| 1. |
- Akaberi, Dario, et al.
(författare)
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Baseline dasabuvir resistance in Hepatitis C virus from the genotypes 1, 2 and 3 and modeling of the NS5B-dasabuvir complex by the in silico approach.
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Informa UK Limited. - 2000-8686 .- 2000-8686. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- Background: Current combination treatments with direct-acting antiviral agents (DAAs) can cure more than 95% of hepatitis C virus (HCV) infections. However, resistance-associated substitutions (RASs) may emerge and can also be present in treatment-naïve patients. Methods, results and discussion: In this study, a semi-pan-genotypic population sequencing method was developed and used to assess all NS5B amino acid variants between residue positions 310 and 564. Our method successfully sequenced more than 90% of genotype (GT) 1a, 1b, 2b and 3a samples. By using the population sequencing method with a cut-off of 20%, we found the dasabuvir RASs A553V and C445F to be a baseline polymorphism of GT 2b (8 out of 8) and GT 3a (18 out of 18) sequences, respectively. In GT 1a and 1b treatment-naïve subjects (n=25), no high-fold resistance polymorphism/RASs were identified. We further predicted dasabuvir's binding pose with the NS5B polymerase using the in silico methods to elucidate the reasons associated with the resistance of clinically relevant RASs. Dasabuvir was docked at the palm-I site and was found to form hydrogen bonds with the residues S288, I447, Y448, N291 and D318. The RAS positions 316, 414, 448, 553 and 556 were found to constitute the dasabuvir binding pocket.
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| 2. |
- Anyango, Gladys, et al.
(författare)
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A survey of aflatoxin M1 contamination in raw milk produced in urban and peri-urban areas of Kisumu County, Kenya
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Taylor & Francis. - 2000-8686 .- 2000-8686. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- ABSTRACTBackground: Food safety is of increasing global concern, and a OneHealth issue requiring attention of many disciplines. Aflatoxins are toxins produced by fungi and found in foods and feeds, and exposure causes negative health effects in humans and animals. When lactating animals consume aflatoxin B1, the metabolite (AFM1) is transferred to milk.Methods: A cross-sectional study was designed to determine characteristics of smallholder dairy farming in urban and peri-urban areas of Kisumu and quantify AFM1 in milk. Data was collected from 97 randomly selected dairy farms on farming practices, milk production, and awareness about aflatoxins. Collected milk samples were analyzed using enzyme-linked immunosorbent assay for AFM1.Results: Average milk produced was 13 liters per day per household and mainly used for household consumption and sold to neighbours. Farmers mainly fed cows on forage and concentrates (62.9%). Levels of AFM1 ranged from below the detection limit to 151 ppt, with a mean of 29.67 p...
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| 4. |
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| 5. |
- Cholleti, Harindranath, et al.
(författare)
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Vector-borne viruses and their detection by viral metagenomics
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Informa UK Limited. - 2000-8686. ; 8
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Forskningsöversikt (refereegranskat)abstract
- Arthropods, such as mosquitoes and ticks, are important vectors for different viruses (so called vector-borne viruses), some of which cause a significant number of human and animal deaths every year as well as affect public health worldwide. Dengue virus, yellow fever virus, chikungunya virus, Japanese encephalitis virus, tick-borne encephalitis virus and Zika virus are just a few examples of important vector-borne viruses. The majority of all vector-borne viruses have an RNA genome, which routinely undergo genetic modifications. The changes in the genome, apart from the environmental issues, can also influence the spread of viruses to new habitats and hosts and lead to the emergence of novel viruses, which may become a threat to public health. Therefore, it is important to investigate the viruses circulating in arthropod vectors to understand their diversity, host range and evolutionary history as well as to predict new emerging pathogens. The choice of detection method is important, as most of the methods can only detect viruses that have been previously well described. Viral metagenomics is a useful tool to simultaneously identify all the viruses present in a sample, including novel viruses. This review describes vector-borne viruses, their maintenance and emergence in nature, and detection using viral metagenomics.
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| 6. |
- Cholleti, Harindranath, et al.
(författare)
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Viral metagenomics reveals the presence of highly divergent quaranjavirus in Rhipicephalus ticks from Mozambique
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Informa UK Limited. - 2000-8686. ; 8
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Tidskriftsartikel (refereegranskat)abstract
- Background: Ticks are primary vectors for many well-known disease-causing agents that affect human and animal populations globally such as tick-borne encephalitis, CrimeanCongo hemorrhagic fever and African swine fever. In this study, viral metagenomics was used to identify what viruses are present in Rhipicephalus spp. ticks collected in the Zambezi Valley of Mozambique. Methods: The RNA was amplified with sequence-independent single primer amplification (SISPA) and high-throughput sequencing was performed on the Ion Torrent platform. The generated sequences were subjected to quality check and classfied by BLAST. CodonCode aligner and SeqMan were used to assemble the sequences. Results: The majority of viral sequences showed closest sequence identity to the Orthomyxoviridae family, although viruses similar to the Parvoviridae and Coronaviridae were also identified. Nearly complete sequences of five orthomyxoviral segments (HA, NP, PB1, PB2, and PA) were obtained and these showed an amino acid identity of 32–52% to known quaranjaviruses. The sequences were most closely related to the Wellfleet Bay virus, detected and isolated from common eider during a mortality event in the USA. Conclusions: In summary, this study has identified a highly divergent virus with in the Orthomyxoviridae family associated with Rhipicephalus ticks from Mozambique. Further genetic and biological studies are needed in order to investigate potential pathogenesis of the identified orthomyxovirus.
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| 7. |
- Deka, Ram Pratim, et al.
(författare)
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Bovine brucellosis : prevalence, risk factors, economic cost and control options with particular reference to India- a review
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Taylor & Francis. - 2000-8686 .- 2000-8686. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- ABSTRACTBackground: Brucellosis is an economically important zoonotic disease with worldwide distribution, with low-income countries being more affected. The disease is endemic in India, a country that house the world’s largest cattle and buffalo population and produce the most milk in the world.Results: Prevalence of the disease in the country is reported as low as 1% to as high as 60% by different researchers but many of the published studies that reported higher prevalence were conducted in non-randomised samples. Based on this review, overall prevalence in the country is likely 12% or less. About 20 different risk factors are reported that contribute/predispose to occurrence of bovine brucellosis. The risk factors could be classified in four groups: host factors, farmer’s factors, managemental factors, and agro-ecological factors. Various studies reported high economic burden of the diseases in dairy animals but there is dearth of comprehensive and rigorous economic studies.Conclusions: In the absence...
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| 8. |
- Lindahl, Johanna, et al.
(författare)
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Hygiene knowledge, attitudes and practices among dairy value chain actors in Assam, north-east India and the impact of a training intervention
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Taylor & Francis. - 2000-8686 .- 2000-8686. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- ABSTRACTBackground: Food-borne diseases are contributing to health burdens globally, especially in developing countries. In India, milk production is important for nutrition security, but milk products are prone to contamination with pathogens. In Assam, a state in Northeast India, a novel hygiene intervention was conducted in 2009–2011, and the knowledge, attitudes and practices among milk producers, milk traders and sweet makers were assessed.Methods: The first survey was conducted in 2009 and included 405 producers, 175 traders and 220 sweet makers from 4 districts. The second survey was conducted in 2012 with 161 producers and 226 traders from 2 districts, both trained and untrained participants. In addition to questionnaires, observations on hygiene were done and samples were analysed for Escherichia coli.Results: In 2009 only 13.0%, 9.1%, and 33.1% of producers, traders and sweet makers respectively believed diseases could be transmitted by milk. There were significant improvements in knowledge afte...
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| 9. |
- Lindahl, Johanna, et al.
(författare)
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Serological evidence of Brucella infections in dairy cattle in Haryana, India
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Informa UK Limited. - 2000-8686 .- 2000-8686. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- Background: In India, milk production is important for both the economy and the provision of nutritious food. However, the productivity of the livestock is affected by circulating infectious diseases, and some zoonotic diseases, such as brucellosis, may cause a heavy impact on the farm as the disease cause abortions and reproductive failures in bovines, with chronic febrile illness in humans.Methods: 249 dairy farms in the state of Haryana, India, were interviewed, and collected raw milk from 81 were analyzed for antibodies towards Brucella abortus.Results: More samples were positive using milk ring test (MRT) (55.6%, 45/81) than using enzyme-linked immunosorbent assay (ELISA) (29.6%, 24/81), with all ELISA positive samples also positive in MRT. The ELISA results were used for risk factor analyses. Seropositive farms were significantly (p = 0.015) larger than seronegative, with an average 7.9 cattle, compared to 4.9. Seropositive farms were more likely to report stillbirth occurring the last year, and a significantly higher proportion of seropositive farms reported retained placenta (odds ratio 5.2).Conclusion: This study showed that Brucella seroprevalence is high among farms in Haryana, and a control program is needed to ensure improved human and animal health, as well as improved livestock productivity.
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| 10. |
- Nguyen, Xuan Thi Thanh, et al.
(författare)
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Assessment of aflatoxin B \textlesssub\textgreater1\textless/sub\textgreater in maize and awareness of aflatoxins in Son La, Vietnam
- 2018
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Ingår i: Infection Ecology & Epidemiology. - : Taylor & Francis. - 2000-8686 .- 2000-8686. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- ABSTRACTAflatoxin B1 (AFB1) is a fungal by-product which causes acute and chronic toxicity in humans and many other animals. This research was conducted to evaluate the prevalence of AFB1 contamination in maize and residents’ awareness of aflatoxins in Son La province, Vietnam. Maize samples were randomly collected from Son La province using multi-stage sampling. We used cut-off levels of 5 and 20 μg/kg and calculated the mean, median and range for each district. In addition, a questionnaire collected information from households about their knowledge, attitude and practice related to moldy maize. Out of 378 maize samples from Son La, 204 (54.0%) and 141 (37.3%) were contaminated with AFB1 at more than 5 µg/kg and 20 µg/kg, respectively. Mai Son district had the highest proportion of samples (54.0%) using a cut-off level \textgreater 20 µg/kg, and Yen Chau district the lowest (4%). People from the Thai ethnic group were 30.9 times more likely to consume meat from animals fed moldy maize than people from the Kinh ethn...
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