scholarly journals Portable Rabies Virus Sequencing in Canine Rabies Endemic Countries Using the Oxford Nanopore MinION

Viruses ◽  
2020 ◽  
Vol 12 (11) ◽  
pp. 1255
Author(s):  
Crystal M. Gigante ◽  
Gowri Yale ◽  
Rene Edgar Condori ◽  
Niceta Cunha Costa ◽  
Nguyen Van Long ◽  
...  

As countries with endemic canine rabies progress towards elimination by 2030, it will become necessary to employ techniques to help plan, monitor, and confirm canine rabies elimination. Sequencing can provide critical information to inform control and vaccination strategies by identifying genetically distinct virus variants that may have different host reservoir species or geographic distributions. However, many rabies testing laboratories lack the resources or expertise for sequencing, especially in remote or rural areas where human rabies deaths are highest. We developed a low-cost, high throughput rabies virus sequencing method using the Oxford Nanopore MinION portable sequencer. A total of 259 sequences were generated from diverse rabies virus isolates in public health laboratories lacking rabies virus sequencing capacity in Guatemala, India, Kenya, and Vietnam. Phylogenetic analysis provided valuable insight into rabies virus diversity and distribution in these countries and identified a new rabies virus lineage in Kenya, the first published canine rabies virus sequence from Guatemala, evidence of rabies spread across an international border in Vietnam, and importation of a rabid dog into a state working to become rabies-free in India. Taken together, our evaluation highlights the MinION’s potential for low-cost, high volume sequencing of pathogens in locations with limited resources.

2018 ◽  
Author(s):  
Chuan Wang ◽  
Pawan Dulal ◽  
Xiangyang Zhou ◽  
Zhiquan Xiang ◽  
Hooman Goharriz ◽  
...  

AbstractBackgroundEstimates of current global rabies mortality range from 26,000 to 59,000 deaths per annum. Although pre-exposure prophylaxis using inactivated rabies virus vaccines (IRVs) is effective, it requires two to three doses and is regarded as being too expensive and impractical for inclusion in routine childhood immunization programmes.Methodology/ Principal FindingsHere we report the development of a simian-adenovirus-vectored rabies vaccine intended to enable cost-effective population-wide pre-exposure prophylaxis against rabies. ChAdOx2 RabG uses the chimpanzee adenovirus serotype 68 (AdC68) backbone previously shown to achieve pre-exposure protection against rabies in non-human primates. ChAdOx2 differs from AdC68 in that it contains the human adenovirus serotype 5 (AdHu5) E4 orf6/7 region in place of the AdC68 equivalents, enhancing ease of manufacturing in cell lines which provide AdHu5 E1 proteinsin trans.We show that immunogenicity of ChAdOx2 RabG in mice is comparable to that of AdC68 RabG and other adenovirus serotypes expressing rabies virus glycoprotein. High titers of rabies virus neutralizing antibody (VNA) are elicited after a single dose. The relationship between levels of VNA activity and rabies glycoprotein monomer-binding antibody differs after immunization with adenovirus-vectored vaccines and IRV vaccines, suggesting routes to further enhancement of the efficacy of the adenovirus-vectored candidates. We also demonstrate that ChAdOx2 RabG can be thermostabilised using a low-cost method suitable for clinical bio-manufacture and ambient-temperature distribution in tropical climates. Finally, we show that a dose-sparing effect can be achieved by formulating ChAdOx2 RabG with a simple chemical adjuvant. This approach could lower the cost of ChAdOx2 RabG and other adenovirus-vectored vaccines.Conclusions/ SignificanceChAdOx2 RabG may prove to be a useful tool to reduce the human rabies death toll. We have secured funding for Good Manufacturing Practice-compliant bio-manufacture and Phase I clinical trial of this candidate.Author summaryRabies was, after smallpox, the second human disease for which an efficacious vaccine was developed, by Pasteur in 1885. Although it is eminently preventable, with highly efficacious vaccines available for both humans and animals, it still causes considerable mortality in low and middle-income countries. It is a particular problem in areas with the weakest healthcare and veterinary infrastructure, where achieving prompt post-exposure vaccination or high-coverage dog vaccination are challenging.Here, we report the development of a new candidate rabies vaccine, designed to enable low-cost single-dose pre-exposure human rabies prophylaxis in such settings. ChAdOx2 RabG is based upon a simian adenovirus-vectored candidate previously shown to achieve protection after a single dose in non-human primates, now modified to allow clinical-grade bio-manufacture. We show that it induces a potent immune response in mice, that this response can be further enhanced by clinically-relevant adjuvant, and that we can stabilise it such that it can withstand temperatures of up to 45 °C for a month. We will be performing a clinical trial of this candidate in the near future.


2019 ◽  
Vol 11 (1) ◽  
Author(s):  
Joyce Adebayo ◽  
Victor Ojo ◽  
Gabriel Ogundipe ◽  
Patrick Mboya Nguku

ObjectiveThe objectives of this study are to evaluate the current animal rabies surveillance system in the state and suggest recommendations.IntroductionRabies is a zoonotic, neglected viral disease. Every 10 minutes, the world loses a life, especially children, to dog-mediated rabies. Yet it is 100% preventable. Africa, including Nigeria, has major share of the disease. Eradication of human rabies relies majorly on control of rabies in animals and this cannot be achieved without good surveillance system of the disease in animal, especially dogs. There is little or no information as to whether the surveillance system in Nigeria is effective.MethodsWe reviewed the medical records of all rabies cases reported in the 10 government and 5 registered private veterinary health facilities in the 16 LGAs of the state. We extracted 44 cases of rabies in all, between review period of 2012-2017. We also interviewed 25 key stakeholders in the system using Key Informant Interview (KII) and questionnaires. We followed the steps stated in CDC guideline for evaluation of public health surveillance system to assess the key attributes and components of the system, and analysed the data using Microsoft Excel.ResultsTwo (20%) of the government and only one in five private veterinary health facilities had records on rabies cases. All reported cases of suspected rabies involved dog bites. The confirmatory status of 32 (72.7%) of the suspected cases were unknown. Six (37.5%) LGAs did not have access to any veterinary health facility. Average of 1 technical staff per veterinary facility was seen. Overall, the system was useful and flexible. It was fairly simple, acceptable and representative. Both sensitivity and predictive Value Positive (PVP) were less than 1% while the timeliness, data quality and stability were poorConclusionsThe surveillance system was performing below optimal level. There is need for improvement in the animal rabies surveillance system to achieve elimination of human rabies in Nigeria.ReferencesAdedeji, A. O., Okonko, I. O., Eyarefe, O. D., Adedeji, O. B., Babalola, E. T., and Ojezele, M. O. (2010). An overview of rabies - History , epidemiology , control and possible elimination. African Journal of Microbiology Research, 4(22), 2327–2338.Aliyu, T. (2010). Prevalence of Rabies Virus Antigens in Apparently Healthy Dogs in Yola , Nigeria. Researcher, 2(2), 1–14.Ameh, V. O., Dzikwi, A. A., and Umoh, J. U. (2014). Assessment of Knowledge , Attitude and Practice of Dog Owners to Canine Rabies in Wukari Metropolis , Taraba State Nigeria. Global Journal of Health Science, 6(5), 226–240.Burgos-Cáceres, S., and Sigfrido. (2011). Canine Rabies: A Looming Threat to Public Health. Animals, 1(4), 326–342.Dutta, J. K., and Dutta, T. K. (1994). Rabies in endemic countries. BMJ (Clinical Research Ed.), 308(6927), 488–9.Ehimiyein, A. M., and Ehimiyein, I. O. (2014). Rabies– Its Previous and Current Trend as an Endemic Disease of Humans and Mammals in Nigeria. Journal of Experimental Biology and Agricultural Science, 2(2320), 137–149.El-moamly, A. (2014). Immunochromatographic Techniques : Benefits for the Diagnosis of Parasitic Infections. Austin Chromatography, 1(4), 1–8.Fekadu, M. (1993). Canine rabies. Journal of Veterinary Research, 60, 421–427.Kasempimolporn, S., Saengseesom, W., Huadsakul, S., Boonchang, S., and Sitprija, V. (2011). Evaluation of a rapid immunochromatographic test strip for detection of Rabies virus in dog saliva samples. Journal of Veterinary Diagnostic Investigation, 23(6), 1197-1201.Muriuki J, Thaiyah A, Mbugua S, Kitaa J and Kirui. G. (2016). Knowledge,Attitude and Practices on Rabies and Socio-economic Value of Dog Keeping in isumu and Siaya countries, Kenya. International Jornal of Veterinary Science, 5(1), 29–33.National Population Commission. (2009). 2006 population and housing census of the Federal Republic of Nigeria. Official Gazette of the Federal Republic of Nigeria, 96(2), 1.Ogunkoya, A. ., Aina, O. ., Adebayo, O. ., Oluwagbenga, A. ., Tirmidhi, A. ., Audu, S. and Garba, A. (2012). Rabies Antigen Spread Amongst Apparently Healthy Dogs in Nigeria : A Review. Rita Brazil, 8(October), 74.OIE: World Organization for Animal Health. (2012). OIE Global Conference on Rabies Control: OIE - World Organisation for Animal Health. on-rabies-control/OIE: World Organization for Animal Health. (2014). Dog vaccination: the key to end dog-transmitted human rabies : OIE - World Organisation for Animal Health.Otolorin, G. R., Umoh, J. U., Dzikwi, A. A., and Anglais, A. E. (2014). Prevalence of Rabies Antigen in Brain Tissue of Dogs Slaughtered for Human Consumption and Evaluation of Vaccination of Dogs Against Rabies in Aba , Abia State Nigeria. World J Public Health Sciences, 3(1), 5–10.Panda, S., Mitra, J., Chowdhury, S., and Sarkar, S. N. (2016). Detection Of Rabies Viral Antigen In Cattle By Rapid Immunochromtographic Diagnostic Test. Explor Anim Medical Res, 6(1), 119–122.Sharma, P., Singh, C. K., and Narang, D. (2015). Comparison of immunochromatographic diagnostic test with heminested r everse transcriptase polymerase chain reaction for detection of rabies virus from brain samples of various species. Veterinary World, 8(2), 135–138.Singh, C K; Kaw, A; Bansal, K; Dandale, M and Pranoti, S. (2012). Approaches for antemortem diagnosis of rabies 1. CIBTech Journal of Biotechnology, 1(1), 1–16.Takayama, N. (2008). Rabies: A preventable but incurable disease. Journal of Infection and Chemotherapy, 14(1), 8–14.Wang, H., Feng, N., Yang, S., Wang, C., Wang, T., Gao, Y. and Xia, X. (2010). A rapid immunochromatographic test strip for detecting rabies virus antibody. Journal of Virological Methods, 170(1–2), 80–5.WHO. (2016). WHO | Rabies. WHO.Wu, X., Hu, R., Zhang, Y., Dong, G. and Rupprecht, C. E. (2009). Reemerging rabies and lack of systemic surveillance in People’s Republic of China. Emerging Infectious Diseases, 15(8), 1159–64. 


2008 ◽  
Vol 136 (11) ◽  
pp. 1556-1563 ◽  
Author(s):  
R. L. HU ◽  
A. R. FOOKS ◽  
S. F. ZHANG ◽  
Y. LIU ◽  
F. ZHANG

SUMMARYHuman rabies in China continues to increase exponentially, largely due to an inadequate veterinary infrastructure and poor vaccine coverage of naive dogs. We performed an epidemiological survey of rabies both in humans and animals, examined vaccine quality for animal use, evaluated the vaccination coverage in dogs, and checked the dog samples for the presence of rabies virus. The lack of surveillance in dog rabies, together with the low immunization coverage (up to 2·8% in rural areas) and the high percentage of rabies virus prevalence (up to 6·4%) in dogs, suggests that the dog population is a continual threat for rabies transmission from dogs to humans in China. Results also indicated that the quality of rabies vaccines for animal use did not satisfy all of the requirements for an efficacious vaccine capable of fully eliminating rabies. These data suggest that the factors noted above are highly correlated with the high incidence of human rabies in China.


2021 ◽  
Vol 11 (2) ◽  
Author(s):  
James G Baldwin-Brown ◽  
Scott M Villa ◽  
Anna I Vickrey ◽  
Kevin P Johnson ◽  
Sarah E Bush ◽  
...  

Abstract The pigeon louse Columbicola columbae is a longstanding and important model for studies of ectoparasitism and host-parasite coevolution. However, a deeper understanding of its evolution and capacity for rapid adaptation is limited by a lack of genomic resources. Here, we present a high-quality draft assembly of the C. columbae genome, produced using a combination of Oxford Nanopore, Illumina, and Hi-C technologies. The final assembly is 208 Mb in length, with 12 chromosome-size scaffolds representing 98.1% of the assembly. For gene model prediction, we used a novel clustering method (wavy_choose) for Oxford Nanopore RNA-seq reads to feed into the MAKER annotation pipeline. High recovery of conserved single-copy orthologs (BUSCOs) suggests that our assembly and annotation are both highly complete and highly accurate. Consistent with the results of the only other assembled louse genome, Pediculus humanus, we find that C. columbae has a relatively low density of repetitive elements, the majority of which are DNA transposons. Also similar to P. humanus, we find a reduced number of genes encoding opsins, G protein-coupled receptors, odorant receptors, insulin signaling pathway components, and detoxification proteins in the C. columbae genome, relative to other insects. We propose that such losses might characterize the genomes of obligate, permanent ectoparasites with predictable habitats, limited foraging complexity, and simple dietary regimes. The sequencing and analysis for this genome were relatively low cost, and took advantage of a new clustering technique for Oxford Nanopore RNAseq reads that will be useful to future genome projects.


2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Guanhua Xun ◽  
Stephan Thomas Lane ◽  
Vassily Andrew Petrov ◽  
Brandon Elliott Pepa ◽  
Huimin Zhao

AbstractThe need for rapid, accurate, and scalable testing systems for COVID-19 diagnosis is clear and urgent. Here, we report a rapid Scalable and Portable Testing (SPOT) system consisting of a rapid, highly sensitive, and accurate assay and a battery-powered portable device for COVID-19 diagnosis. The SPOT assay comprises a one-pot reverse transcriptase-loop-mediated isothermal amplification (RT-LAMP) followed by PfAgo-based target sequence detection. It is capable of detecting the N gene and E gene in a multiplexed reaction with the limit of detection (LoD) of 0.44 copies/μL and 1.09 copies/μL, respectively, in SARS-CoV-2 virus-spiked saliva samples within 30 min. Moreover, the SPOT system is used to analyze 104 clinical saliva samples and identified 28/30 (93.3% sensitivity) SARS-CoV-2 positive samples (100% sensitivity if LoD is considered) and 73/74 (98.6% specificity) SARS-CoV-2 negative samples. This combination of speed, accuracy, sensitivity, and portability will enable high-volume, low-cost access to areas in need of urgent COVID-19 testing capabilities.


Circuit World ◽  
1995 ◽  
Vol 21 (2) ◽  
pp. 28-31 ◽  
Author(s):  
R. Fillion ◽  
R. Wojnarowski ◽  
T. Gorcyzca ◽  
E. Wildi ◽  
H. Cole
Keyword(s):  
Low Cost ◽  

Author(s):  
Qutaiba I. Ali ◽  
Issam Jafar

Aims: The aim of the Green Communication Infrastructure ‎‎(GCI) project is to understand the idea of a self ‎‎"sustainably" controlled correspondence foundation ‎fitting for smart city application fields. ‎ Background: This paper shows the endeavors to understand the idea of a ‎self "sustainably" energized communication foundation ‎fitting for smart city application fields. The recommended ‎Green Communication Infrastructure (CGI) comprises ‎different kinds of remote settled (or even versatile) hubs ‎performing diverse activities as per the application ‎requests. An imperative class of these hubs is the Wireless ‎Solar Router (WSR). Objective: The work in this venture was begun in 2009 with the aim ‎of demonstrating the essential advances that must be taken to ‎accomplish such framework and to proclaim the value of ‎embracing natural vitality assets in building mission ‎basic frameworks. Alternate destinations of this venture ‎are introducing a sensibly cost, solid, verified, and simple ‎to introduce correspondence foundation.‎ Method: The arrangement to actualize the GCI was accomplished ‎subsequent to passing two structure levels: device level and ‎system level. Result: The suggested system is highly applicable and serves a wide ‎range of smart city application fields and hence many ‎people and organizations can utilize this system. ‎ Conclusion: The presence of a reliable, secured, low cost, easy to install ‎and self-powered communication infrastructure is ‎mandatory in our nowadays. The communities in ‎developing countries or in rural areas need such a system ‎highly in order to communicate with other people in the ‎world which will affect positively their social and ‎economic situation.


2021 ◽  
Vol 7 (12) ◽  
pp. 424-437
Author(s):  
Alain Symphorien Ndongo

Housing as a place where household members spend about half (12 hours) of their daily time, including six to eight hours in sleep, is one of the essential conditions in the fight against poverty and precariousness.  The current Congolese urban environment is facing serious problems: small plots of land, lack of suitable housing in relation to the size and composition of households, overcrowding, and water and electricity supplies. This situation is becoming critical with the appearance of deviant behavior among children aged between 10 and 30. The government and its development partners have demonstrated their powerlessness face to this situation, leaving thousands of children on the streets without education or family warmth to form real criminal gangs. These street children have created the phenomena of "kuluna" and "black babies". It has been shown that these one act in this way for their survival, claiming their rights. In this study, we find innovative proposals to provide households sheltering adulterine and adoptive children with low-cost social housing, in order to restore the image of the head of the household and provide the children with a pleasant space for their physical, economic, cultural and spiritual development. This will undoubtedly help to find solutions to the problems facing children and indeed Congolese society as a whole today. The study revealed that if the government does not take practical measures in response to the phenomena created by wayward children, especially "black babies" and "kuluna", there will be a massive adherence of other children, especially the adulterine and adoptive ones. There will be a risk of the phenomena will to be exported to rural areas. The study recommends a "State - Household" partnership in the manufacture of new types of urban housing for households housing children likely to integrate or create gangs, jeopardizing social order and public security.


2016 ◽  
Vol 14 (1) ◽  
pp. 71-80 ◽  
Author(s):  
Xinghua Wu ◽  
Huiling Huang ◽  
Zhenzhu Tang ◽  
Zhiyong Shen ◽  
Huaxiang Lu ◽  
...  

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