 49.56 - - - -

8 Lahore 20 199 14 70.00 45.67 - 87.16 2, 6, 8 8

9 Dera Ghazi

Khan 2 10 2 100.0 19.79 - 100.0 - - - -

Total 117 1312 71 60.68 51.20 - 69.45 -- -- -- --

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Table. 4.2. Animal species-wise distribution and seroprevalence of sheep, goat, cattle and buffalo in

Punjab province

District Type of

animal Animals tested

Animals

tested positive

Animal level

Prevalence % 95% CI

Attock*

Cattle 3 3 100.0 31.00 - 100.0

Sheep 5 5 100.0 46.29 - 100.0

Goat 21 21 100.0 80.76 - 100.0

Chakwal

Cattle 5 5 100.0 46.29 - 100.0

Buffalo 2 2 100.0 19.79 - 100.0

Sheep 4 2 50.00 09.19 - 90.81

Goat 9 7 77.78 40.19 - 96.05

Dera Ghazi

Khan*

Sheep 1 0 00.00 00.00

Goat 9 8 88.89 50.67 - 99.42

Faisalabad

Cattle 54 10 18.52 09.70 - 31.87

Buffalo 59 28 47.46 34.48 - 60.77

Sheep 64 21 32.81 21.90 - 45.80

Goat 75 41 54.67 42.81 - 66.05

Gujaranwala

Cattle 18 1 5.56 00.29 - 29.38

Buffalo 56 19 33.93 22.16 - 47.91

Sheep 34 7 20.59 09.34 - 38.41

Goat 49 16 32.65 20.36 - 47.65

Lahore

Cattle 48 6 12.50 05.19 - 25.94

Buffalo 59 12 20.34 11.39 - 33.20

Sheep 17 5 29.41 11.38 - 55.95

Goat 75 22 29.33 19.67 - 41.13

Sahiwal* Sheep 32 8 25.00 12.13 - 43.75

Goat 33 32 96.97 82.49 - 99.84

Sargodha Cattle 12 7 58.33 28.60 - 83.50

Buffalo 3 0 00.00 00.00

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Sheep 6 1 16.67 00.88 - 63.52

Goat 35 10 28.57 15.24 - 46.52

Sheikhupura

Cattle 94 10 10.64 05.50 - 19.12

Buffalo 97 20 20.62 13.34 - 30.28

Sheep 163 11 06.75 03.59 - 12.06

Goat 170 37 21.76 15.96 - 28.87

* The districts from which no sample was available for one or two species.

4.2. Risk factors analysis in Punjab: Outcome of association between seropositivity and risk factors were determined by univariate

analysis for small (Table 4.3) and large ruminants (Table 4.4), whereas the outcome of risk factors as

definite disease determinants is given in Table 4.5. Following univariate analysis for small ruminants,

though an initial association was observed for presence of vector in sheep, and herd size and age in goat

(Table 4.3); the odds of seroconversion were found insignificant when further analyzed in multivariate

logistic regression (Table 4.5). For cattle, the odds of seroconversion were five times more in animals

with a history of abortion (OR= 5.89, 95% CI= 1.80-19.27, p=0.003). Age, breed and presence of vector,

that initially showed an association with virus exposure (Table 4.4), were found to be insignificant as

disease determinants (Table 4.5). On the other hand, for buffaloes, the odds of seroconversion were more

for Nili breed (OR= 2.06, 95% CI= 1.19-3.58, p = 0.010), animals with history of abortion (OR= 3.95,

95% CI= 1.33-11.69, p = 0.013) and those that had an exposure to vectors (OR= 2.04, 95% CI=1.16-

3.59, p = 0.013) (Table 4.5). A village to village clustering effect was estimated by ICC value through

mixed-effects logistic regression model (Table 4.5). Such a congregation effect within a cluster is used to

group study farms/herds with similar production system and thereby, excluding any discriminatory effect

of a particular geographical area or farm conditions comparable to any other rearing and production

system in a country. A zero intra-class correlation coefficient (ICC) was observed for buffalo that

showed a lack of clustering effect between villages or an absolute lack of correlation between the

responses within the cluster. On the contrary, a highest clustering effect or ICC value was observed for

sheep (0.547), followed by goat (0.452) and cattle (0.248) and, hence a higher reliability of responses

within the cluster could be expected.

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Table. 4.3. Univariate analysis of anti-VP7 antibodies in small ruminants and their potential

association to categorical variables

Animal Variable Levels ELISA

positive

Total

tested

Seropositivity

(%) χ2 df p-value

Sheep

Age Young 33 195 16.92

0.710 1 0.400 Adult 27 131 20.61

Sex Female 45 260 17.31

1.030 1 0.310 Male 15 66 22.73

Breed

Buchi 19 76 25.00

2.963 2 0.227 Kajli 15 97 15.46

Lohi 26 153 16.99

Parity Nulliparous 47 259 18.15

0.056 1 0.813 Multiparous 13 67 19.40

Presence

of vector

No 18 77 23.38 1.659 1 0.198

Yes 42 249 16.87

History of

abortion

No 56 309 18.12 0.314 1 0.575

Yes 4 17 23.53

Herd/flock

size

<20 46 256 17.97 0.151 1 0.698

>20 14 70 20.00

Goats

Age Young 99 278 35.60

7.326 1 0.007 Adult 95 198 48.00

Sex Female 160 397 40.30

0.204 1 0.651 Male 34 79 43.00

Breeds

Beetal 68 141 48.20

5.497 4 0.240 Kajli 90 233 38.60

Nachi 25 71 35.20

Teddy 11 31 36.70

Parity Nulliparous 149 378 39.40

1.362 1 0.243 Multiparous 45 98 45.90

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Presence

of vector

No 136 340 40.00 0.282 1 0.595

Yes 58 136 42.60

History of

abortion

No 188 463 40.60 0.161 1 0.688

Yes 6 13 46.20

Herd/flock

size

<20 108 291 37.10 4.115 1 0.043

>20 86 185 46.50

* Presence of vector in sheep while, herd size and age in goat were found to be significant in goat in univariate analysis.

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Table. 4.4. Univariate analysis of anti-VP7 antibodies in large ruminants and their potential

association to categorical variables

Animal Variable Levels ELISA

positive

Total

tested

Seropositivity

(%) χ2 df p-value

Buffalo

Age Young 22 68 32.35

0.393 1 0.531 Adult 59 208 28.37

Sex Female 67 214 31.31

1.766 1 0.184 Male 14 62 22.58

Breed Nili 38 97 39.18

6.966 1 0.008 Nili-Ravi 43 179 24.02

Parity Nulliparous 34 128 26.56

0.893 1 0.345 Multiparous 47 148 31.76

Presence

of vector

No 26 123 21.14 7.212 1 0.007

Yes 55 153 35.95

History of

abortion

No 71 260 27.31 9.003 1 0.003

Yes 10 16 62.50

Herd/flock

size

<20 63 207 30.43 0.472 1 0.492

>20 18 69 26.09

Cattle

Age Young 18 131 13.74

3.579 1 0.059 Adult 24 103 23.30

Sex Female 32 184 17.39

0.182 1 0.670 Male 10 50 20.00

Breed

Cholistani 16 65 24.62

6.077 4 0.193

Dajal 6 31 19.35

Rajan 6 33 18.18

Red Sindhi 7 31 22.58

Sahiwal 7 74 09.46

Parity Nulliparous 30 171 17.54

0.071 1 0.790 Multiparous 12 63 19.05

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Presence

of vector

No 25 116 21.55 2.028 1 0.154

Yes 17 118 14.41

History of

abortion

No 33 215 15.35 12.15 1 0.000

Yes 9 61 14.75

*Breed, history of abortion, presence of vector and gender in buffalo while breed, history of abortion, presence of vector and age were found to be

significant in univariate analysis.

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Table. 4.5. Multivariable mixed effects logistic regression model (p < 0.05) for BTV serological

status amongst ruminants originating from traditional farms/villages in Punjab province (2013-15)

Animal Variable OR 95% CI Std. Error p-value

Buffalo

Fixed Parts

(Intercept) -- 00.16 00.08 - 00.33 00.06 <0.001

Breed (Nili) -- 02.06 01.19 - 03.58 00.58 0.010

History of

abortion(Yes) -- 03.95 01.33 -11.69 02.19 0.013

Presence of vector

(Yes) -- 02.04 01.16 - 03.59 00.59 0.013

Sex (Female) -- 01.24 00.62 - 02.48 00.44 0.537

Random Parts

Variance 00.00 -- -- -- --

ICC 00.00 -- -- -- --

Cattle

Fixed Parts

(Intercept) -- 00.06 00.02 - 0.18 00.03 <0.001

Breed (Cholistani) -- 03.43 00.89 - 13.25 02.37 0.073

Breed (Dajal) -- 02.27 00.45 - 11.45 01.88 0.319

Breed (Rajan) -- 02.20 00.45 - 10.92 01.80 0.333

Breed (Red Sindhi) -- 03.92 00.62 - 24.95 03.70 0.148

History of abortion

(Yes) -- 05.89 01.80 - 19.27 03.56 0.003

Presence of vector

(No) -- 01.29 00.46 - 03.65 00.68 0.629

Age group (Adult) -- 00.90 00.29 - 02.81 00.52 0.858

Random Parts

Variance 1.086 -- -- -- --

ICC 0.248 -- -- -- --

Sheep Fixed Parts

(Intercept) -- 00.12 00.04 - 00.38 00.07 <0.001

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Presence of

vector(Yes) -- 01.26 00.42 - 03.75 00.70 0.681

Random Parts

Variance 3.977

ICC 0.547

Goat

Fixed Parts

(Intercept) -- 00.54 00.30 - 00.98 00.16 0.043

Flock size (>20) -- 01.11 00.51 - 02.40 00.44 0.790

Age group(Adult) -- 01.12 00.54 - 02.30 00.41 0.759

Random Parts

Variance 2.712 -- -- -- --

ICC 0.452 -- -- -- --

4.3. Genotyping of BTV in Punjab:

Of the total samples processed for BTV genome detection, only 43.33% were found positive. The

prevalence of BTV serotype specific genome was detected in 6 of 9 districts only (Table 4.1). Serotypes

2, 4, 6, 8 and 11 in small ruminants, while 2, 8 and 16 were found in large ruminants. Interestingly,

serotype 8 was found exclusively in all positive districts and animal species indicating it to be the main

serotype of BTV prevailing in the province. In addition, serotype 4 was found exclusively in sheep,

serotype 11 was only found in goat while serotype 16 was found in cattle alone. The serotype distribution

in different districts of Punjab along with the sampling sites is presented in Figure 4.1.

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Figure. 4.1: Geographical distribution pattern of sites for blood sampling and identified serotypes

across selected districts of Punjab province, Pakistan

4.4. Seroprevalence of BTV in Balochistan:

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We processed a total of 876 sera of small ruminants originating from 4 selected districts of

Balochistan province (Quetta, Killa Saifullah, Mastung and Kech). An overall seroprevalance of 47.26%

(n = 414/876, 95% CI = 43.92-50.63%) was observed. Interestingly, none of the study herds (n=97) were

found to be seronegative. The prevalence of anti-VP7 antibodies was highest in Quetta district (49.6%,

95% CI = 43.89-55.46%) followed by Killa Saifullah (49.3%, 95% CI = 37.70-61.03%), Mastung

(47.7%, 95% CI = 40.72-54.89%), and Kech (44.0%, 95% CI = 38.33-49.82%) as shown in Table 4.6.

The frequency of seroconversion was higher in goats 50.87 % (210/475, 95% CI = 45.99-55.73%) than

sheep 44.21% (204/401, 95% CI = 39.81-48.70%) but statistically no difference (OR= 0.765) was

observed between both prevalence values. The prevalence of anti-VP7 antibodies in sheep was highest in

Mastung district (63%, 95% CI = 52.71-72.27%), followed by Killa Saifullah (49.33%, 95% CI = 37.70-

61.03%), Quetta (38.0 %, 95% CI = 30.31-46.31%) and Kech (35.33 %, 95% CI = 27.83-43.60%). In

contrast, Quetta district was found to have the highest seroconversion rate for goats (61.33 %, 95% CI =

53.01-69.06%) followed by Kech (52.66 %, 95% CI = 44.39-60.82%) and Mastung 32.67 % (95% CI

=23.86-43.82%), respectively.

Table 4.6. Summary of the number of sheep and goats sampled, the prevalence of anti-VP7

antibodies and the BTV serotypes present in the Kech, Mastung, Killa Saifullah and Quetta

districts of Balochistan province

No. District Total

herds

Herds

sampled

No. of Sera

samples

Prevalence

Sheep Goat Sheep Goat Anti-VP7

antibodies

Serotype

1 Kech 1352 13 17 150 150 44.00% 2

2 Mastung 823 12 9 100 101 47.76% 8

3 Killa

Saifullah

1137 13 0* 75 0 49.33% 8

4 Quetta 1456 21 12 150 150 49.60% 8, 9

Total 4768 59 38 475 401 47.26% - *= Due to limitation of accessibility and cooperation by respective herd-owner, no goat sample from Killa Saifullah could be obtained.

4.5. Risk factors analysis in Balochistan:

Chi-square based univariate analysis for seroconversion of goats revealed significant associations

(p<0.20) with breed (χ2 = 16.84, p= 0.01), parity (χ2 = 23.66, p = 0.00), presence of vector (χ2 = 2.63, p =

0.10) and herd size (χ2 = 8.67, p = 0.02). However, other risk factors such as age, gender and history of

abortion did not show any association with seroconversion (Table 4.7). For sheep, only breed (χ2= 13.80,

p= 0.01), parity (χ2= 53.40, p = 0.00) and history of abortion (χ2= 5.30, p= 0.02) showed significant

association for seroconversion (Table 4.8). Because use of acaricide was not practiced by any of the

herd-owners involved in the study, it was excluded from the risk factor analysis. Variables that showed

significant association in univariate analysis (p < 0.20) were further analyzed in a multivariate logistic

regression model analyses conducted separately for sheep (Table 4.9) and goats (Table 4.10). For goats,

the odds for seroconversion were greater in herds with the presence of vector (OR = 1.73, 95% CI =

1.06-2.85), for animals that were multi-parous [no parity (OR = 2.32, 95 % CI = 1.21-4.46), 2nd parity

(OR= 6.74, 95% CI = 2.73-16.65) and 3rd parity (OR = 5.16, 95% CI =1.46-18.25)], and for animals of

specific breeds [Jatan (OR = 3.92, 95% CI = 1.46-10.54) and Kajli (OR = 2.24, 95% CI = 1.01-5.00)].

Similarly, for sheep, the odds for seroconversion were found to be associated with parity and animal

breed. The seropositivity was found to be 6 times more in multi-parous animals (OR= 6.94, 95% CI =

3.10-15.53), while it was found to be 2 times more in animals of the Mengali breed (OR = 2.69, 95% CI

= 1.20- 6.03).

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Table 4.7. Univariate analysis of anti-VP7 antibodies in goats and their potential association to

categorical variables

Risk factors Categories Animals

tested

Seropositive

animals 95% CI χ2 p-value

Age <2 years

≥2 years

124

80

49.8%

52.6%

43.44-56.16%

44.40-60.72%

0.30 0.58

Sex Female

Male

124

80

51.2%

50.3%

44.77-57.67%

42.32-58.29%

0.03 0.85

Breed Barbari

Beetal

Jatan

Kajli

Kamori

Khursani

Lehri

75

29

30

26

10

25

9

48.4%

44.6%

75.0%

55.3%

58.8%

39.1%

69.2%

40.34-56.52%

32.47-57.41%

58.48-86.75%

40.24-69.54%

33.45-80.57%

27.36-52.08%

38.88-89.64%

16.84 0.01

Parity 0

1

2

3

140

18

35

11

50.5%

29.5%

74.5%

68.8%

44.51-56.56%

18.87-42.74%

59.36-85.58%

41.48-87.87%

23.66 0.00

Presence of

vector

No

Yes

85

119

46.4%

54.6%

39.11-53.94%

47.73-61.29%

2.63 0.10

History of

abortion

No

Yes

201

3

50.9%

50.0%

45.85-55.91%

13.95-86.05%

0.00 0.96

Herd size <100

≥100

99

105

44.0%

59.7%

37.45-50.75%

51.99-66.90%

8.67 0.02

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Table 4.8. Univariate analysis of anti-VP7 antibodies in sheep and their potential association to

categorical variables

Risk factors Categories Animals tested Seropositive

animals 95% CI χ2 p-value

Age ˂2 years

≥2 years

138

72

45.5%

41.9%

76.91-88.76%

34.47-49.64%

0.60 0.43

Sex Female

Male

117

93

45.9%

42.3%

39.68-52.21%

35.71-49.10%

0.62 0.43

Breed

Balochi

Bibrik

Harnai

Mengali

Rakhshani

Shinwari

58

4

43

53

14

38

37.9%

66.7%

50.6%

55.2%

29.8%

43.2%

30.30-46.14%

24.11-94.00%

39.60-61.52%

44.74-65.26%

17.79-45.08%

32.80-54.16%

13.80 0.01

Parity

0

1

2

3

151

10

39

10

44.8%

14.5%

83.0%

45.5%

39.44-50.30%

7.54-25.50%

68.65-91.86%

25.07-67.32%

53.40 0.00

Presence of

vector

No

Yes

107

103

44.4%

44.0%

38.06-50.92%

37.60-50.64%

0.00 0.93

History of

abortion

No

Yes

202

8

43.4%

80.0%

38.90-48.09%

44.22-96.46%

5.30 0.02

Herd size <100

≥100

122

88

44.0%

44.4%

38.14-50.11%

37.45-51.65%

0.00 0.93

Table 4.9. Multivariate logistic regression model determining the relationship between categorical

predictors and seropositivity in goats

Risk Factors B S.E Wald df Sig. Exp (B) 95% CI for Exp (B)

Lower Upper

Breed (Khursani)*

Breed (Barbari)

Breed (Beetal)

Breed (Jatan)

Breed (Kajli)

Breed (Kamori)

Breed (Lehri)

.519

-.094

1.367

.811

.854

.811

.320

.415

.504

.408

.592

.671

14.667

2.632

.051

7.359

3.942

2.082

1.460

6

1

1

1

1

1

1

.023

.105

.822

.007

.047

.149

.227

1.680

.911

3.925

2.249

2.350

2.249

.898

.404

1.461

1.010

.736

.604

3.143

2.055

10.542

5.006

7.497

8.379

Parity (1)*

Parity (0)

Parity (2)

Parity (3)

.844

1.909

1.642

.332

.461

.644

18.931

6.447

17.161

6.501

3

1

1

1

.000

.011

.000

.011

2.326

6.749

5.166

1.212

2.735

1.462

4.462

16.655

18.251

Presence of vector (Yes) .554 .253 4.796 1 .029 1.739 1.060 2.855

Herd (≥ 100)

Constant

.924

-2.008

.239

.461

14.976

18.991

1

1

.000

.000

2.518

.134 1.578 4.021 B= Unstandardized regression coefficient, S. E= Standard error, df= Degree of freedom, Sig.= p-value, EXP(B)= Odd ratio. *Khusrani breed, 1st parity, absence of vector and <100 Herd size was taken as reference.

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Table 4.10. Multivariate logistic regression model determining the relationship between categorical

predictors and seropositivity in sheep

Risk Factors B S.E Wald df Sig. Exp (B) 95% CI for Exp (B)

Lower Upper

Breed (Rakhshani) *

Breed (Balochi)

Breed (Bibrik)

Breed (Harnai)

Breed (Mengali)

Breed (Shinwari)

.311

1.737

.669

.991

.475

.394

.963

.426

.412

.418

10.512

.626

3.251

2.457

5.797

1.294

5

1

1

1

1

1

.062

.429

.071

.117

.016

.255

1.365

5.679

1.951

2.694

1.608

.631

.860

.846

1.202

.709

2.952

37.514

4.501

6.035

3.647

Parity (0) *

Parity (1)

Parity (2)

Parity (3)

-1.384

1.938

.043

.368

.411

.458

40.635

14.115

22.237

.009

3

1

1

1

.000

.000

.000

.926

.251

6.943

1.044

.122

3.103

.425

.516

15.536

2.562

Constant -.786 .357 4.839 1 .028 .456 B= Unstandardized regression coefficient, S.E= Standard error, df= Degree of freedom, Sig.= p-value, EXP(B)= Odd ratio.*Rakhshani breed, zero parity was taken as reference.

4.6. Genotyping of BTV in Balochistan: Pooled samples of sheep and goat from 41 herds were subjected to RNA extraction and qPCR-

based genotyping. Overall 14 of 41 (34.14%) herds had BTV genomes corresponding to serotypes 2, 8

and 9. Serotype 8 was the most frequent (26.82%, 95% CI = 14.75-43.21%) followed by an equal

occurrence of serotype 2 and 9 (7.31%, 95% CI= 1.91-21.01%). Although definitive statements would

require completion of large scale genome-based identification studies involving larger numbers of herds

and samples, we observed a distinct pattern of BTV distribution in the studied districts. Serotype 8 was

detected in 45.45% of herds in Killa Saifullah (5/11), 37.5% of herds in Mastung (3/8) and 33.3% of

herds in Quetta (3/9). In contrast serotype 9 was only detected in herds from Quetta (33.3% - 3/9) as a

co-infection with serotype 8 and serotype 2 was detected exclusively in herds from Kech (23.07% - 3/13)

as shown in Figure 4.2.

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Figure. 4.2: Geographical distribution pattern of sites for blood sampling and identified serotypes

across selected districts of Balochistan province, Pakistan

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31

CHAPTER 5

DISCUSSION

This is the first large-scale study on prevalence status of BTV group-specific antibodies and its

circulating serotypes in Pakistan. Different assays such as agar gel immunodiffusion (AGID),

haemagglutination-inhibition (HI), complement fixation test (CFT), and serotype-specific serum

neutralization (SN) test have been employed for serological evidence of BTV previously (Boulanger et

al. 1967; Van der Walt 1980; Herniman et al. 1983; Koumbati et al. 1999). However, each of these

assays have certain limitations including cross-reactivity among closely related serotypes, laborious and

time-consuming protocols, sub-optimal sensitivity and specificity and subjective interpretation which

could lead to inter-laboratory and inter-researcher variability (OIE, 2014; Khezri and Azimi 2013). In

contrast, cELISA provides rapid, accurate and precise assessment of exposure to BTV (Yilmaz et al.

2012). The serological marker (VP7) is considered sero-group specific for all BTV serotypes and,

therefore, is being used extensively for routine disease surveillance and diagnostics (van Regenmortel et

al. 2000; de Diego et al. 2011) has previously been validated by others (Vandenbussche et al. 2008).

Since it involves a competition between test serum and monoclonal antibodies, potential sero-group level

cross-reactivity by other arboviruses is excluded (Afshar 1994; Yilmaz et al. 2012). Similarly, a

commercially available RT-PCR protocol has previously been validated with a high efficiency and

absolute lack of cross-reactivity to accurately identify each of eight different serotypes in animal sera

(Thermo-Fisher Scientific-LSI, Lissieu, France).

Although varying, we observed seroconversion in all studied animal species. From Punjab, A

greater proportion of small ruminants, 31.67% (254/802, 95% CI= 28.48-35.03) were seropositive than

large ruminants, 24.12% (123/510, 95% CI= 20.52-28.12). The rate of seroconversion was higher in

goats, 40.76% (194/476, 95% CI= 36.33-45.34) followed by buffalo, 29.34% (81/276, 95% CI= 24.12-

35.16), sheep, 18.40% (60/326. 95% CI= 14.43-23.13) and cattle, 17.94% (42/234, 95% CI= 13.38-

23.60). While in Balochistan, we found a higher seroconversion rate in goats 50.87 % (204/401, 95% CI

= 45.99-55.73%) than sheep 44.21% (210/475, 95% CI = 39.81-48.70%).

Previously a seropositivity of 48.4% in sheep flocks has been documented from KPK province

(Akhtar et al. 1997). Similar observations for BTV have also been reported from the neighboring

countries. For instance, a prevalence of 85.3% in goat and 74.4% in sheep has been reported from Iran

(Oryan et al. 2014). Another study from the same country evidenced a seroprevalence of 74.2% and

72.9% in goat and sheep, respectively (Mohammadi et al. 2012). Joardar et al. (2013) reported a higher

rate of seropositivity in sheep (58.82 %) than goat (31.79 %) from North-Eastern state of India. A study

originating from West-Bengal (India) demonstrated a higher occurrence of seropositivity in goat

(66.95%), followed by sheep (57.66%) and cattle (52%) (Panda et al. 2011). Another study from India

(northern Kerala) revealed a prevalence of 16%, 7.5% and 6.9% in sheep, goat and cattle, respectively

(Arun et al. 2014). Gaire et al. (2016) reported a seropositivity of 29.3% in dairy cattle in Nepal (Gaire et

al. 2016). Taken together, one can speculate that all the animals are equally susceptible to BTV. There

may be differences in clinical form of disease where severity could be more often observed in one specie

than others. For example, sheep is considered more vulnerable to infection and exhibit more severe form

of infection even at same level of viremia in goat (Koumbati et al. 1999). Similarly, seroprevalence is

also reported in other animal species like camel in Iran (100%) (Mahdevi 2006), Saudi Arabia (25.7%)

(Yousef et al. 2012) and Gujrat, India (19.3%) (Chandel et al. 2003). Previously it was known that dogs

can get infected with BTV by ingestion of infected meat but a study provided evidence of dogs being

naturally infected (21%) with the virus (Oura and El Harrak 2011). Wild animals in Spain were also

found to be seropositive such as Red deer (21.9%), Fallow deer (35.4%), Roe deer (5.1%), Mouflon

(13.2%) and Aoudad (25%) (Ruiz-Fons et al. 2008).

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In fact, the incidence rate and severity of clinical disease depend upon various factors that

include, but are not limited to levels of herd immunity, virulence of circulating BTV strains and the

inherent genetic resistance of different animals (Caporale et al. 2014). Occurrence of BTV is considered

to be subclinical in cattle (Arun et al. 2014), however it could serve as a source of infection through virus

transmission to and from vectors to susceptible animals (Schwartz-Cornil et al. 2008). The outcomes

revealed a higher ICC value for sheep followed by goat, cattle and buffalo. Considering cluster sampling

and subsequent analysis, therefore, one can speculate a higher consistency for disease occurrence in

small ruminants than large ruminants. Hence, to better elucidate clustering effect, a smaller sampling size

for small ruminants than large ruminants may be considered enough to predict a reliable disease status in

the region.

In Punjab, The Nili breed of buffalo was found at a greater risk of BTV infection than any other

study breed of small and large ruminants. While Balochistan, the frequency of seroconversion was

observed to vary between different breeds of animals; the frequency of BTV serconversion was highest

in Jatan and Kajli breeds of goat and the Mengali breed of sheep. A little or no impact of breed

susceptibility to infection has previously been reported for small ruminants (Caporale et al. 2014).

Similarly, in the Mediterranean area (Sardinian and Italian mixed breed) and Northern Europe (Dorset

poll breed) animal breed was not found to be a major factor in susceptibility to BTV seroconversion

(Koumbati et al. 1999). In another study both indigenous and exotic cattle breeds were found to be

equally susceptible in a previous study (Adam et al. 2014). Although a significant difference in

seroconversion was observed for type of animal species (Tibetan sheep vs yak), rate of difference in

seroconversion within breeds of sheep and yak was found negligible (Ma et al. 2017).

History of abortion was observed to be associated with an increased seropositivity in cattle and

buffalo in Punjab. In previous studies it was found that, some serotypes like serotype 8 can also cause

abortion in cattle as observed in outbreak in Netherlands in 2007, that caused abortions and brain defects

in calves (Wouda et al. 2008). The same serotype was also observed in cattle in our study. However, we

are uncertain that the main cause of infection was previous BTV infection as it rarely causes abortion in

cattle. Secondly, we did not isolate the virus in aborted fetuses. This area is needed to be explored further

in future studies. A similar relationship between abortion and seropositvity has previously been

documented (Akhtar et al. 1997) and (Yavri et al. 2018) in sheep, whereas in Balochistan, abortion and

seropositivity status was insignificant similar to Gaire et al. (2016) and Sabaghan et al. (2014), who

documented a lack of any association between abortion and BTV seropositivity (Sabaghan et al. 2014;

Gaire et al. 2016).

The presence of vector was also found to be a significant factor for BTV infection in buffalo.

Similarly, we also found this susceptibility in goats of Balochistan. It is quite obvious for being a vector-

borne disease of small and large ruminants where a remarkable association with presence of disease

vector in animal vicinity has been reported (Bouwknegt et al. 2010).

Though we did not find an association between animal age with disease seroconversion in the

animals of both provinces, adult animals are reported to be more seropositive than the younger ones

(Radostits et al. 2007; Adam et al. 2014; Khair et al. 2014) simply due to fact that chances of exposure

increase with age. A potential reason for almost equal susceptibility in all age groups may be that all

animals were living in close vicinity corresponding to a recent observation made by Ma et al. (2017),

who also reported lack of association between seroconversion and season, age, gender or region.

Numerous factors such as warm temperature, humid environment, transhumant animal

movement, introduction of animal in a herd, rainfall and insect spray are reported to have a positive and

negative association for animal seropositivity (Akhtar et al. 1997; Becker et al. 2003; Adam et al. 2014;

Khair et al. 2014; Gao et al. 2017). Since collection of information pertaining to these factors require

periodic farm visits or access to farmers, environmental variables, nationwide disease surveillance

records, implementation of disease control strategy in terms of use of acaricide, we were not able to

correlate study outcome with these factors and, therefore owing to these limitations, study outcomes and

its subjective interpretation should be considered accordingly.

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Discussion

33

Because determining the prevalent serotypes in a particular geographical setting provides an

important insight towards disease epidemiology, its subsequent diagnostics and control strategies, we

evidenced real-time PCR based prevalence of BTV serotype for the first time in Pakistan. More than one

serotype was detected from different animal species where serotype 8 was the most dominant in all of the

studied animals across the positive districts. Serotypes 6, 8 and 11 were found in Faisalabad, 2, 8, 16 in

Chakwal, 2, 8 and 16 in Lahore, while serotype 4 and 8 were found in Attock. Only one serotype, 8 was

found in both Sahiwal and Gujranwala while in three districts Sargodha, Sheikhupura and Dera Ghazi

Khan, no serotype was observed. Three different serotypes (2, 8 and 9) were observed in Balochistan in

which serotype 8 being the most frequent and seen in multiple districts, serotype 9 seen only in Quetta

district and only in a subset of the samples that were positive for serotype 8, and serotype 2 only seen in

Kech district where neither serotype 8 or 9 were evident.

The occurrence of more than one serotype has been documented worldwide. Notably, in many

instances of such ‘mixed’ infections, the clinical severity of particular strains shows marked variability.

For instance, serotypes 1, 6, 8, 11, 14, 25, and 27 were detected in Western and Central Europe (Jenckel

et al. 2015; Martinelle et al. 2016) and of these, serotype 8 was found to be the most devastating,

causing the death of 5-10% of the national flock in Belgium alone (Saegerman et al. 2011), while, a

negligible clinical impact was reported from France (Sailleau et al. 2017). Similary, whilst serotypes 1, 4

and 8 were identified in Morocco between 2004 and 2015, severe clinical disease was ascribed to

serotypes 1 and 4 rather than 8 (Cêtre-Sossah et al. 2011). A similar pattern of disease severity for

serotype 1 and 4 was observed in Central and Western Europe in 2006 (Saegerman et al. 2011).

Serotypes 1, 2, 3, 4, 6 and 10 are considered highly pathogenic that have potential to cause severe

epidemics (Dungu et al. 2004). Genetic shift and drift are responsible for the genetic diversity in

different serotype and also within the same serotype in different regions (OIE, 2007). An outbreak in

Italy was reported to be caused by serotype 2 and 9 that caused 11% mortality (Savini et al. 2005). A

total of 23 serotypes have been reported from India (Sairaju et al. 2013). Despite non-virulent nature of

serotype 21 worldwide, clinical cases were observed in goats (Susmitha et al. 2012; Rao et al. 2016).

Taken together, an apparent variation in clinical nature of disease induced either by same and/or different

serotypes within same geographical area could be ascribed to segmented BTV genome where

reassortment among different serotypes could yield emergence of novel serotypes with varying clinical

outcome (Shafiq et al. 2013; Caporale et al. 2014). Although we observed an increased prevalence of

disease, clinical cases of BT are not much frequently reported in study areas unlike other diseases with

similar clinical symptoms such as peste des petits ruminants virus. There could be many reasons that

includes a relatively less-virulent nature of prevailing serotypes such as observed in Australia where

BTV serotypes are either non-virulent or less virulent in nature leading to absence of clinical disease in

the country (Kirkland et al. 2004), lack of routine diagnostics and disease surveillance, lack of

differential diagnosis with other closely related diseases like vesicular stomatitis, goat pox, sheep pox,

foot and mouth disease and peste des petits.

There were several study limitations. For seroprevalence study in Punjab, we used archived sera

collected previously in another project. Therefore, sample number was not uniform and/or representative

of animal population across select districts and a very little information was available to correlate with

respect to BTV infection. Also we were not able to discriminate titers suggestive of either current or past

infection because of lack of proper animal tracking system in the country where resampling from the

same animal is not possible in another time. Sensitivity and specificity of cELISA has previously been

evaluated for cattle and sheep sera only (Vandenbussche et al. 2008); nonetheless, we also used buffalo

and goat sera. Test validity has neither been assessed for buffalo and goat sera previously anywhere nor

available validity results are pertaining to Pakistan in particular; above reference study was conducted in

Belgium. This is important because disease outbreaks have been reported from Europe and Belgium with

BTV serotype 8 whereas, despite abundant prevalence in all animal species studied, there has been no

such evidence of clinical disease in Pakistan so far. Though needs further investigation in subject matter,

together it indicates potential variability in disease susceptibility to indigenous breed and thus, variation

in prevalence rate may be expected despite using previously published sensitivity and specificity of

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Discussion

34

cELISA assay. Considering real-time PCR, we were able to process only a limited number of pooled sera

within available budget using a commercially available kit. Because the kit offers detection of 8 different

serotypes in a sample when same genome is processed separately in 8 different reaction tubes, pooling of

sera originating from a herd may not affect presence of more than one prevalent serotype in that

particular sample.

Conclusion:

Bluetongue is prevalent in both Punjab and Balochistan. Seroprevalence and serotype distribution

is different in different districts irrespective of animal species. The disease was also found to be

associated with certain risk factors that can be potential determinants of disease seropositivity. In Punjab,

buffalo of Nili breed, history of abortion, presence of vector in the rearing area were potential risk factors

for seropositive status. In cattle, history of abortion was the potential risk factor. Serotypes detected in

Punjab were serotype 2, 4, 6, 8, 11 and 16. In Balochistan the potential risk factors in goats were breed

(Jatan and Kajli), parity and presence of vector. In sheep, mengali breed and parity were found to be a

risk factor. Serotype 2, 8 and 9 were the serotypes detected in the country.

Suggestion:

Bluetongue virus is considered subclinical in Pakistan. In the present study different serotypes

were detected in both the provinces. It is quite possible that these serotypes are sub-clinical in the

country despite of the fact that some of these serotypes such as serotype 4 and show severe clinical

disease in animals especially in goat. On contrary, the higher seroprevalence status of BTV in all the

species suggests that there is possible misdiagnosis or under-diagnosis of this disease due to its clinical

signs similarity with other viral diseases. So in future, this aspect should be considered in field diagnosis.

Secondly there is complete absence of surveillance, vaccination, vector control and treatment strategies

at government level. Higher seroprevalence status and prevailing serotypes in the country suggest that

there is need to implement these strategies at mass level. Thirdly, as we detected virus serotypes from

serum, there is need to detect and isolate active virus from field so that we can use it as control for

further studies making detection of other than these 8 European serotypes possible.

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35

CHAPTER 6

SUMMARY

Bluetongue is an infectious disease of ruminants. The causative agent is Bluetongue virus that

has double stranded RNA genome. Culicoides biting midges act as a vector for virus transmission. There

are 27 bluetongue virus serotypes present worldwide. Bluetongue disease mainly affects sheep, goat,

cattle, and camelids species. The current status of bluetongue virus existence is unknown in Pakistan.

Competitive ELISA is proven to be a rapid and more specific test for the identification of antibodies to

bluetongue virus. Molecular surveillance further confirms the results of serology and provides

opportunity for further analysis. The hypothesis of the study was; “Different serotypes of bluetongue

virus are prevalent in Pakistan and their prevalence is associated with certain risk factors”.

Blood samples were collected from selected districts of Punjab and Balochistan. In Punjab, 1312

samples of sheep (326), goat (476), cattle (234) and buffalo (276) were collected from Faisalabad,

Chakwal, Attock, Gujranwala, Lahore, Dera Ghazi Khan, Sahiwal, Sargodha and Sheikhupura. While, in

Balochistan, total 876 blood samples were collected from sheep (n = 475) and goats (n= 401) from Kech,

Killa Saifullah, Mastung and Quetta. Serum separated from blood collected in Gel/Clot activator tubes

was tested by Competitive ELISA by kit method (ID SCREEN® BLUETONGUE COMPETITION).

Both the seropositive and seronegative herds were selected from each district from Punjab and

Balochistan. Herd-wise sample distribution from each herd is given in the table 4.1 and 4.6 from Punjab

and Balochistan respectively. This selection was performed irrespective of the animal species assuming

the fact that each animal species was equally likely to be infected. Later, these samples were subjected to

RNA extraction using RNA extraction kit (QIAamp viral RNA extraction kit). Those RNA samples were

then used for real-time based genomic surveillance for serotype detection using LSI VetMAXTM

European BTV Typing Real-Time PCR kit.

The association between seropositive/seronegative status and categorical variables (risk factors) was

determined with the help of Pearson’s Chi-square (χ2) test. At first the p-value was set to ≤ 0.2 in

univariate analysis to include more of the possible risk factors in the study. After that the multivariate

logistic regression model with a backward LR method of selection was used to estimate the predictive

values of individual risk factors keeping the p-value at 0.05.

In Punjab, the overall prevalence was observed to be 28.81% in small and large ruminants. The

highest prevalence found in the province was in goats (40.75%) followed by buffalo (29.34%), sheep

(18.40%) and cattle (17.94%). The risk factor analysis showed that buffalo of Nili breed and found with

presence of vector were at higher risk of being seropositive for BTV. Both cattle and buffalo with history

of abortion were found to be much likely carrying the disease. Real-time based serotyping showed the

detection of serotypes 4, 6 and 8 in sheep, 2, 6, 8 and 11 in goats, 2, 8 and 16 in buffalo and only 8 in

cattle. As for as Balochistan is concerned, the overall seroprevalence of BTV was found to be 47.26% in

sheep and goats. Seroprevalence was more in goats (50.87%) than sheep (44.21%). Parity and breed

(Jatan and Kajli breed in goats, Mengali breed in sheep) were found to be risk factors for disease

occurrence. The presence of vector was also observed to be a risk factor in goats. Serotype 8 was again

the most prevalent serotype in Balochistan followed by an equal prevalence of serotypes 2 and 9.

This study contributed to appraise the overall status of BTV prevalence in Pakistan in association

to potential risk factors. Molecular surveillance helped to assess the country’s status regarding prevailing

serotypes and also to estimate its contribution in circulation of those prevailing serotypes in comparison

to nearby countries.

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36

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