Models of highly pathogenic avian influenza epidemics in commercial poultry flocks in Nigeria and Ghana

State-scale and premises-scale gravity models for the spread of highly pathogenic avian influenza (H5N1) in Nigeria and Ghana were used to provide a basis for risk maps for future epidemics and to compare and rank plausible culling and vaccination strategies for control. Maximum likelihood methods were used to fit the models to the 2006-2007 outbreaks. The sensitivity and specificity of the state-scale model-generated probabilities that any given state would be involved in an epidemic were each 57?%. The premises-based model indicated that reactive, countrywide vaccination strategies, in which the order in which flocks are vaccinated was strictly determined by known risk factors for infection, were more effective in reducing the final size of the epidemic and the epidemic impact than vaccinating flocks at random or ring vaccination. The model suggests that an introduction of highly pathogenic avian influenza (H5N1) into Ghana had a high chance (84?%) of causing a major outbreak. That this did not happen was most probably a result of the very swift Ghanaian response to news of the first introductions.     

Global occurrence and spread of highly pathogenic avian influenza virus of the subtype H5N1

Highly pathogenic avian influenza viruses of the subtype H5N1 (HPAIV-H5N1) have circulated continuously in Asia, Europe, and Africa since 2003. Investigations on the environmental preference and global spread processes of the virus are needed. We compiled 16 environmental variables to assess their correlation with HPAIV-H5N1 occurrences by using a niche-based model called Maxent. We found the virus had the strongest positive association with the human footprint index, as well as the presence of certain types of wetlands and mild temperature (10-30 C). Outbreaks of HPAIV-H5N1 in poultry or wild birds were also more frequent in certain major habitat types (e.g., tropical and subtropical moist broadleaf forests, temperate broadleaf and mixed forests, and flooded grasslands and savannas) and ecoregions. We conducted trend surface analysis to generate the travelling wave of the virus' global spread from 2003 to 2009, which indicated that high mountains or plateaus did not affect the spread speed and direction.     

Detection of potentially novel paramyxovirus and coronavirus viral RNA in bats and rats in the Mekong Delta region of southern Viet Nam

Bats and rodents are being increasingly recognized as reservoirs of emerging zoonotic viruses. Various studies have investigated bat viruses in tropical regions, but to date there are no data regarding viruses with zoonotic potential that circulate in bat and rat populations in Viet Nam. To address this paucity of data, we sampled three bat farms and three wet markets trading in rat meat in the Mekong Delta region of southern Viet Nam. Faecal and urine samples were screened for the presence of RNA from paramyxoviruses, coronaviruses and filoviruses. Paramyxovirus RNA was detected in 4 of 248 (1%) and 11 of 222 (4.9%) bat faecal and urine samples, respectively. Coronavirus RNA was detected in 55 of 248 (22%) of bat faecal samples; filovirus RNA was not detected in any of the bat samples. Further, coronavirus RNA was detected in 12 of 270 (4.4%) of rat faecal samples; all samples tested negative for paramyxovirus. Phylogenetic analysis revealed that the bat paramyxoviruses and bat and rat coronaviruses were related to viruses circulating in bat and rodent populations globally, but showed no cross‐species mixing of viruses between bat and rat populations within Viet Nam. Our study shows that potentially novel variants of paramyxoviruses and coronaviruses commonly circulate in bat and rat populations in Viet Nam. Further characterization of the viruses and additional human and animal surveillance is required to evaluate the likelihood of viral spillover and to assess whether these viruses pose a risk to human health.     

山西亚群H5N1亚型HPAIV对鸭及鸭胚的继代感染研究

2006年从山西省分离获得的H5N1亚型禽流感病毒(AIV)曾引起免疫鸡群的大量死亡,与我国之前分离的病毒抗原差异性较大,称为"山西鸡型"抗原变异株。本研究应用该亚群代表毒株CK/SX/2/06(H5N1),研究该病毒对SPF鸭和鸭胚的致病性,并通过病毒在鸭和鸭胚内的连续传代,探讨该亚群病毒在鸭和鸭胚中的进化规律。结果表明,病毒对3周龄鸭呈低致病性,在各脏器中的复制能力较弱;鸭感染病毒后无明显临床症状,排毒水平较低并且不能感染同居鸭。病毒在3周龄鸭和10日龄鸭胚中分别继代感染3代和5代后,对3周龄鸭仍呈低致病性且HA基因未发生氨基酸位点变化。病毒不能致死3周龄鸭和1日龄雏鸭,但能致死10日龄～23日龄鸭胚,而且对鸭胚的致病性随着鸭胚日龄的增长逐渐减弱,致死鸭胚时间从对10日龄鸭胚24h致死到对23日龄鸭胚72h致死直至对25日龄鸭胚只感染但不致死。病毒对鸭呈低致病性且在鸭群传播中保持着基因水平和致病性上的相对稳定,对不同日龄鸭胚、1日龄和3周龄鸭致病性的不同表现,与目前存在于我国的其他亚群H5N1HPAIV对鸭致病性和进化特点上呈现出明显的差异,并对家禽养殖业存在威胁。     

The spread of highly pathogenic avian influenza (subtype H5N1) clades in Bangladesh, 2010 and 2011

Since the global spread of highly pathogenic avian influenza H5N1 during 2005–2006, control programs have been successfully implemented in most affected countries. HPAI H5N1 was first reported in Bangladesh in 2007, and since then 546 outbreaks have been reported to the OIE. The disease has apparently become endemic in Bangladesh. Spatio-temporal information on 177 outbreaks of HPAI H5N1 occurring between February 2010 and April 2011 in Bangladesh, and 37 of these outbreaks in which isolated H5N1 viruses were phylogenetically characterized to clade, were analyzed.     

Logistical study in Hyogo prefecture on disposal of poultry carcasses infected with highly pathogenic avian influenza virus to prevent infection spreading to other flocks

Establishment of a disposal plan for carcasses in advance is important for prevention of epidemics. A disposal plan for contaminated goods such as poultry carcasses infected with highly pathogenic avian influenza (HPAI) virus was studied in Hyogo Prefecture, Japan. We investigated all poultry farms with over 1,000 birds for their locations, species and numbers of birds, structure and size of poultry facilities and land spaces of the farms. Moreover, we judged whether they could dispose of all the carcasses at their farms. In 2005, 5.5 million layers and 2.7 million broilers were being kept. If HPAI had broken out, 44.0% of the farmers could bury all the carcasses, and 65.6% could compost them at their farms. However, 23.4% could not dispose of them except by burning them at incineration facilities. We decided to choose burning first for rapid disposal as long as the virus was not a pandemic type.     

Characterisation of gastrointestinal helminths and their impact in commercial small-scale chicken flocks in the Mekong Delta of Vietnam

Tropical Animal Health and Production - Commercial small-scale chicken farms managed as all-in-all-out but operating with low standards of hygiene/biosecurity are increasingly common in Vietnam....     

The role of backyard poultry flocks in the epidemic of highly pathogenic avian influenza virus (H7N7) in the Netherlands in 2003

In recent years, outbreaks of highly pathogenic avian influenza (HPAI) viruses have caused the death of millions of poultry and of more than 200 humans worldwide. A proper understanding of the transmission dynamics and risk factors for epidemic spread of these viruses is key to devising effective control strategies. The aim of this study was to quantify the epidemiological contributions of backyard flocks using data from the H7N7 HPAI epidemic in the Netherlands in 2003. A dataset was constructed in which flocks in the affected area were classified as susceptible (S), infected but not yet infectious (E), infectious (I), and removed (R). The analyses were based on a two-type SEIR epidemic model, with the two types representing commercial poultry farms and backyard poultry flocks. The analyses were aimed at estimation of the susceptibility (g) and infectiousness (f) of backyard flocks relative to commercial farms. The results show that backyard flocks were considerably less susceptible to infection than commercial farms (), while estimates of the relative infectiousness of backyard flocks varied widely (). Our results indicate that, from an epidemiological perspective, backyard flocks played a marginal role in the outbreak of highly pathogenic avian influenza in the Netherlands in 2003.     

Experimental infection of chickens, ducks and quails with the highly pathogenic H5N1 avian influenza virus

Highly pathogenic avian influenza viruses (HPAIV) of the H5N1 subtype have spread since 2003 in poultry and wild birds in Asia, Europe and Africa. In Korea, the highly pathogenic H5N1 avian influenza outbreaks took place in 2003/2004, 2006/2007 and 2008. As the 2006/2007 isolates differ phylogenetically from the 2003/2004 isolates, we assessed the clinical responses of chickens, ducks and quails to intranasal inoculation of the 2006/2007 index case virus, A/chicken/Korea/IS/06. All the chickens and quails died on 3 days and 3-6 days post-inoculation (DPI), respectively, whilst the ducks only showed signs of mild depression. The uninoculated chickens and quails placed soon after with the inoculated flock died on 5.3 and 7.5 DPI, respectively. Both oropharyngeal and cloacal swabs were taken for all three species during various time intervals after inoculation. It was found that oropharyngeal swabs showed higher viral titers than in cloacal swabs applicable to all three avian species. The chickens and quails shed the virus until they died (up to 3 to 6 days after inoculation, respectively) whilst the ducks shed the virus on 2-4 DPI. The postmortem tissues collected from the chickens and quails on day 3 and days 4-5 and from clinically normal ducks that were euthanized on day 4 contained the virus. However, the ducks had significantly lower viral titers than the chickens or quails. Thus, the three avian species varied significantly in their clinical signs, mortality, tissue virus titers, and duration of virus shedding. Our observations suggest that duck and quail farms should be monitored particularly closely for the presence of HPAIV so that further virus transmission to other avian or mammalian hosts can be prevented.     

Assessing the risk of highly pathogenic avian influenza H5N1 transmission through poultry movements in Bali,Indonesia

Indonesia continues to report the highest number of human and poultry cases of highly pathogenic avian influenza H5N1. The disease is considered to be endemic on the island of Bali. Live bird markets are integral in the poultry supply chain on Bali and are important, nutritionally and culturally, for the rural and urban human populations. Due to the lack of biosecurity practiced along the supply chain from producer to live bird markets, there is a need to understand the risks associated with the spread of H5N1 through live bird movements for effective control. Resources to control H5N1 in Indonesia are very limited and cost effective strategies are needed. We assessed the probability a live bird market is infected through live poultry movements and assessed the effects of implementing two simple and low cost control measures on this risk. Results suggest there is a high risk a live bird market is infected (0.78), and risk mitigation strategies such as detecting and removing infected poultry from markets reduce this risk somewhat (range 0.67–0.76). The study demonstrates the key role live poultry movements play in transmitting H5N1 and the need to implement a variety of control measures to reduce disease spread.     

Molecular and phylogenetic analysis of the H5N1 avian influenza virus caused the first highly pathogenic avian influenza outbreak in poultry in the Czech Republic in 2007

On 19th July 2007 re-occurrence of the H5N1 highly pathogenic avian influenza (HPAI) virus was noticed in Europe. The index strain of this novel H5N1 lineage was identified in the Czech Republic where it caused historically the first HPAI outbreak in commercial poultry. In the present study we performed molecular and phylogenetic analysis of the index strain of the re-emerging H5N1 virus lineage along with the Czech and the Slovak H5N1 strains collected in 2006 and established the evolutionary relationships to additional viruses circulated in Europe in 2005-2006. Our analysis revealed that the Czech and the Slovak H5N1 viruses collected during 2006 were separated into two sub-clades 2.2.1 and 2.2.2, which predominated in Europe during 2005-2006. On the contrary the newly emerged H5N1 viruses belonged to a clearly distinguishable sub-clade 2.2.3. Within the sub-clade 2.2.3 the Czech H5N1 strains showed the closest relationships to the simultaneously circulated viruses from Germany, Romania and Russia (Krasnodar) in 2007 and were further clustered with the viruses from Afghanistan and Mongolia circulated in 2006. The origin of the Czech 2007 H5N1 HPAI strains was also discussed.     

两株家鸭禽流感病毒H3N1亚型分离株的致病性及其表面糖蛋白基因序列分析

测定了2株禽流感病毒（AIV）Dk／YZ／231／02和Dk／YZ／3／04对SPF鸡和BALB／c小鼠的致病性；对其血凝素（HA）基因和神经氨酸酶（NA）基因的序列进行了测定，并与GenBank中收录的其他序列进行了比较。结果，此2株AIV对SPF鸡具有较低的致病性，而对BALB／c小鼠无致病性；Dk／YZ／231／02株的HA基因与Dk／Ukraine／1／63（H3N8）株的同源率最高，Dk／YZ／3／04株的HA基因与Petbird／HK／1559／99（H3N8）株的同源率最高；而Dk／YZ／231／02株的NA基因与Dk／Fuiian／17／2001（H5N1）株的同源率最高，Dk／YZ／3／04株的NA基因与Gs／Guangdong／1／96（H5N1）株的同源率最高。进化分析结果表明，Dk／YZ／231／02和Dk／YZ／3／04株的NA基因均可能起源于水禽源H5N1亚型AIV，这可能是不同亚型AIV在水禽体内基因重组的结果。推导的氨基酸剪切位点序列均为PEKQTR，属于非高致病性AIV的特征序列。     

Epidemiology, pathology, and immunohistochemistry of layer hens naturally affected with H5N1 highly pathogenic avian influenza in Japan

Epidemiology, pathology, and immunohistochemistry were investigated in layer hens affected with H5N1 highly pathogenic avian influenza, which occurred for the first time in 79 years in Japan. The farm, which had a total of 34,640 chickens, experienced up to 43.3% mortality before the chickens were depopulated. Clinically, the affected chickens exhibited mortality without apparent clinical signs. Histologically, hepatocytic necrosis; necrosis of ellipsoids and follicles with fibrin in the spleen; necrosis with glial nodules in the brain stem, cerebrum, and cerebellum; necrosis of acinar cells in the pancreas; and necrosis of lymphoid tissues in intestinal lamina propria were seen. Occasionally, mild bronchiolitis, degeneration of smooth muscle fibers in the cecum, and mild tubulonephrosis were noted. Immunohistochemically, influenza virus antigens were detected often in the liver and spleen, heart, intestine, gizzard, proventriculus, and oviduct. In addition, antigens were seen also in the brain, kidney, pancreas, and ovary, but seldom in the lung and trachea. Virus antigen was mainly detected in the capillary endothelium and parenchymal cells. This suggests that virus excretion from the respiratory tract was not as prevalent as that from the digestive tract in the present cases.