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López-Rosero A, Sippy R, Stewart-Ibarra AM, Ryan SJ, Mordecai E, Heras F, Beltrán E, Costales JA, Neira M. High prevalence of Zika virus infection in populations of Aedes aegypti from South-western Ecuador. PLoS Negl Trop Dis 2024; 18:e0011908. [PMID: 38236943 PMCID: PMC10826935 DOI: 10.1371/journal.pntd.0011908] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 01/30/2024] [Accepted: 01/08/2024] [Indexed: 01/31/2024] Open
Abstract
We performed an arboviral survey in mosquitoes from four endemic Ecuadorian cities (Huaquillas, Machala, Portovelo and Zaruma) during the epidemic period 2016-2018. Collections were performed during the pre-rainy season (2016), peak transmission season (2017) and post-rainy season (2018). Ae. aegypti mosquitoes were pooled by date, location and sex. Pools were screened by RT-PCR for the presence of ZIKV RNA, and infection rates (IRs) per 1,000 specimens were calculated. A total of 2,592 pools (comprising 6,197 mosquitoes) were screened. Our results reveal high IRs in all cities and periods sampled. Overall IRs among female mosquitoes were highest in Machala (89.2), followed by Portovelo (66.4), Zaruma (47.4) and Huaquillas (41.9). Among male mosquitoes, overall IRs were highest in Machala (35.6), followed by Portovelo (33.1), Huaquillas (31.9) and Zaruma (27.9), suggesting that alternative transmission routes (vertical/venereal) can play important roles for ZIKV maintenance in the vector population of these areas. Additionally, we propose that the stabilization of ZIKV vertical transmission in the vector population could help explain the presence of high IRs in field-caught mosquitoes during inter-epidemic periods.
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Affiliation(s)
- Andrea López-Rosero
- Centro de Investigación para la Salud en América Latina (CISeAL), Facultad de Ciencias Exactas y Naturales, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | - Rachel Sippy
- Institute for Global Health and Translational Science and Department of Medicine, SUNY Upstate Medical University, Syracuse, New York, United States of America
| | - Anna M. Stewart-Ibarra
- Institute for Global Health and Translational Science and Department of Medicine, SUNY Upstate Medical University, Syracuse, New York, United States of America
| | - Sadie J. Ryan
- Quantitative Disease Ecology and Conservation (QDEC) Laboratory, Department of Geography and Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
| | - Erin Mordecai
- Department of Biology, Stanford University, Stanford, California, United States of America
| | - Froilán Heras
- Institute for Global Health and Translational Science and Department of Medicine, SUNY Upstate Medical University, Syracuse, New York, United States of America
| | - Efraín Beltrán
- Universidad Técnica de Machala, Machala, El Oro, Ecuador
| | - Jaime A. Costales
- Centro de Investigación para la Salud en América Latina (CISeAL), Facultad de Ciencias Exactas y Naturales, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | - Marco Neira
- Centro de Investigación para la Salud en América Latina (CISeAL), Facultad de Ciencias Exactas y Naturales, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
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Alisjahbana DH, Nurmawati S, Milanti M, Djauhari H, Ledermann JP, Antonjaya U, Dewi YP, Johar E, Wiyatno A, Sriyani IY, Alisjahbana B, Safari D, Myint KSA, Powers AM, Hakim DDL. Central nervous system infection in a pediatric population in West Java. PLoS Negl Trop Dis 2023; 17:e0011769. [PMID: 38011279 PMCID: PMC10703213 DOI: 10.1371/journal.pntd.0011769] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2022] [Revised: 12/07/2023] [Accepted: 11/03/2023] [Indexed: 11/29/2023] Open
Abstract
Central nervous system (CNS) viral infections are critical causes of morbidity and mortality in children; however, comprehensive data on etiology is lacking in developing countries such as Indonesia. To study the etiology of CNS infections in a pediatric population, 50 children admitted to two hospitals in Bandung, West Java, during 2017-2018 were enrolled in a CNS infection study. Cerebrospinal fluid and serum specimens were tested using molecular, serological, and virus isolation platforms for a number of viral and bacteriological agents. Causal pathogens were identified in 10 out of 50 (20%) and included cytomegalovirus (n = 4), Streptococcus pneumoniae (n = 2), tuberculosis (n = 2), Salmonella serotype Typhi (n = 1) and dengue virus (n = 1). Our study highlights the importance of using a wide range of molecular and serological detection methods to identify CNS pathogens, as well as the challenges of establishing the etiology of CNS infections in pediatric populations of countries with limited laboratory capacity.
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Affiliation(s)
- Dewi H. Alisjahbana
- Department of Child Health, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Syndi Nurmawati
- Research Center for Care and Control of Infectious Disease, Universitas Padjadjaran, Bandung, Indonesia
| | - Mia Milanti
- Department of Child Health, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Hofiya Djauhari
- Research Center for Care and Control of Infectious Disease, Universitas Padjadjaran, Bandung, Indonesia
| | - Jeremy P. Ledermann
- Centers for Disease Control and Prevention, Fort Collins, Colorado, United States of America
| | - Ungke Antonjaya
- Oxford University Clinical Research Unit Indonesia, Faculty of Medicine Universitas Indonesia, Jakarta, Indonesia
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Yora Permata Dewi
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Edison Johar
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Ageng Wiyatno
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Ida Yus Sriyani
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Bachti Alisjahbana
- Research Center for Care and Control of Infectious Disease, Universitas Padjadjaran, Bandung, Indonesia
- Department of Internal Medicine, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Dodi Safari
- Eijkman Research Center for Molecular Biology, National Research and Innovation Agency, Jakarta, Indonesia
| | - Khin Saw Aye Myint
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Ann M. Powers
- Centers for Disease Control and Prevention, Fort Collins, Colorado, United States of America
| | - Dzulfikar DL Hakim
- Department of Child Health, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
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Meng JX, Hu QM, Zhang LM, Li N, He YW, Yang ZX, Sun Y, Wang JL. Isolation and Genetic Evolution of Dengue Virus from the 2019 Outbreak in Xishuangbanna, Yunnan Province, China. Vector Borne Zoonotic Dis 2023. [PMID: 37184906 DOI: 10.1089/vbz.2022.0091] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2023] Open
Abstract
Background: Dengue virus (DENV) can be divided into four serotypes-DENV-1, DENV-2, DENV-3, and DENV-4. In humans, infection leads to dengue fever (DF), dengue hemorrhagic fever, and dengue shock syndrome, both widely prevalent in tropical and subtropical regions. In 2019, a severe outbreak of DF occurred in Xishuangbanna, Yunnan province. Objective: To investigate the etiology and genotype of the causative agents of this severe dengue outbreak in Xishuangbanna. Methods: Between October and November 2019, the sera of patients clinically diagnosed with DF were collected in the first People's Hospital of Xishuangbanna. RNA was extracted from the sera and amplified by RT-PCR with flavivirus primers. Flavivirus-positive sera were then used to inoculate Aedes albopictus cells (C6/36); viral RNA was extracted from these cells, amplified, and sequenced with DENV E gene-specific primers. Sequence splicing and nucleotide homology genetic evolution analysis were carried out by biological software (DNAStar). Unique mutations in the E genes of isolated DENV were analyzed by SWISS-MODEL and PyMOL. Results: Of the 60 samples collected from DF patients, 39 tested positively with flavivirus primers. The DENV was isolated from 25 of the 39 positive seras, of which 20 showed cytopathic effects (CPE) and 5 were no CPE. In these 25 isolated nucleic acids, 21 strains of DENV-1, 3 strains of DENV-2, and 1 strain of DENV-3 were identified according to the sequence of E protein. In the four unique mutations (D52, Y149, L312, T386), D52 and Y149 in the E protein of DENV-1 were predicted to be exposed on the surface of the prefusion conformation. Conclusion: The 2019 outbreak of DF in Xishuangbanna area of Yunnan Province consists of at least three serotypes of DENV-1, DENV-2, and DENV-3, and the sources of these virus strains are of mixed and complicated origin.
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Affiliation(s)
- Jin-Xin Meng
- Yunnan Tropical and Subtropical Animal Virus Disease Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, China
| | - Qiu-Ming Hu
- People's Hospital of Jinghong City, Jinghong, China
| | - Li-Ming Zhang
- Tsinghua-Peking Center for Life Sciences, School of Medicine, Tsinghua University, Beijing, China
| | - Nan Li
- Yunnan Tropical and Subtropical Animal Virus Disease Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, China
| | - Yu-Wen He
- Yunnan Tropical and Subtropical Animal Virus Disease Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, China
| | - Zhen-Xing Yang
- Yunnan Tropical and Subtropical Animal Virus Disease Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, China
| | - Yi Sun
- The First People's Hospital of Yunnan Province, Kunming, China
| | - Jing-Lin Wang
- Yunnan Tropical and Subtropical Animal Virus Disease Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, China
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Hu D, Wu C, Wang R, Yao X, Nie K, Lv Q, Fu S, Yin Q, Su W, Li F, Xu S, He Y, Liang G, Li X, Wang H. Persistence of Tembusu Virus in Culex tritaeniorhynchus in Yunnan Province, China. Pathogens 2023; 12:490. [PMID: 36986412 PMCID: PMC10058924 DOI: 10.3390/pathogens12030490] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Revised: 03/20/2023] [Accepted: 03/20/2023] [Indexed: 03/30/2023] Open
Abstract
The Tembusu virus (TMUV), a member of the Flaviviridae family, can be transmitted via mosquitoes and cause poultry disease. In 2020, a strain of TMUV (YN2020-20) was isolated from mosquito samples collected in Yunnan province, China. In vitro experiments showed that TMUV-YN2020-20 produced a significant cytopathic effect (CPE) in BHK, DF-1, and VERO cells, while the CPE in C6/36 cells was not significant. Phylogenetic analysis revealed that the strain belonged to Cluster 3.2 and was closely related to the Yunnan mosquito-derived isolates obtained in 2012 and the Shandong avian-derived isolate obtained in 2014. Notably, TMUV-YN2020-20 developed five novel mutations (E-V358I, NS1-Y/F/I113L, NS4A-T/A89V, NS4B-D/E/N/C22S, and NS5-E638G) at loci that were relatively conserved previously. The results of this study demonstrate the continuous circulation and unique evolution of TMUV in mosquitoes in Yunnan province and suggest that appropriate surveillance should be taken.
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Affiliation(s)
- Danhe Hu
- Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Chao Wu
- Yunnan Institute of Parasitic Diseases, Pu’er 665000, China
| | - Ruichen Wang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Xiaohui Yao
- Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Kai Nie
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Quan Lv
- Yunnan Institute of Parasitic Diseases, Pu’er 665000, China
| | - Shihong Fu
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Qikai Yin
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Wenzhe Su
- Guangzhou Center for Disease Control and Prevention, Guangzhou 510440, China
| | - Fan Li
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Songtao Xu
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Ying He
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Guodong Liang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
| | - Xiangdong Li
- Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, College of Veterinary Medicine, Yangzhou University, Yangzhou 225009, China
- Key Laboratory of Protection & Utilization of Biological Resources in Tarim Basin, College of Life Sciences, Tarim University, Alar 843399, China
| | - Huanyu Wang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
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Quantitative real time PCR detection of Saboya virus: A flavivirus member of yellow fever genetic group. J Virol Methods 2023; 311:114638. [PMID: 36328081 DOI: 10.1016/j.jviromet.2022.114638] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 09/13/2022] [Accepted: 10/19/2022] [Indexed: 11/07/2022]
Abstract
The genus Flavivirus in the Flaviridae contains arthropod born viruses associated with high public health burdens like Zika, Dengue or Yellow fever. Saboya virus (SABV) is an understudied flavivirus grouping in the same genetic sub-group as Yellow Fever Virus (YFV) together with Sepik virus (SEPV) and Wesselbron virus (WSLV). Flavivirus infections are characterized by non-specific clinical presentations resulting in a high risk of misdiagnosis. SABV virus has been shown to circulate in the Sahelian zone and in central Africa. To study this virus we a qRT-PCR system based on TaqMan chemistry was developed to allow rapid and specific detection of SABV. The SABV assay was evaluated on available SABV isolates and others flaviviruses (DENV, ZIKV, YFV, WNV, KEDV). The system reliably detected all used SABV strains without cross amplification of other flaviviruses. In term of sensitivity the SABV assay detect up to 40.25 copies of SABV standard DNA molecule per ul. This system can be easily added to the available panel of arboviruses detection assays as a reliable tool to study virus prevalence in human, vertebrate and insect-vector samples.
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Peňazziová K, Korytár Ľ, Cingeľová Maruščáková I, Schusterová P, Loziak A, Pivka S, Ondrejková A, Pistl J, Csank T. Serologic Investigation on Tick-Borne Encephalitis Virus, Kemerovo Virus and Tribeč Virus Infections in Wild Birds. Microorganisms 2022; 10:microorganisms10122397. [PMID: 36557650 PMCID: PMC9784810 DOI: 10.3390/microorganisms10122397] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2022] [Revised: 11/10/2022] [Accepted: 11/29/2022] [Indexed: 12/09/2022] Open
Abstract
The present study reports on serosurvey on the tick-borne encephalitis virus European subtype (TBEV; genus Flavivirus), and the tick-borne Kemerovo (KEMV) and Tribeč (TRBV) orbivirus (genus Orbivirus) infections in tick-infested and non-infested birds. No virus RNA was detected in the blood clots. Birds were infested mostly by Ixodes ricinus, but Haemaphysalis concinna and I. frontalis were observed too. TBEV, KEMV and TRBV neutralising antibodies (NAb) were detected in the screening microtitration neutralisation test (μVNT). Seropositive samples were further examined in simultaneous μVNT to distinguish TBEV infection from WNV and USUV. KEMV and TRBV infections were also further examined by μVNT against each other. The demonstrated results point to increased TBEV and TRBV seroprevalence in birds over the past several years. This is the first study on KEMV infection in the Slovak bird population, and seropositive juvenile birds suggest its occurrence in a new geographic area. The results indicate the significance of tick infestation rates, seropositivity and specific NAb titre. The reservoir role of birds for TBEV, KEMV and TRBV remains unclear. However, targeted monitoring of birds and vectors is an effective measure of surveillance of arbovirus introduction into new geographic areas.
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Affiliation(s)
- Katarína Peňazziová
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Ľuboš Korytár
- Department of Epizootiology, Parasitology and Protection of One Health, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Ivana Cingeľová Maruščáková
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Petra Schusterová
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Alexander Loziak
- Institute of Social Sciences of the Centre of Social and Psychological Sciences Slovak Academy of Sciences, Karpatská 5, 040 01 Košice, Slovakia
| | - Soňa Pivka
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Anna Ondrejková
- Department of Epizootiology, Parasitology and Protection of One Health, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Juraj Pistl
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
| | - Tomáš Csank
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81 Košice, Slovakia
- Correspondence:
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Calzolari M, Bonilauri P, Grisendi A, Dalmonte G, Vismarra A, Lelli D, Chiapponi C, Bellini R, Lavazza A, Dottori M. Arbovirus Screening in Mosquitoes in Emilia-Romagna (Italy, 2021) and Isolation of Tahyna Virus. Microbiol Spectr 2022; 10:e0158722. [PMID: 36165787 PMCID: PMC9602283 DOI: 10.1128/spectrum.01587-22] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 08/30/2022] [Indexed: 12/31/2022] Open
Abstract
Several viruses can be transmitted by mosquitoes. We searched some of these viruses in 20,778 mosquitoes, collected in 95 traps on the plains of Emilia-Romagna (North of Italy) in 2021. We detected West Nile virus (WNV) and Usutu virus (USUV) in pools of Culex (Cx.) pipiens. In addition, we detected two insect-specific flaviviruses in three pools of Aedes (Ae.) caspius and in two of Ae. vexans. Tahyna virus (TAHV) was detected in six pools, three of Ae. caspius and three of Cx. pipiens, and one isolated strain was obtained from one of the Ae. caspius pools. Moreover, we detected TAHV in pools of several mosquito species (Ae. caspius, Ae. vexans, Ae. albopictus, Anopheles maculipennis s.l.) collected in the previous year of surveillance. Our data indicate Ae. caspius as the species most infected with TAHV in the surveyed area. Together with the likely plasticity of the cycle, we reported strong genome stability of the TAHV, probably linked to a successful adaptation of the virus to its ecological niche. Interestingly, in six pools of Cx. pipiens we detected two associated viruses among USUV, WNV, TAHV and all the three viruses in two pools. This result allows us to assume the presence of particular conditions that prompt the circulation of arboviruses, creating the conditions for viral hot spots. While no human diseases related to Tahyna virus were reported in Italy, its detection over the years suggests that it is worth investigating this virus as a potential cause of disease in humans in order to assess its health burden. IMPORTANCE We reported in this work the detection of three Arboviruses (Arthropod-borne viruses) in mosquitoes collected in Emilia-Romagna in 2021. In addition to West Nile and Usutu viruses, which were reported from more than 10 years in the study area, we detected and isolated Tahyna virus (TAHV). We also reported detections of TAHV obtained in previous years of surveillance in different species of mosquitoes. TAHV is the potential causative agent of summer influenza-like diseases and also of meningitis. Even if human cases of disease referable to this virus are not reported in Italy, its relevant presence in mosquitoes suggests investigating the possibility they could.
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Affiliation(s)
- Mattia Calzolari
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Paolo Bonilauri
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Annalisa Grisendi
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Gastone Dalmonte
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Alice Vismarra
- Dipartimento di Scienze Medico-Veterinarie, UO di Parassitologia e Malattie Parassitarie, Università di Parma, Parma, Italy
| | - Davide Lelli
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Chiara Chiapponi
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Romeo Bellini
- Centro Agricoltura Ambiente “G.Nicoli,” Crevalcore, Italy
| | - Antonio Lavazza
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
| | - Michele Dottori
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna “B. Ubertini” (IZSLER), Brescia, Italy
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Jun SW, Ahn YH. Terahertz thermal curve analysis for label-free identification of pathogens. Nat Commun 2022; 13:3470. [PMID: 35710797 PMCID: PMC9203813 DOI: 10.1038/s41467-022-31137-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Accepted: 06/06/2022] [Indexed: 12/21/2022] Open
Abstract
In this study, we perform a thermal curve analysis with terahertz (THz) metamaterials to develop a label-free identification tool for pathogens such as bacteria and yeasts. The resonant frequency of the metasensor coated with a bacterial layer changes as a function of temperature; this provides a unique fingerprint specific to the individual microbial species without the use of fluorescent dyes and antibodies. Differential thermal curves obtained from the temperature-dependent resonance exhibit the peaks consistent with bacterial phases, such as growth, thermal inactivation, DNA denaturation, and cell wall destruction. In addition, we can distinguish gram-negative bacteria from gram-positive bacteria which show strong peaks in the temperature range of cell wall destruction. Finally, we perform THz melting curve analysis on the mixture of bacterial species in which the pathogenic bacteria are successfully distinguished from each other, which is essential for practical clinical and environmental applications such as in blood culture. A label-free sensing method has been developed for identifying hazardous pathogens based on their intrinsic properties. This was possible by interrogating the temperature-dependent dielectric constant of the microbes in the far-infrared range.
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Affiliation(s)
- S W Jun
- Department of Physics, Ajou University, Suwon, 16499, Korea.,Department of Energy Systems Research, Ajou University, Suwon, 16499, Korea
| | - Y H Ahn
- Department of Physics, Ajou University, Suwon, 16499, Korea. .,Department of Energy Systems Research, Ajou University, Suwon, 16499, Korea.
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Ana V, Cristian R, Christin K, Dragica V, Marija M, Aleksandar U, Nataša N, Olga D, Birke AT, Tamaš P, Cornelia S, Miroslav V, Ana G. West nile virus in the republic of serbia - diagnostic performance of five serological tests in dog and horse sera. Transbound Emerg Dis 2022; 69:e2506-e2515. [PMID: 35538046 DOI: 10.1111/tbed.14593] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Revised: 04/21/2022] [Accepted: 04/25/2022] [Indexed: 11/29/2022]
Abstract
West Nile virus (WNV) is a zoonotic mosquito-borne virus classified asfamily Flaviviridae and genus Flavivirus. The first WNV outbreak in humans in the Republic of Serbia was recorded in 2012. Equids and dogs can show clinical symptoms after WNV infection, and are often used as sentinels. This study aimed to: i) give insight into seropositivity for WNV in clinically healthy dog and horse sera in different regions of Serbia and ii) compare diagnostic value of "in-house" and commercially available indirect immunofluorescence (IFA) and enzyme-linked immunoassay (ELISA) tests to "gold standard" virus neutralisation test (VNT). Due to cross-reactivity, sera were tested for Usutu virus and tick-borne encephalitis virus in VNT based on the epidemiological data of field presence. Blood sera of dogs (n = 184) and horses (n = 232) were collected from 2011-2013. The seropositivity was confirmed by VNT in 36.9 % tested dog sera and 34.9 % tested horse sera with highest positivity in regions near two big rivers, while in four dog sera and seven horse sera positivity resulted from Usutu virus infection. Comparative results of diagnostic tests in dogs ranged from 18.7 % seropositivity by "in-house"ELISA to 31.9% by commercially available ELISA. In horses, seropositivity ranged from 36.2% by "in-house" IFA to 32.5% by commercially available IFA and from 26.3% by "in-house" IgG ELISA to 20.9% by commercially available ELISA. There were no statistically significant differences according to the McNemar test between "in-house" and commercially available IFA and ELISA test in horse sera, while the same was not true for two used ELISAs in dog sera (χ2 = 8.647, p = 0.003). Established seropositivity in dogs and horses was in accordance with the epidemiological situation and WNV spread in the Republic of Serbia and proven Usutu virus co-circulation. "In-house" tests remain a valuable tool in early diagnostics of WNV. This article is protected by copyright. All rights reserved.
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Affiliation(s)
- Vasić Ana
- Faculty of Veterinary Medicine, Dept. of infectious diseases of animals and bee diseases, University of Belgrade, Belgrade, Serbia.,Friedrich-Loeffler-Institut, Federal research institute for animal health, Greifswald Isle of Riems, Germany.,Institute for Medical Research, National Institute of Serbia, University of Belgrade, Belgrade, Serbia
| | - Răileanu Cristian
- Friedrich-Loeffler-Institut, Federal research institute for animal health, Greifswald Isle of Riems, Germany
| | - Körsten Christin
- Friedrich-Loeffler-Institut, Federal research institute for animal health, Greifswald Isle of Riems, Germany
| | - Vojinović Dragica
- Serbian Institute of Veterinary Science, Dept. of Immunology, Belgrade, Serbia
| | - Manić Marija
- Specialized Veterinary Institute Niš, Dept. of Microbiology, Milke Protic bb, Niš, Serbia
| | - Urošević Aleksandar
- Clinic for Infectious and Tropical Diseases, Clinical Centre Serbia, Belgrade, Serbia.,Parexel International Serbia
| | - Nikolić Nataša
- Clinic for Infectious and Tropical Diseases, Clinical Centre Serbia, Belgrade, Serbia.,Faculty of Medicine, University of Belgrade, Belgrade, Serbia
| | - Dulović Olga
- Clinic for Infectious and Tropical Diseases, Clinical Centre Serbia, Belgrade, Serbia.,Faculty of Medicine, University of Belgrade, Belgrade, Serbia
| | - A Tews Birke
- Friedrich-Loeffler-Institut, Federal research institute for animal health, Greifswald Isle of Riems, Germany
| | - Petrović Tamaš
- Scientific Veterinary Institute "Novi Sad", Dept. Of Virology, Novi Sad, Serbia
| | - Silaghi Cornelia
- Friedrich-Loeffler-Institut, Federal research institute for animal health, Greifswald Isle of Riems, Germany.,Faculty of Mathematics and Natural Sciences, University of Greifswald, Greifswald, Germany
| | - Valčić Miroslav
- Faculty of Veterinary Medicine, Dept. of infectious diseases of animals and bee diseases, University of Belgrade, Belgrade, Serbia
| | - Gligić Ana
- Institute of Virology, Vaccines and Sera 'Torlak', Belgrade, Serbia
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10
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Differential detection of zika virus based on PCR. J Virol Methods 2022; 301:114459. [PMID: 35007627 DOI: 10.1016/j.jviromet.2022.114459] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2021] [Revised: 12/15/2021] [Accepted: 01/05/2022] [Indexed: 11/21/2022]
Abstract
Tropical countries are highly prone to infectious diseases such as the one caused by zika virus. Infection by zika is clinically and epidemiologically highly relevant. For example, when women are infected by zika during the first trimester of pregnancy, the child incurs a high risk of microcephaly and acute neurological syndromes. In adults, the virus is associated with the Guillain-Barré syndrome and other disorders. The worldwide emergency caused by zika in 2013/14 demonstrated the need for rapid and accurate diagnostic tools for the virus. Current diagnostic methods include virus isolation, serological tests, and molecular assays. However, virus isolation requires labor-intensive and time-consuming cell culture; serological detection suffers from cross-reactivity caused by previous exposure to homologous arboviruses that cause symptoms like those caused by zika, while molecular tools commonly are not designed for differential zika detection. This work reports on developing a specific molecular detection method based on phylogenetically conserved primers designed for the specific diagnosis of the zika virus. The zika primers were systematically selected through a rigorous bioinformatic analysis and demonstrated the capability to be highly specific. We tested our primers on synthetic DNA, cell cultures and samples from patients infected with zika, dengue and chikungunya and found that they detected zika with specificity high enough for differential virus diagnosis.
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11
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Daidoji T, Morales Vargas RE, Hagiwara K, Arai Y, Watanabe Y, Nishioka K, Murakoshi F, Garan K, Sadakane H, Nakaya T. Development of genus-specific universal primers for the detection of flaviviruses. Virol J 2021; 18:187. [PMID: 34526049 PMCID: PMC8442469 DOI: 10.1186/s12985-021-01646-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Accepted: 08/23/2021] [Indexed: 12/03/2022] Open
Abstract
Background Flaviviruses are representative arboviruses carried by arthropods and/or vertebrates; these viruses can pose a public health concern in many countries. By contrast, it is known that a novel virus group called insect-specific flaviviruses (ISFs) also infects arthropods, although no such virus has yet been isolated from vertebrates. The characteristics of ISFs, which affect replication of human-pathogenic flaviviruses within co-infected mosquito cells or mosquitoes without affecting the mosquitoes themselves, mean that we should pay attention to both ISFs and human-pathogenic flaviviruses, despite the fact that ISFs appear not to be directly hazardous to human health. To assess the risk of diseases caused by flaviviruses, and to better understand their ecology, it is necessary to know the extent to which flaviviruses are harbored by arthropods. Methods We developed a novel universal primer for use in a PCR-based system to detect a broad range of flaviviruses. We then evaluated its performance. The utility of the novel primer pair was evaluated in a PCR assay using artificially synthesized oligonucleotides derived from a template viral genome sequence. The utility of the primer pair was also examined by reverse transcription PCR (RT-PCR) using cDNA templates prepared from virus-infected cells or crude supernatants prepared from virus-containing mosquito homogenates. Results The novel primer pair amplified the flavivirus NS5 sequence (artificially synthesized) in all samples tested (six species of flavivirus that can cause infectious diseases in humans, and flaviviruses harbored by insects). In addition, the novel primer pair detected viral genomes in cDNA templates prepared from mosquito cells infected with live flavivirus under different infectious conditions. Finally, the viral genome was detected with high sensitivity in crude supernatants prepared from pooled mosquito homogenates. Conclusion This PCR system based on a novel primer pair makes it possible to detect arthropod-borne flaviviruses worldwide (the primer pair even detected viruses belonging to different genetic subgroups). As such, an assay based on this primer pair may help to improve public health and safety, as well as increase our understanding of flavivirus ecology. Supplementary Information The online version contains supplementary material available at 10.1186/s12985-021-01646-5.
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Affiliation(s)
- Tomo Daidoji
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan.
| | | | - Katsuro Hagiwara
- Veterinary Virology, School of Veterinary Medicine , Rakuno Gakuen University, Hokkaido, 069-8501, Japan
| | - Yasuha Arai
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
| | - Yohei Watanabe
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
| | - Keisuke Nishioka
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
| | - Fumi Murakoshi
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
| | - Kotaro Garan
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
| | - Hiroki Sadakane
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
| | - Takaaki Nakaya
- Department of Infectious Diseases, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, 602-8566, Japan
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12
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Alisjahbana DH, Nurmawati S, Hakim DDL, Milanti M, Dewi YP, Johar E, Myint KSA, Lederman JP, Powers AM, Alisjahbana B, Antonjaya U. Detection of dengue virus serotype 1 in central nervous system of a child in Bandung, West Java: A case report. SAGE Open Med Case Rep 2021; 9:2050313X211034393. [PMID: 34367644 PMCID: PMC8312185 DOI: 10.1177/2050313x211034393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2021] [Accepted: 07/01/2021] [Indexed: 11/15/2022] Open
Abstract
Central nervous system involvement of dengue virus is increasingly reported from endemic areas. This study describes the clinical characteristics and laboratory features of a pediatric patient enrolled in a central nervous system illness study conducted in 2017-2018 to identify viral and bacterial etiologies in Indonesian children. Dengue diagnostics including molecular and serological testing were performed on an encephalitis patient who presented with both classical dengue and neurological clinical symptoms. Dengue virus serotype 1 RNA was detected in both cerebrospinal fluid and serum by serotype-specific reverse transcription polymerase chain reaction, and the E gene was successfully sequenced. Anti-dengue virus immunoglobulin M was detected in both admission and discharge sera, whereas anti-dengue virus immunoglobulin G was identified only in the discharge serum. This study describes the central nervous system complications in a case with dengue virus infection in West Java, Indonesia, and highlights the potential for dengue virus serotype 1, a serotype rarely associated with neurotropism, to cause encephalitis.
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Affiliation(s)
- Dewi Hawani Alisjahbana
- Department of Child Health, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Syndi Nurmawati
- Research Center for Care and Control of Infectious Disease, Universitas Padjadjaran, Bandung, Indonesia
| | - Dzulfikar DL Hakim
- Department of Child Health, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Mia Milanti
- Department of Child Health, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Yora Permata Dewi
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Edison Johar
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Khin Saw Aye Myint
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | | | - Ann M Powers
- Centers for Disease Control and Prevention, Fort Collins, CO, USA
| | - Bachti Alisjahbana
- Research Center for Care and Control of Infectious Disease, Universitas Padjadjaran, Bandung, Indonesia
- Department of Internal Medicine, Hasan Sadikin Hospital, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Ungke Antonjaya
- Emerging Virus Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
- Eijkman-Oxford Clinical Research Unit, Eijkman Institute for Molecular Biology, Jakarta, Indonesia
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13
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Kumar S, Sharma S, Bhardwaj N, Pande V, Savargaonkar D, Anvikar AR. Advanced Lyophilised Loop Mediated Isothermal Amplification (L-LAMP) based point of care technique for the detection of dengue virus. J Virol Methods 2021; 293:114168. [PMID: 33887278 DOI: 10.1016/j.jviromet.2021.114168] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Revised: 03/18/2021] [Accepted: 04/15/2021] [Indexed: 11/25/2022]
Abstract
Dengue virus infects millions of the people globally each year and its diagnosis remains a challenge. Conventionally used diagnostic methods are complex and time consuming. LAMP technique is a potential alternative for diagnosis of dengue virus. The benefits of LAMP are its ease and ability, as it does not require an expensive equipment and results are effortlessly visualized by the naked eye. However, it does not aid as point of care technique owing to need of contamination free area, deep freezer for chemical storage and primer self amplification. Each small modification in LAMP method bring it towards an ideal point of care technique. An advanced lyophilized loop mediated isothermal amplification (L-LAMP) was developed in which the dye was dried on the cap and reaction reagents was lyophilized at the bottom of the tube to overcome the common hurdles of LAMP technique. The technique was able to diagnose disease within 35 min with 4U of Bst polymerase. The least concentration of dye required was 1000×. Result given by the seminested reverse transcriptase polymerase chain reaction (RT-PCR) and L-LAMP with enzyme linked immuno sorbent assay (ELISA) were compared using Chi square test. The L-LAMP showed 100 % specificity and 92 % sensitivity with respect ELISA and was found better than RT-PCR which showed 100 % specificity and 88 % sensitivity. There was no cross reactivity of primers with other disease like malaria caused by Plasmodium falciparum and P. vivax and with viral disease chikungunya. L-LAMP has dynamic potential as point of care technique.
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Affiliation(s)
- Sandeep Kumar
- Parasite Host Biology, ICMR-National Institute of Malaria Research, Sector-8, Dwarka, New Delhi, 110077, India; Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, 263136, India
| | - Supriya Sharma
- Parasite Host Biology, ICMR-National Institute of Malaria Research, Sector-8, Dwarka, New Delhi, 110077, India
| | - Nitin Bhardwaj
- Parasite Host Biology, ICMR-National Institute of Malaria Research, Sector-8, Dwarka, New Delhi, 110077, India; Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, 263136, India
| | - Veena Pande
- Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, 263136, India
| | - Deepali Savargaonkar
- Parasite Host Biology, ICMR-National Institute of Malaria Research, Sector-8, Dwarka, New Delhi, 110077, India
| | - Anupkumar R Anvikar
- Parasite Host Biology, ICMR-National Institute of Malaria Research, Sector-8, Dwarka, New Delhi, 110077, India.
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14
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A low-cost PCR instrument for molecular disease diagnostics based on customized printed circuit board heaters. Biomed Microdevices 2021; 23:24. [PMID: 33855638 DOI: 10.1007/s10544-021-00563-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/06/2021] [Indexed: 10/21/2022]
Abstract
This article describes the fabrication of a low-cost Polymerase Chain Reaction (PCR) instrument to detect diseases. In order to reduce the instrument price and simplify construction we developed an alternative fabrication process, transforming conventional printed circuit boards (PCB) in heating elements, avoiding the use of aluminum heating/cooling blocks and Peltier devices. To cool down the reaction a simple computer fan was used. The vial holder was fabricated using two double side PCB boards assembled in a sandwich-like configuration. The bottom PCB has a resistance of 0.9 Ω used to heat the reaction mix, while the top layer has a resistance of 1.1 Ω to heat the vial body, preventing vapor condensation. The top board was maintained at ~ 110 ± 1 °C during all cycles. The final device was able to heat and cool down the reaction at rates of ~ 2.0 °C/s, a rate comparable to commercial thermocyclers. An SMD NTC thermistor was used as temperature sensors, and a PID (proportional-integral-derivative) control algorithm was implemented to acquire and precisely control the temperature. We also discuss how the instrument is calibrated. The device was tested successfully for the amplification of T. pallidum (Syphilis) bacterial DNA and Zika virus RNA samples, showing similar performance to a commercial PCR instrument.
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15
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Sasmono RT, Santoso MS, Pamai YWB, Yohan B, Afida AM, Denis D, Hutagalung IA, Johar E, Hayati RF, Yudhaputri FA, Haryanto S, Stubbs SCB, Blacklaws BA, Myint KSA, Frost SDW. Distinct Dengue Disease Epidemiology, Clinical, and Diagnosis Features in Western, Central, and Eastern Regions of Indonesia, 2017-2019. Front Med (Lausanne) 2020; 7:582235. [PMID: 33335904 PMCID: PMC7737558 DOI: 10.3389/fmed.2020.582235] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Accepted: 10/22/2020] [Indexed: 01/06/2023] Open
Abstract
The people of Indonesia have been afflicted by dengue, a mosquito-borne viral disease, for over 5 decades. The country is the world's largest archipelago with diverse geographic, climatic, and demographic conditions that may impact the dynamics of disease transmissions. A dengue epidemiology study was launched by us to compare and understand the dynamics of dengue and other arboviral diseases in three cities representing western, central, and eastern Indonesia, namely, Batam, Banjarmasin, and Ambon, respectively. A total of 732 febrile patients were recruited with dengue-like illness during September 2017-2019 and an analysis of their demographic, clinical, and virological features was performed. The seasonal patterns of dengue-like illness were found to be different in the three regions. Among all patients, 271 (37.0%) were virologically confirmed dengue, while 152 (20.8%) patients were diagnosed with probable dengue, giving a total number of 423 (57.8%) dengue patients. Patients' age and clinical manifestations also differed between cities. Mostly, mild dengue fever was observed in Batam, while more severe cases were prominent in Ambon. While all dengue virus (DENV) serotypes were detected, distinct serotypes dominated in different locations: DENV-1 in Batam and Ambon, and DENV-3 in Banjarmasin. We also assessed the diagnostic features in the study sites, which revealed different patterns of diagnostic agreements, particularly in Ambon. To detect the possibility of infection with other arboviruses, further testing on 461 DENV RT-PCR-negative samples was performed using pan-flavivirus and -alphavirus RT-PCRs; however, only one chikungunya infection was detected in Ambon. A diverse dengue epidemiology in western, central, and eastern Indonesia was observed, which is likely to be influenced by local geographic, climatic, and demographic conditions, as well as differences in the quality of healthcare providers and facilities. Our study adds a new understanding on dengue epidemiology in Indonesia.
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Affiliation(s)
| | | | | | | | - Anna M Afida
- Dr. H. M. Ansari Saleh Hospital, Banjarmasin, Indonesia
| | | | | | - Edison Johar
- Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Rahma F Hayati
- Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | | | | | - Samuel C B Stubbs
- Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom.,Department of Infectious Disease Epidemiology, London School of Hygiene and Tropical Medicine, London, United Kingdom
| | - Barbara A Blacklaws
- Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom
| | - Khin S A Myint
- Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Simon D W Frost
- Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom.,Department of Infectious Disease Epidemiology, London School of Hygiene and Tropical Medicine, London, United Kingdom.,Microsoft Research, Redmond, WA, United States
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16
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A Novel Multiplex RT-PCR Assay for Simultaneous Detection of Dengue and Chikungunya Viruses. Int J Mol Sci 2020; 21:ijms21218281. [PMID: 33167379 PMCID: PMC7663808 DOI: 10.3390/ijms21218281] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Revised: 09/17/2020] [Accepted: 09/19/2020] [Indexed: 12/20/2022] Open
Abstract
The goal of the study was to develop a specific, sensitive, and cost-effective molecular RT-PCR diagnostic assay for the rapid and simultaneous detection of the serotypes of dengue virus (DENV) and Chikungunya virus (CHIKV) from sera of suspected febrile patients. A single-tube, single-step multiplex RT-PCR (mRT-PCR) assay was designed for the detection of viral genomes from clinical and field samples. Specificity and sensitivity of the mRT-PCR assay were evaluated against six different combinations using two reverse transcriptases (AMV-RT and RT-Ace) and three DNA polymerases (LA-Taq, rTaq, and Tth). Among the six combinations, the AMV-RT and LA-Taq combination was more specific and sensitive than other enzyme combinations for detecting viral genomes of DENV-1, DENV-2, DENV-3, and DENV-4 (p < 0.01), and for detecting viral genomes of CHIKV (p < 0.05). The detection limits of the mRT-PCR were 10 focus forming units (FFU) for CHIKV and 1 FFU, 20 FFU, 0.1 FFU, and 10 FFU for DENV-1, DENV-2, DENV-3, and DENV-4, respectively. The primers used for the mRT-PCR did not show any cross-reactivity among the serotypes of DENV or CHIKV. Specificity and sensitivity of the newly developed mRT-PCR were validated using serum samples collected from febrile patients during dengue outbreaks in Bangladesh. The sensitivity for serotype detection of DENV and CHIKV was superior to the virus isolation method and the antigen detection method using the Dengue NS1-Ag assay. This novel mRT-PCR method can be used for molecular epidemiological surveillance of DENV and CHIKV in epidemic and endemic countries.
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17
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Davidson JR, Baskin RN, Hasan H, Burton TA, Wardiman M, Rahma N, Saputra FR, Aulya MS, Wahid I, Syafruddin D, Hawkes FM, Lobo NF. Characterization of vector communities and biting behavior in South Sulawesi with host decoy traps and human landing catches. Parasit Vectors 2020; 13:329. [PMID: 32600472 PMCID: PMC7324974 DOI: 10.1186/s13071-020-04205-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Accepted: 06/20/2020] [Indexed: 11/26/2022] Open
Abstract
Background Indonesia has high mosquito diversity, with circulating malaria and arboviruses. Human landing catches (HLC) are ethically questionable where arboviral transmission occurs. The host decoy trap (HDT) is an exposure-free alternative outdoor sampling device. To determine HDT efficacy for local culicids, and to characterize local mosquito fauna, the trapping efficacy of the HDT was compared to that of HLCs in one peri-urban (Lakkang) and one rural (Pucak) village in Sulawesi, Indonesia. Results In Lakkang the outdoor HLCs collected significantly more Anopheles per night (n = 22 ± 9) than the HDT (n = 3 ± 1), while the HDT collected a significantly greater nightly average of Culex mosquitoes (n = 110 ± 42), than the outdoor HLC (n = 15.1 ± 6.0). In Pucak, there was no significant difference in Anopheles collected between trap types; however, the HDT collected significantly more Culex mosquitoes than the outdoor HLC nightly average (n = 53 ± 11 vs 14 ± 3). Significantly higher proportions of blood-fed mosquitoes were found in outdoor HLC (n = 15 ± 2%) compared to HDT (n = 2 ± 0%). More blood-fed culicines were collected with outdoor HLC compared to the HDT, while Anopheles blood-fed proportions did not differ. For the HDT, 52.6%, 36.8% and 10.5% of identified blood meals were on cow, human, and dog, respectively. Identified blood meals for outdoor HLCs were 91.9% human, 6.3% cow, and 0.9% each dog and cat. Mosquitoes from Pucak were tested for arboviruses, with one Culex pool and one Armigeres pool positive for flavivirus, and one Anopheles pool positive for alphavirus. Conclusions The HDT collected the highest abundance of culicine specimens. Outdoor HLCs collected the highest abundance of Anopheles specimens. Although the HDT can attract a range of different Asian mosquito genera and species, it remains to be optimized for Anopheles in Asia. The high proportion of human blood meals in mosquitoes collected by outdoor HLCs raises concerns on the potential exposure risk to collectors using this methodology and highlights the importance of continuing to optimize a host-mimic trap such as the HDT.![]()
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Affiliation(s)
- Jenna R Davidson
- Eck Institute for Global Health, University of Notre Dame, Notre Dame, Indiana, 46556, USA.
| | - Robert N Baskin
- Eck Institute for Global Health, University of Notre Dame, Notre Dame, Indiana, 46556, USA
| | - Hajar Hasan
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia
| | - Timothy A Burton
- Eck Institute for Global Health, University of Notre Dame, Notre Dame, Indiana, 46556, USA
| | - Muhammad Wardiman
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia
| | - Nur Rahma
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia
| | - Fadly R Saputra
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia
| | - Muhammad Sultanul Aulya
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia
| | - Isra Wahid
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia
| | - Din Syafruddin
- Department of Parasitology, Faculty of Medicine, Hasanuddin University, Makassar, 90245, Indonesia.,Eijkman Institute of Molecular Biology, Jakarta, Indonesia
| | - Frances M Hawkes
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - Neil F Lobo
- Eck Institute for Global Health, University of Notre Dame, Notre Dame, Indiana, 46556, USA
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18
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Applying a pan-flavivirus RT-qPCR assay in Brazilian public health surveillance. Arch Virol 2020; 165:1863-1868. [PMID: 32474687 DOI: 10.1007/s00705-020-04680-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Accepted: 04/24/2020] [Indexed: 10/24/2022]
Abstract
The aim of this study was to improve flavivirus field monitoring in Brazil using a reliable probe-based RT-qPCR assay. Standard flavivirus strains were employed to evaluate the performance of the assay, and its applicability was evaluated using 235 stored pools of Culicidae samples collected between 1993 and 1997 and in 2016. Flavivirus species were identified by sequencing. Sixteen (6.8%) samples tested positive: Ilheus virus, Iguape virus, and Saint Louis encephalitis virus were identified in historical specimens from 1993-1994, while insect-specific flaviviruses were detected in the samples from 2016. This approach was demonstrated to be accurate for flavivirus detection and characterization, and it can be successfully applied for vector surveillance and for monitoring and discovery of insect specific flaviviruses.
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19
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Alzate D, Cajigas S, Robledo S, Muskus C, Orozco J. Genosensors for differential detection of Zika virus. Talanta 2020; 210:120648. [DOI: 10.1016/j.talanta.2019.120648] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2019] [Revised: 12/12/2019] [Accepted: 12/13/2019] [Indexed: 01/26/2023]
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Mosquito-Borne Viruses and Insect-Specific Viruses Revealed in Field-Collected Mosquitoes by a Monitoring Tool Adapted from a Microbial Detection Array. Appl Environ Microbiol 2019; 85:AEM.01202-19. [PMID: 31350319 DOI: 10.1128/aem.01202-19] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Accepted: 07/22/2019] [Indexed: 12/19/2022] Open
Abstract
Several mosquito-borne diseases affecting humans are emerging or reemerging in the United States. The early detection of pathogens in mosquito populations is essential to prevent and control the spread of these diseases. In this study, we tested the potential applicability of the Lawrence Livermore Microbial Detection Array (LLMDA) to enhance biosurveillance by detecting microbes present in Aedes aegypti, Aedes albopictus, and Culex mosquitoes, which are major vector species globally, including in Texas. The sensitivity and reproducibility of the LLMDA were tested in mosquito samples spiked with different concentrations of dengue virus (DENV), revealing a detection limit of >100 but <1,000 PFU/ml. Additionally, field-collected mosquitoes from Chicago, IL, and College Station, TX, of known infection status (West Nile virus [WNV] and Culex flavivirus [CxFLAV] positive) were tested on the LLMDA to confirm its efficiency. Mosquito field samples of unknown infection status, collected in San Antonio, TX, and the Lower Rio Grande Valley (LRGV), TX, were run on the LLMDA and further confirmed by PCR or quantitative PCR (qPCR). The analysis of the field samples with the LLMDA revealed the presence of cell-fusing agent virus (CFAV) in A. aegypti populations. Wolbachia was also detected in several of the field samples (A. albopictus and Culex spp.) by the LLMDA. Our findings demonstrated that the LLMDA can be used to detect multiple arboviruses of public health importance, including viruses that belong to the Flavivirus, Alphavirus, and Orthobunyavirus genera. Additionally, insect-specific viruses and bacteria were also detected in field-collected mosquitoes. Another strength of this array is its ability to detect multiple viruses in the same mosquito pool, allowing for the detection of cocirculating pathogens in an area and the identification of potential ecological associations between different viruses. This array can aid in the biosurveillance of mosquito-borne viruses circulating in specific geographical areas.IMPORTANCE Viruses associated with mosquitoes have made a large impact on public and veterinary health. In the United States, several viruses, including WNV, DENV, and chikungunya virus (CHIKV), are responsible for human disease. From 2015 to 2018, imported Zika cases were reported in the United States, and in 2016 to 2017, local Zika transmission occurred in the states of Texas and Florida. With globalization and a changing climate, the frequency of outbreaks linked to arboviruses will increase, revealing a need to better detect viruses in vector populations. With the capacity of the LLMDA to detect viruses, bacteria, and fungi, this study highlights its ability to broadly screen field-collected mosquitoes and contribute to the surveillance and management of arboviral diseases.
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Cao Y, Fu S, Song S, Cai L, Zhang H, Gao L, Cao L, Li M, Gao X, He Y, Wang H, Liang G. Isolation and Genome Phylogenetic Analysis of Arthropod-Borne Viruses, Including Akabane Virus, from Mosquitoes Collected in Hunan Province, China. Vector Borne Zoonotic Dis 2018; 19:62-72. [PMID: 30526411 DOI: 10.1089/vbz.2018.2267] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
This study investigated the abundance of mosquitoes and circulation of mosquito-borne arboviruses from 16 villages in 8 cities of Hunan Province, China, in July-August of 2010 and in August of 2011. In total, 16,076 mosquitoes consisting of seven species from four genera were collected by ultraviolet-light trap. Culex quinquefasciatus was the most common species, accounting for 50.63% (8140/16,076) of the total. Anopheles sinensis (24.26%, 3900/16,076) made up the second most common species, followed by Culex tritaeniorhynchus (9.76%, 1569/16,076). The proportions of Culex pipiens pallens, Armigeres subalbatus, and Culex modestus were 6.7%, 5.2%, and 3.31%, respectively. Fourteen Aedes albopictus were detected. The mosquitoes were identified by morphologic characteristics and frozen in liquid nitrogen. The mosquitoes were pooled, triturated, and centrifuged. The clarified supernatant was used to inoculate monolayers of C6/36 and baby hamster kidney-21 cells. We obtained six virus isolates that caused cytopathic effects. Phylogenetic analysis revealed that two isolates were Akabane virus (AKAV, from A. sinensis and C. quinquefasciatus), two isolates were Japanese encephalitis virus (from C. pipiens pallens and C. quinquefasciatus), and two isolates were Tibet orbivirus (from C. quinquefasciatus and C. tritaeniorhynchus). This is the first report of AKAV isolated from A. sinensis and C. quinquefasciatus in nature in China. The detection of AKAV in these species confirms circulation of AKAV in Hunan province and suggests potential challenges to the prevention and control of arthropod-borne animal viruses in mainland China.
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Affiliation(s)
- Yuxi Cao
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Shihong Fu
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Song Song
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China.,3 Qingdao University, Qingdao, China
| | - Liang Cai
- 4 Hunan Center for Disease Control and Prevention, Changsha, China
| | - Hong Zhang
- 4 Hunan Center for Disease Control and Prevention, Changsha, China
| | - Lidong Gao
- 4 Hunan Center for Disease Control and Prevention, Changsha, China
| | - Lei Cao
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Minghua Li
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Xiaoyan Gao
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Ying He
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Huanyu Wang
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Guodong Liang
- 1 State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,2 Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
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22
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Detection of central nervous system viral infections in adults in Manado, North Sulawesi, Indonesia. PLoS One 2018; 13:e0207440. [PMID: 30444898 PMCID: PMC6239303 DOI: 10.1371/journal.pone.0207440] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2018] [Accepted: 10/31/2018] [Indexed: 02/08/2023] Open
Abstract
Central nervous system (CNS) viral infections are important causes of morbidity and mortality worldwide but the systematic survey of patients admitted to hospitals with CNS infections in many countries, including Indonesia, is limited. To obtain more information regarding the causes of CNS infections in Indonesia, this study was performed to detect and identify viral agents associated with CNS infections amongst in-patients at a referral hospital in Manado, North Sulawesi, Indonesia. Adult patients admitted to R.D. Kandou General Hospital with presumed CNS infection were enrolled. Cerebrospinal fluid, serum, and throat swab samples were collected and tested using molecular, serological, and virus isolation assays. A confirmed viral etiology was established in three and a probable/possible in 11 out of 74 patients. The most common was herpes simplex virus 1 (7/74, 9.5%), followed by Epstein-Barr virus (2/74, 2.7%), cytomegalovirus (1/74, 1.4%), enterovirus D68 (1/74, 1.4%), rhinovirus A (1/74, 1.4%), dengue virus (1/64, 1.6%), and Japanese encephalitis virus (1/64, 1.6%). There were 20 fatal cases (27.0%) during hospitalization in which eight were associated with viral causes. We identified herpes simplex virus 1 as the most common cause of CNS infection among adults in North Sulawesi with most of the cases remaining undiagnosed. Our study highlights the challenges in establishing the etiology of viral CNS infections and the importance of using a wide range of molecular and serological detection methods to identify CNS viruses.
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He X, Zhao J, Fu S, Yao L, Gao X, Liu Y, He Y, Liang G, Wang H. Complete Genomic Characterization of Three Tick-Borne Encephalitis Viruses Detected Along the China-North Korea Border, 2011. Vector Borne Zoonotic Dis 2018; 18:554-559. [PMID: 29742014 DOI: 10.1089/vbz.2017.2173] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
Tick-borne encephalitis virus (TBEV) causes neurological infections with serious sequelae in Europe and Northeast Asia. In China, the major epidemic areas are along the borders with Russia and North Korea. Although several TBEV isolates have been reported, the biological characteristics of the Chinese strains, especially those along the China-North Korea border, are unclear. In this study, we detected seven TBEV fragment sequences in 602 adult Dermacentor silvarum collected in the Changbai Mountain area of Jilin Province on the China-North Korea border and characterized the genome of three TBEV strains (JLCB11-08, JLCB11-35, and JLCB11-40). These three TBEV strains belong to the TBEV-Far Eastern (TBEV-FE) genotype and clustered most closely with the Svetlogorie and Kavalerovo strains from Russia. In addition, the TBEV strains from Northeast China clustered geographically within the TBEV-FE subtype branch. These findings will facilitate further research on the distinct genetic groupings of TBEV strains in China.
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Affiliation(s)
- Xiaoxia He
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
| | - Junwei Zhao
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
| | - Shihong Fu
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
| | - Lisi Yao
- 3 Chinese Academy of Inspection and Quarantine , Beijing, People's Republic of China
| | - Xiaoyan Gao
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
| | - Yan Liu
- 4 School of Basic Medical Sciences, Harbin Medical University , Harbin, People's Republic of China
| | - Ying He
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
| | - Guodong Liang
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
| | - Huanyu Wang
- 1 Department of Viral Encephalitis, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China .,2 State Key Laboratory of Infectious Disease Prevention and Control, Chinese Center for Disease Control and Prevention , Beijing, People's Republic of China
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24
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Salles TS, da Encarnação Sá-Guimarães T, de Alvarenga ESL, Guimarães-Ribeiro V, de Meneses MDF, de Castro-Salles PF, dos Santos CR, do Amaral Melo AC, Soares MR, Ferreira DF, Moreira MF. History, epidemiology and diagnostics of dengue in the American and Brazilian contexts: a review. Parasit Vectors 2018; 11:264. [PMID: 29690895 PMCID: PMC5937836 DOI: 10.1186/s13071-018-2830-8] [Citation(s) in RCA: 74] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2017] [Accepted: 04/03/2018] [Indexed: 12/02/2022] Open
Abstract
Dengue virus (DENV), an arbovirus transmitted by mosquitoes, has become a major threat to American human life, reaching approximately 23 million cases from 1980 to 2017. Brazil is among the countries most affected by this terrible viral disease, with 13.6 million cases. DENV has four different serotypes, DENV1-4, which show a broad clinical spectrum. Dengue creates a staggering epidemiological and economic burden for endemic countries. Without a specific therapy and with a commercial vaccine that presents some problems relative to its full effectiveness, initiatives to improve vector control strategies, early disease diagnostics and the development of vaccines and antiviral drugs are priorities. In this study, we present the probable origins of dengue in America and the trajectories of its spread. Overall, dengue diagnostics are costly, making the monitoring of dengue epidemiology more difficult and affecting physicians' therapeutic decisions regarding dengue patients, especially in developing countries. This review also highlights some recent and important findings regarding dengue in Brazil and the Americas. We also summarize the existing DENV polymerase chain reaction (PCR) diagnostic tests to provide an improved reference since these tests are useful and accurate at discriminating DENV from other flaviviruses that co-circulate in the Americas. Additionally, these DENV PCR assays ensure virus serotyping, enabling epidemiologic monitoring.
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Affiliation(s)
- Tiago Souza Salles
- Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-909 Brazil
- Departamento de Virologia, Instituto de Microbiologia, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ 21941-590 Brazil
| | | | - Evelyn Seam Lima de Alvarenga
- Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-909 Brazil
| | - Victor Guimarães-Ribeiro
- Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-909 Brazil
| | | | | | - Carlucio Rocha dos Santos
- Universidade Federal do Rio de Janeiro, Instituto de Bioquímica Médica, Rio de Janeiro, RJ 21941-902 Brazil
| | - Ana Claudia do Amaral Melo
- Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-909 Brazil
- Instituto Nacional de Ciência e Tecnologia em Entomologia Molecular, Rio de Janeiro, 21941-902 RJ Brazil
| | - Marcia Regina Soares
- Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-909 Brazil
| | - Davis Fernandes Ferreira
- Departamento de Virologia, Instituto de Microbiologia, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ 21941-590 Brazil
- Department of Molecular and Structural Biochemistry, North Carolina State University, 120 W Broughton Dr, Raleigh, NC USA
| | - Monica Ferreira Moreira
- Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-909 Brazil
- Instituto Nacional de Ciência e Tecnologia em Entomologia Molecular, Rio de Janeiro, 21941-902 RJ Brazil
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25
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Nunes AR, Alves BEB, Pereira HW, Nascimento YM, Morais IC, Fernandes JV, Araújo JM, Lanza DC. Improved reverse transcription-polymerase chain reaction assay for the detection of flaviviruses with semi-nested primers for discrimination between dengue virus serotypes and Zika virus. Mem Inst Oswaldo Cruz 2018. [PMID: 29513820 PMCID: PMC5853760 DOI: 10.1590/0074-02760170393] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
BACKGROUND The genus Flavivirus includes a variety of medically important viruses, including dengue virus (DENV) and Zika virus (ZIKV), which are most prevalent in Brazil. Because the clinical profile of patients affected by different DENV serotypes or ZIKV may be similar, the development of new methods that facilitate a rapid and accurate diagnosis is crucial. OBJECTIVES The current study aimed to develop an improved reverse transcription-polymerase chain reaction (RT-PCR) protocol for universal detection of flaviviruses by using semi-nested primers that discriminate between DENV serotypes and ZIKV. METHODS The bioinformatics workflow adopted for primer design included: (1) alignment of 1,442 flavivirus genome sequences, (2) characterisation of 27 conserved regions, (3) generation of a primer set comprising 77 universal primers, and (4) selection of primer pairs with greatest coverage and specificity. Following primer design, the reaction was validated in vitro. The same approach was applied to the design of primers specific for DENV and ZIKV, using a species-specific sequence database. FINDINGS The new assay amplified an 800-806 nt variable region of the NS5 gene and allowed discrimination of virtually all flavivirus species using reference-sequence comparison. The 800-806 nt fragment was validated as a template for a semi-nested multiplex PCR using five additional primers for the detection of DENV and ZIKV. These primers were designed to generate amplicons of different sizes, allowing differentiation of the four serotypes of DENV, and ZIKV using agarose gel electrophoresis. MAIN CONCLUSIONS The bioinformatics pipeline allowed efficient primer design, making it possible to identify the best targets within the coding region of the NS5 protein. The multiplex system proved effective in differentiation of DENV1-4 and ZIKV on a 2% agarose gel. The possibility of discriminating DENV serotypes and ZIKV in the same reaction provided a faster result consuming less sample. In addition, this simplified approach ensured the reduction of the cost per analysis.
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Affiliation(s)
- Allan Rd Nunes
- Laboratório de Biologia Molecular Aplicada, Departamento de Bioquímica, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - Brenda Elen B Alves
- Laboratório de Biologia Molecular de Doenças Infecciosas e Câncer, Departamento de Microbiologia e Parasitologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - Hannaly Wb Pereira
- Laboratório de Biologia Molecular de Doenças Infecciosas e Câncer, Departamento de Microbiologia e Parasitologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - Yasmin M Nascimento
- Laboratório de Biologia Molecular de Doenças Infecciosas e Câncer, Departamento de Microbiologia e Parasitologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - Ingryd C Morais
- Laboratório de Biologia Molecular de Doenças Infecciosas e Câncer, Departamento de Microbiologia e Parasitologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - José Veríssimo Fernandes
- Laboratório de Biologia Molecular de Doenças Infecciosas e Câncer, Departamento de Microbiologia e Parasitologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - Josélio Mg Araújo
- Laboratório de Biologia Molecular de Doenças Infecciosas e Câncer, Departamento de Microbiologia e Parasitologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
| | - Daniel Cf Lanza
- Laboratório de Biologia Molecular Aplicada, Departamento de Bioquímica, Universidade Federal do Rio Grande do Norte, Natal, RN, Brasil
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26
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Dhenni R, Karyanti MR, Putri ND, Yohan B, Yudhaputri FA, Ma'roef CN, Fadhilah A, Perkasa A, Restuadi R, Trimarsanto H, Mangunatmadja I, Ledermann JP, Rosenberg R, Powers AM, Myint KSA, Sasmono RT. Isolation and complete genome analysis of neurotropic dengue virus serotype 3 from the cerebrospinal fluid of an encephalitis patient. PLoS Negl Trop Dis 2018; 12:e0006198. [PMID: 29329287 PMCID: PMC5809095 DOI: 10.1371/journal.pntd.0006198] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Revised: 02/12/2018] [Accepted: 12/28/2017] [Indexed: 11/19/2022] Open
Abstract
Although neurological manifestations associated with dengue viruses (DENV) infection have been reported, there is very limited information on the genetic characteristics of neurotropic DENV. Here we describe the isolation and complete genome analysis of DENV serotype 3 (DENV-3) from cerebrospinal fluid of an encephalitis paediatric patient in Jakarta, Indonesia. Next-generation sequencing was employed to deduce the complete genome of the neurotropic DENV-3 isolate. Based on complete genome analysis, two unique and nine uncommon amino acid changes in the protein coding region were observed in the virus. A phylogenetic tree and molecular clock analysis revealed that the neurotropic virus was a member of Sumatran-Javan clade of DENV-3 genotype I and shared a common ancestor with other isolates from Jakarta around 1998. This is the first report of neurotropic DENV-3 complete genome analysis, providing detailed information on the genetic characteristics of this virus. Dengue viruses (DENV) are viruses that can cause asymptomatic infection to life-threatening haemorrhagic fever disease. Although DENV are not classically known to infect and invade central nervous system (CNS) in human, numerous cases of DENV infection in the CNS have been reported with limited information about the characteristics of the infecting virus. Here, we report the isolation and first complete genome analysis of DENV serotype 3 (DENV-3) from cerebrospinal fluid of a patient diagnosed with dengue encephalitis in Jakarta, Indonesia. By using next-generation sequencing strategy, we recovered the complete genome of the virus isolate and identified unique amino acid changes not found in any other recovered DENV-3 strains. The virus was determined to be closely related to isolates from Jakarta, Indonesia, which have been circulating for almost four decades.
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Affiliation(s)
- Rama Dhenni
- Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | - Mulya Rahma Karyanti
- Department of Paediatrics, Dr. Cipto Mangunkusumo National Central Hospital, Faculty of Medicine, Universitas Indonesia, Jakarta, Indonesia
| | - Nina Dwi Putri
- Department of Paediatrics, Dr. Cipto Mangunkusumo National Central Hospital, Faculty of Medicine, Universitas Indonesia, Jakarta, Indonesia
| | | | | | | | | | - Aditya Perkasa
- Eijkman Institute for Molecular Biology, Jakarta, Indonesia
| | | | | | - Irawan Mangunatmadja
- Department of Paediatrics, Dr. Cipto Mangunkusumo National Central Hospital, Faculty of Medicine, Universitas Indonesia, Jakarta, Indonesia
| | - Jeremy P. Ledermann
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, Colorado, United States of America
| | - Ronald Rosenberg
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, Colorado, United States of America
| | - Ann M. Powers
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, Colorado, United States of America
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Batovska J, Lynch SE, Cogan NOI, Brown K, Darbro JM, Kho EA, Blacket MJ. Effective mosquito and arbovirus surveillance using metabarcoding. Mol Ecol Resour 2017; 18:32-40. [PMID: 28417591 PMCID: PMC5811807 DOI: 10.1111/1755-0998.12682] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2016] [Revised: 02/13/2017] [Accepted: 04/03/2017] [Indexed: 01/04/2023]
Abstract
Effective vector and arbovirus surveillance requires timely and accurate screening techniques that can be easily upscaled. Next-generation sequencing (NGS) is a high-throughput technology that has the potential to modernize vector surveillance. When combined with DNA barcoding, it is termed 'metabarcoding.' The aim of our study was to establish a metabarcoding protocol to characterize pools of mosquitoes and screen them for virus. Pools contained 100 morphologically identified individuals, including one Ross River virus (RRV) infected mosquito, with three species present at different proportions: 1, 5, 94%. Nucleic acid extracted from both crude homogenate and supernatant was used to amplify a 269-bp section of the mitochondrial cytochrome c oxidase subunit I (COI) locus. Additionally, a 67-bp region of the RRV E2 gene was amplified from synthesized cDNA to screen for RRV. Amplicon sequencing was performed using an Illumina MiSeq, and bioinformatic analysis was performed using a DNA barcode database of Victorian mosquitoes. Metabarcoding successfully detected all mosquito species and RRV in every positive sample tested. The limits of species detection were also examined by screening a pool of 1000 individuals, successfully identifying the species and RRV from a single mosquito. The primers used for amplification, number of PCR cycles and total number of individuals present all have effects on the quantification of species in mixed bulk samples. Based on the results, a number of recommendations for future metabarcoding studies are presented. Overall, metabarcoding shows great promise for providing a new alternative approach to screening large insect surveillance trap catches.
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Affiliation(s)
- J Batovska
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Vic, Australia
| | - S E Lynch
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Vic, Australia
| | - N O I Cogan
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Vic, Australia.,School of Applied Systems Biology, La Trobe University, Bundoora, Vic, Australia
| | - K Brown
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Vic, Australia
| | - J M Darbro
- Mosquito Control Laboratory, QIMR Berghofer Medical Research Institute, Brisbane, Qld, Australia
| | - E A Kho
- Mosquito Control Laboratory, QIMR Berghofer Medical Research Institute, Brisbane, Qld, Australia
| | - M J Blacket
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Vic, Australia
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Camp JV, Nowotny N. Rapid detection of European orthobunyaviruses by reverse transcription loop-mediated isothermal amplification assays. J Virol Methods 2016; 236:252-257. [PMID: 27491341 DOI: 10.1016/j.jviromet.2016.08.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2016] [Revised: 07/25/2016] [Accepted: 08/01/2016] [Indexed: 11/16/2022]
Abstract
The development of reverse transcriptase loop-mediated isothermal amplification (RT-LAMP) assays are described herein for the detection of two orthobunyaviruses (Bunyaviridae), which represent the two main serogroups found in mosquitoes in Central Europe. The RT-LAMP assays were optimized for the detection of Ťahyňa virus (a California encephalitis group virus found in Aedes sp or Ochlerotatus sp mosquitoes) and Batai virus (also called Čalovo virus, a Bunyamwera group virus found in Anopheles maculipennis s.l. mosquitoes) nucleic acid using endemic European virus isolates. The sensitivity of the RT-LAMP assays was determined to be comparable to that of conventional tests, with a limit of detection<0.1 pfu per reaction. The assays can be performed in 60min under isothermal conditions using very simple equipment. Furthermore, it was possible to proceed with the assays without nucleic acid extraction, albeit at a 100-fold loss of sensitivity. The RT-LAMP assays are a sensitive, cost-efficient method for both arbovirus surveillance as well as diagnostic laboratories to detect the presence of these endemic orthobunyaviruses.
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Affiliation(s)
- Jeremy V Camp
- Institute for Virology, University of Veterinary Medicine, Vienna, Austria.
| | - Norbert Nowotny
- Institute for Virology, University of Veterinary Medicine, Vienna, Austria; Department of Basic Medical Sciences, College of Medicine, Mohammed Bin Rashid University of Medicine and Health Sciences, Dubai, United Arab Emirates
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29
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Molecular biomarkers to assess health risks due to environmental contaminants exposure. BIOMEDICA 2016; 36:309-35. [PMID: 27622493 DOI: 10.7705/biomedica.v36i3.2998] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2015] [Revised: 12/11/2015] [Indexed: 11/21/2022]
Abstract
Biomarkers, or bioindicators, are metric tools that, when compared with reference values, allow specialists to perform risk assessments and provide objective information to decision makers to design effective strategies to solve health or environmental problems by efficiently using the resources assigned. Health risk assessment is a multidisciplinary exercise, and molecular biology is a discipline that greatly contributes to these evaluations because the genome, transcriptome, proteome and metabolome could be affected by xenobiotics causing measurable changes that might be useful biomarkers. Such changes may greatly depend on individual genetic background; therefore, the polymorphic distribution of exposed populations becomes an essential feature for adequate data interpretation. The aim of this paper is to offer an up-to-date review of the role of different molecular biomarkers in health risk assessments.
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Springer YP, Hoekman D, Johnson PTJ, Duffy PA, Hufft RA, Barnett DT, Allan BF, Amman BR, Barker CM, Barrera R, Beard CB, Beati L, Begon M, Blackmore MS, Bradshaw WE, Brisson D, Calisher CH, Childs JE, Diuk‐Wasser M, Douglass RJ, Eisen RJ, Foley DH, Foley JE, Gaff HD, Gardner SL, Ginsberg HS, Glass GE, Hamer SA, Hayden MH, Hjelle B, Holzapfel CM, Juliano SA, Kramer LD, Kuenzi AJ, LaDeau SL, Livdahl TP, Mills JN, Moore CG, Morand S, Nasci RS, Ogden NH, Ostfeld RS, Parmenter RR, Piesman J, Reisen WK, Savage HM, Sonenshine DE, Swei A, Yabsley MJ. Tick‐, mosquito‐, and rodent‐borne parasite sampling designs for the National Ecological Observatory Network. Ecosphere 2016. [DOI: 10.1002/ecs2.1271] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
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Csank T, Bhide K, Bencúrová E, Dolinská S, Drzewnioková P, Major P, Korytár Ľ, Bocková E, Bhide M, Pistl J. Detection of West Nile virus and tick-borne encephalitis virus in birds in Slovakia, using a universal primer set. Arch Virol 2016; 161:1679-83. [PMID: 27001305 DOI: 10.1007/s00705-016-2828-5] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2015] [Accepted: 03/12/2016] [Indexed: 10/22/2022]
Abstract
West Nile virus (WNV) is a mosquito-borne neurotropic pathogen that presents a major public health concern. Information on WNV prevalence and circulation in Slovakia is insufficient. Oral and cloacal swabs and bird brain samples were tested for flavivirus RNA by RT-PCR using newly designed generic primers. The species designation was confirmed by sequencing. WNV was detected in swab and brain samples, whereas one brain sample was positive for tick-borne encephalitis virus (TBEV). The WNV sequences clustered with lineages 1 and 2. These results confirm the circulation of WNV in birds in Slovakia and emphasize the risk of infection of humans and horses.
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Affiliation(s)
- Tomáš Csank
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia
| | - Katarína Bhide
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia
| | - Elena Bencúrová
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia
| | - Saskia Dolinská
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia
| | - Petra Drzewnioková
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia
| | - Peter Major
- Clinic for Birds and Exotic Animals, University of Veterinary Medicine and Pharmacy in Košice, Košice, Slovakia
| | - Ľuboš Korytár
- Department of the Environment, Veterinary Legislation and Economy, University of Veterinary Medicine and Pharmacy in Košice, Košice, Slovakia
| | - Eva Bocková
- Department of Epizootology and Parasitology, University of Veterinary Medicine and Pharmacy in Košice, Košice, Slovakia
| | - Mangesh Bhide
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia
| | - Juraj Pistl
- Department of Microbiology and Immunology, University of Veterinary Medicine and Pharmacy in Košice, Komenského 73, 041 81, Košice, Slovakia.
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Ergunay K, Tkachev S, Kozlova I, Růžek D. A Review of Methods for Detecting Tick-Borne Encephalitis Virus Infection in Tick, Animal, and Human Specimens. Vector Borne Zoonotic Dis 2016; 16:4-12. [DOI: 10.1089/vbz.2015.1896] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Affiliation(s)
- Koray Ergunay
- Hacettepe University, Faculty of Medicine, Department of Medical Microbiology, Virology Unit, Sihhiye Ankara, Turkey
| | - Sergey Tkachev
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia
| | - Irina Kozlova
- FSSFE Scientific Centre of Family Health and Human Reproduction Problems, Siberian Branch of the Russian Academy of Medical Sciences, Irkutsk, Russia
| | - Daniel Růžek
- Veterinary Research Institute, Brno, Czech Republic
- Institute of Parasitology, Biology Centre of the Czech Academy of Sciences, and Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic
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Guo XX, Zhang YM, Li CX, Zhang GL, Zheng Z, Dong YD, Xue RD, Xing D, Zhao TY. Host-Seeking Behavior and Arbovirus Detection in Mosquitoes of Habahe County, Xinjiang Uigur Autonomous Region, China. JOURNAL OF THE AMERICAN MOSQUITO CONTROL ASSOCIATION 2015; 31:329-335. [PMID: 26675454 DOI: 10.2987/moco-31-04-329-335.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Mosquitoes in Habahe County of Xinjiang Uigur Autonomous Region in China are considered a serious nuisance problem to local residents, but little is known of their role in enzootic disease. Therefore, host-seeking behavior and virus detection in mosquitoes were investigated in this study. Adult host-seeking mosquitoes were sampled using the Centers for Disease Control and Prevention (CDC) light traps operated at three locations in June through August 2008. Nine traps were used at each location at 3 different heights (1 m, 3 m, and 5 m). Seven mosquito species from 4 genera were collected by CDC light traps in different habitats. In total, 90,055 mosquitoes were captured, of which Aedes vexans was the most abundant species, comprising 88.02% of all mosquitoes collected. The second most abundant species was Anopheles messese, which comprised about 5.86%. Other species caught were Culex modestus (2.89%), Aedes caspius (1.11%), Coquillettidia richiardii (0.61%), Ae. dorsalis (1.36%), and An. hyrcanus (0.14%). About 93.5% of Ae. vexans individuals were caught in CO2-baited CDC light traps at 1 m above the ground. The highest numbers of Cx. modestus were caught at the highest trap level, 5 m above ground. Overall, significantly more mosquitoes of all species were collected at dusk than at dawn. Based on blood-meal analyses, Ae. vexans and An. messese fed on various vertebrate hosts, whereas Cx. modestus fed on ducks only. From a total of 335 mosquito pools tested, 10 pools of Ae. vexans were found positive for alphavirus. Comparison with the gene database revealed that the alphavirus deoxyribonucleic acid fragment obtained (GenBank accession no. HM160530) was 100% homologous at the nucleotide level to chikungunya virus isolate LK (PB) chik3408, chikungunya virus isolate SGEHICHD122508, and chikungunya virus strain FD080231. The results of this study suggest that ongoing, integrated mosquito and arbovirus surveillance is necessary in this river wetland.
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Affiliation(s)
- Xiao-Xia Guo
- 1 Department of Vector Biology and Control, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Ying-Mei Zhang
- 1 Department of Vector Biology and Control, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Chun-Xiao Li
- 1 Department of Vector Biology and Control, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Gui-Lin Zhang
- 2 Center for Disease Control and Prevention, Urumqi, Xinjiang 8300, China
| | - Zhong Zheng
- 2 Center for Disease Control and Prevention, Urumqi, Xinjiang 8300, China
| | - Yan-De Dong
- 1 Department of Vector Biology and Control, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Rui-De Xue
- 3 Anastasia Mosquito Control District, 500 Old Beach Road, St. Augustine, FL 32080, USA
| | - Dan Xing
- 1 Department of Vector Biology and Control, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Tong-Yan Zhao
- 1 Department of Vector Biology and Control, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
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Hu SF, Li M, Zhong LL, Lu SM, Liu ZX, Pu JY, Wen JS, Huang X. Development of reverse-transcription loop-mediated isothermal amplification assay for rapid detection and differentiation of dengue virus serotypes 1-4. BMC Microbiol 2015; 15:265. [PMID: 26572227 PMCID: PMC4647581 DOI: 10.1186/s12866-015-0595-1] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2015] [Accepted: 10/30/2015] [Indexed: 12/03/2022] Open
Abstract
Background Dengue virus (DENV), the most widely prevalent arbovirus, continues to be a threat to human health in the tropics and subtropics. Early and rapid detection of DENV infection during the acute phase of illness is crucial for proper clinical patient management and preventing the spread of infection. The aim of the current study was to develop a specific, sensitive, and robust reverse transcriptase loop-mediated isothermal amplification (RT-LAMP) assay for detection and differentiation of DENV1-4 serotypes. Results The method detection primers, which were designed to target the different DENV serotypes, were identified by inspection of multiple sequence alignments of the non-structural protein (NS) 2A of DENV1, NS4B of DENV2, NS4A of DENV3 and the 3′ untranslated region of the NS protein of DENV4. No cross-reactions of the four serotypes were observed during the tests. The detection limits of the DENV1-4-specific RT-LAMP assays were approximately 10-copy templates per reaction. The RT-LAMP assays were ten-fold more sensitive than RT-PCR or real-time PCR. The diagnostic rate was 100 % for clinical strains of DENV, and 98.9 % of the DENV-infected patients whose samples were tested were detected by RT-LAMP. Importantly, no false-positives were detected with the new equipment and methodology that was used to avoid aerosol contamination of the samples. Conclusion The RT-LAMP method used in our study is specific, sensitive, and suitable for further investigation as a useful alternative to the current methods used for clinical diagnosis of DENV1-4, especially in hospitals and laboratories that lack sophisticated diagnostic systems.
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Affiliation(s)
- Sheng-feng Hu
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China.
| | - Miao Li
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China.
| | - Lan-lan Zhong
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China.
| | - Shi-miao Lu
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China.
| | - Ze-xia Liu
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China.
| | - Jie-ying Pu
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China.
| | - Jin-sheng Wen
- Department of microbiology and immunology, Wenzhou, Medical University, Wenzhou, China.
| | - Xi Huang
- Program of Immunology, Institute of Human Virology, Affiliated Guangzhou Women and Children's Medical Center, Zhongshan School of Medicine, Sun Yat-sen University, 74 Zhongshan 2nd Road, Guangzhou, 510080, China. .,Key Laboratory of Tropical Diseases Control (Sun Yat-sen University), Ministry of Education, Guangzhou, 510080, China. .,Department of microbiology and immunology, Wenzhou, Medical University, Wenzhou, China.
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Goenaga S, Kenney JL, Duggal NK, Delorey M, Ebel GD, Zhang B, Levis SC, Enria DA, Brault AC. Potential for Co-Infection of a Mosquito-Specific Flavivirus, Nhumirim Virus, to Block West Nile Virus Transmission in Mosquitoes. Viruses 2015; 7:5801-12. [PMID: 26569286 PMCID: PMC4664984 DOI: 10.3390/v7112911] [Citation(s) in RCA: 94] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2015] [Revised: 10/28/2015] [Accepted: 11/03/2015] [Indexed: 11/16/2022] Open
Abstract
Nhumirim virus (NHUV) is an insect-specific virus that phylogenetically affiliates with dual-host mosquito-borne flaviviruses. Previous in vitro co-infection experiments demonstrated prior or concurrent infection of Aedes albopictus C6/36 mosquito cells with NHUV resulted in a 10,000-fold reduction in viral production of West Nile virus (WNV). This interference between WNV and NHUV was observed herein in an additional Ae. albopictus mosquito cell line, C7-10. A WNV 2K peptide (V9M) mutant capable of superinfection with a pre-established WNV infection demonstrated a comparable level of interference from NHUV as the parental WNV strain in C6/36 and C7-10 cells. Culex quinquefasciatus and Culex pipiens mosquitoes intrathoracically inoculated with NHUV and WNV, or solely with WNV as a control, were allowed to extrinsically incubate the viruses up to nine and 14 days, respectively, and transmissibility and replication of WNV was determined. The proportion of Cx. quinquefasciatus mosquitoes capable of transmitting WNV was significantly lower for the WNV/NHUV group than the WNV control at seven and nine days post inoculation (dpi), while no differences were observed in the Cx. pipiens inoculation group. By dpi nine, a 40% reduction in transmissibility in mosquitoes from the dual inoculation group was observed compared to the WNV-only control. These data indicate the potential that infection of some Culex spp. vectors with NHUV could serve as a barrier for efficient transmissibility of flaviviruses associated with human disease.
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Affiliation(s)
- Silvina Goenaga
- Instituto Nacional de Enfermedades Virales Humanas, Pergamino 2700, Argentina.
| | - Joan L Kenney
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, CO 80521, USA.
| | - Nisha K Duggal
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, CO 80521, USA.
| | - Mark Delorey
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, CO 80521, USA.
| | - Gregory D Ebel
- Department of Microbiology, Immunology and Pathology, Colorado State University, Fort Collins, CO 80523, USA.
| | - Bo Zhang
- Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan, Hubei 430071, China.
| | - Silvana C Levis
- Instituto Nacional de Enfermedades Virales Humanas, Pergamino 2700, Argentina.
| | - Delia A Enria
- Instituto Nacional de Enfermedades Virales Humanas, Pergamino 2700, Argentina.
| | - Aaron C Brault
- Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, Fort Collins, CO 80521, USA.
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Do LP, Bui TM, Hasebe F, Morita K, Phan NT. Molecular epidemiology of Japanese encephalitis in northern Vietnam, 1964-2011: genotype replacement. Virol J 2015; 12:51. [PMID: 25889499 PMCID: PMC4417254 DOI: 10.1186/s12985-015-0278-4] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2014] [Accepted: 03/11/2015] [Indexed: 12/30/2022] Open
Abstract
BACKGROUND Japanese encephalitis virus (JEV) is an arthropod-borne virus causing serious public health issues in Asia. JEV consists of five genotypes and recent studies have shown the emergence of JEV genotype I (GI) and its replacement of genotype III (GIII). Using an archival JEV collection, we investigated the molecular evolution of JEV in Vietnam over the last 48 years (1964-2012) in humans, mosquitoes, and pigs, within the global context. METHODS The nine JEV isolates from humans, pigs, and mosquitoes sequenced in this study and 29 sequences available in GenBank were used to analyze the envelope (E) protein of the Vietnamese JEVs. A collection of 225 cerebrospinal fluid specimens from patients with suspected Japanese encephalitis (JE) was also tested and genotyped with real-time RT-PCR. RESULTS The 38 E genes identified with sequencing and nine Vietnamese JEV strains genotyped with real-time RT-PCR, belonging to two lineages, evolved in accordance with those in the rest of the world. The first GIII strain was detected in humans in Vietnam in 1964, and in mosquitoes in 1979, whereas GI strains were first detected in humans and mosquitoes in 1990 and 1994, respectively. After 2004, GI was the only genotype detected in Vietnam, demonstrating that the GIIII strains had been displaced by GI strains. Five haplotypes were identified in the Vietnamese JEVs, with SKSS predominant. The S123N and S123R substitutions in the E protein were already present in the Vietnamese JEVs. CONCLUSION This study describes the long evolutionary history of JEV in Vietnam over 34 years, which correlates well with the global evolution of JEV. The Vietnamese GIII strains have been replaced by GI strains in mosquitoes, pigs, and humans. The predominant haplotypes of the Vietnamese strains support this genotype displacement in Vietnam. Further surveillance is required to confirm the disappearance of the GIII strains in nature and the emergence of new pathogens causing encephalitis in Vietnam, after the long-term use of JEV vaccines in that country.
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Affiliation(s)
- Loan Phuong Do
- National Institute of Hygiene and Epidemiology, Hanoi, 10000, Vietnam.
| | - Trang Minh Bui
- National Institute of Hygiene and Epidemiology, Hanoi, 10000, Vietnam.
| | - Futoshi Hasebe
- Institute of Tropical Medicine, Nagasaki University, Nagasaki, 852-8523, Japan.
| | - Kouichi Morita
- Institute of Tropical Medicine, Nagasaki University, Nagasaki, 852-8523, Japan.
| | - Nga Thi Phan
- National Institute of Hygiene and Epidemiology, Hanoi, 10000, Vietnam.
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Beasley DWC, McAuley AJ, Bente DA. Yellow fever virus: genetic and phenotypic diversity and implications for detection, prevention and therapy. Antiviral Res 2014; 115:48-70. [PMID: 25545072 DOI: 10.1016/j.antiviral.2014.12.010] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2014] [Revised: 12/05/2014] [Accepted: 12/11/2014] [Indexed: 11/28/2022]
Abstract
Yellow fever virus (YFV) is the prototypical hemorrhagic fever virus, yet our understanding of its phenotypic diversity and any molecular basis for observed differences in disease severity and epidemiology is lacking, when compared to other arthropod-borne and haemorrhagic fever viruses. This is, in part, due to the availability of safe and effective vaccines resulting in basic YFV research taking a back seat to those viruses for which no effective vaccine occurs. However, regular outbreaks occur in endemic areas, and the spread of the virus to new, previously unaffected, areas is possible. Analysis of isolates from endemic areas reveals a strong geographic association for major genotypes, and recent epidemics have demonstrated the emergence of novel sequence variants. This review aims to outline the current understanding of YFV genetic and phenotypic diversity and its sources, as well as the available animal models for characterizing these differences in vivo. The consequences of genetic diversity for detection and diagnosis of yellow fever and development of new vaccines and therapeutics are discussed.
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Affiliation(s)
- David W C Beasley
- Department of Microbiology and Immunology, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States; Sealy Center for Vaccine Development, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States; Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States; Institute for Human Infections and Immunity, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States.
| | - Alexander J McAuley
- Department of Microbiology and Immunology, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States
| | - Dennis A Bente
- Department of Microbiology and Immunology, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States; Sealy Center for Vaccine Development, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States; Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States; Institute for Human Infections and Immunity, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, United States
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The complete sequence of a West Nile virus lineage 2 strain detected in a Hyalomma marginatum marginatum tick collected from a song thrush (Turdus philomelos) in eastern Romania in 2013 revealed closest genetic relationship to strain Volgograd 2007. PLoS One 2014; 9:e109905. [PMID: 25279973 PMCID: PMC4184904 DOI: 10.1371/journal.pone.0109905] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2014] [Accepted: 08/29/2014] [Indexed: 11/19/2022] Open
Abstract
In this study the first complete sequence of the West Nile virus (WNV) lineage 2 strain currently circulating in Romania was determined. The virus was detected in a Hyalomma marginatum marginatum tick collected from a juvenile song thrush (Turdus philomelos) in the Romanian Danube Delta close to the city of Tulcea, end of August 2013. Our finding emphasizes the role of ticks in introduction and maintenance of WNV infections. Sequence analyses revealed close genetic relationship of the Romanian WNV strain to strain Reb_Volgograd_07_H, which was isolated from human brain tissue during an outbreak of West Nile neuroinvasive disease (WNND) in Russia in 2007. In 2010 the Eastern European lineage 2 WNV caused an outbreak of human WNND in Romania. Partial sequences from subsequent years demonstrated that this WNV strain became endemic in Eastern Europe and has been causing outbreaks of varying sizes in southern Russia since 2007 and in Romania since 2010.
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Petz LN, Turell MJ, Padilla S, Long LS, Reinbold-Wasson DD, Smith DR, O'Guinn ML, Melanson VR, Lee JS. Development of conventional and real-time reverse transcription polymerase chain reaction assays to detect Tembusu virus in Culex tarsalis mosquitoes. Am J Trop Med Hyg 2014; 91:666-71. [PMID: 25114013 DOI: 10.4269/ajtmh.13-0218] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
Tembusu virus (TMUV) is an important emerging arthropod-borne virus that may cause encephalitis in humans and has been isolated in regions of southeast Asia, including Malaysia, Thailand, and China. Currently, detection and identification of TMUV are limited to research laboratories, because quantitative rapid diagnostic assays for the virus do not exist. We describe the development of sensitive and specific conventional and real-time quantitative reverse transcription polymerase chain reaction assays for detecting TMUV RNA in infected cell culture supernatant and Culex tarsalis mosquitoes. We used this assay to document the replication of TMUV in Cx. tarsalis, where titers increased 1,000-fold 5 days after inoculation. These assays resulted in the detection of virus-specific RNA in the presence of copurified mosquito nucleic acids. The use of these rapid diagnostic assays may have future applications for field pathogen surveillance and may assist in early detection, diagnosis, and control of the associated arthropod-borne pathogens.
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Affiliation(s)
- Lawrence N Petz
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Michael J Turell
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Susana Padilla
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Lewis S Long
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Drew D Reinbold-Wasson
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Darci R Smith
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Monica L O'Guinn
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - Vanessa R Melanson
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
| | - John S Lee
- Virology Division, US Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland; US Army Medical Research and Materiel Command, Fort Detrick, Maryland
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Takhampunya R, Kim HC, Tippayachai B, Lee DK, Lee WJ, Chong ST, Kim MS, Lee JS, Klein TA. Distribution and mosquito hosts of Chaoyang virus, a newly reported flavivirus from the Republic of Korea, 2008-2011. JOURNAL OF MEDICAL ENTOMOLOGY 2014; 51:464-474. [PMID: 24724298 DOI: 10.1603/me13033] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
In total, 183,602 female culicine mosquitoes were captured by Mosquito Magnet, black light, and New Jersey light traps, and manual aspiration of resting blood-fed mosquitoes, in the Republic of Korea from 2008 to 2011. Culicine mosquitoes were identified to species, placed in pools of up to 30 mosquitoes each, and screened for flavivirus RNA by using an SYBR green I-based reverse transcription-polymerase chain reaction assay. Thirty-two of the 8,199 pools assayed were positive by quantitative polymerase chain reaction for Chaoyang virus (CHAOV), an insect-specific virus [26 Aedes vexans nipponii Theobald, 3 Culex pipiens L., 1 Aedes albopictus (Skuse), 1 Aedes bekkui Mogi, and 1 Armigeres subalbatus (Coquillett)]. The maximum likelihood estimations (estimated number of virus-positive mosquitoes/1,000 mosquitoes) for Ae. bekkui, Ae. albopictus, Ar. subalbatus, Ae. vexans nipponii, and Cx. pipiens positive for CHAOV were 5.37, 3.29, 0.77, 0.27, and 0.26, respectively. CHAOV is an insect-specific virus, and there is currently no evidence to suggest a role in animal or human disease.
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Lutomiah J, Musila L, Makio A, Ochieng C, Koka H, Chepkorir E, Mutisya J, Mulwa F, Khamadi S, Miller BR, Bast J, Schnabel D, Wurapa EK, Sang R. Ticks and tick-borne viruses from livestock hosts in arid and semiarid regions of the eastern and northeastern parts of Kenya. JOURNAL OF MEDICAL ENTOMOLOGY 2014; 51:269-277. [PMID: 24605478 DOI: 10.1603/me13039] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Biodiversity and relative abundance of ticks and associated arboviruses in Garissa (northeastern) and Isiolo (eastern) provinces of Kenya were evaluated. Ticks were collected from livestock, identified to species, pooled, and processed for virus isolation. In Garissa, Rhipicephalus pulchellus Gerstacker (57.8%) and Hyalomma truncatum Koch (27.8%) were the most abundant species sampled, whereas R. pulchellus (80.4%) and Amblyomma gemma Donitz (9.6%) were the most abundant in Isiolo. Forty-four virus isolates, comprising Dugbe virus (DUGV; n = 22) and Kupe virus (n = 10; Bunyaviridae: Nirovirus), Dhori virus (DHOV; n = 10; Orthomyxoviridae: Thogotovirus),and Ngari virus (NRIV; n = 2; Bunyaviridae: Orthobunyavirus), were recovered mostly from R. pulchellus sampled in Isiolo. DUGV was mostly recovered from R. pulchellus from sheep and cattle, and DHOV from R. pulchellus from sheep. All Kupe virus isolates were from Isiolo ticks, including R. pulchellus from all the livestock, A. gemma and Amblyomma variegatum F. from cattle, and H. truncatum from goat. NRIV was obtained from R. pulchellus and A. gemma sampled from cattle in Isiolo and Garissa, respectively, while all DHOV and most DUGV (n = 12) were from R. pulchellus sampled from cattle in Garissa. DUGV was also recovered from H. truncatum and Amblyomma hebraeum Koch from cattle and from Rhipicephalus annulatus Say from camel. This surveillance study has demonstrated the circulation of select tick-borne viruses in parts of eastern and northeastern provinces of Kenya, some of which are of public health importance. The isolation of NRIV from ticks is particularly significant because it is usually known to be a mosquito-borne virus affecting humans.
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Affiliation(s)
- Joel Lutomiah
- Centre for Virus Research, Kenya Medical Research Institute, P. O. Box 54628, Nairobi 00100, Kenya.
| | - Lillian Musila
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Albina Makio
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Caroline Ochieng
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Hellen Koka
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Edith Chepkorir
- Integrated Vector & Disease Management, International Centre of Insect Physiology and Ecology, P. O. Box 30772-00100, Nairobi 00100, Kenya
| | - James Mutisya
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Francis Mulwa
- Integrated Vector & Disease Management, International Centre of Insect Physiology and Ecology, P. O. Box 30772-00100, Nairobi 00100, Kenya
| | - Samoel Khamadi
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Barry R Miller
- Division of Vector-Borne Infectious Diseases, U.S. Department of Health and Human Services, Centers for Disease Control and Prevention, 3156 Rampart Road, Foothills Campus, Fort Collins, CO 80521, USA
| | - Joshua Bast
- Department of Entomology, United States Army Medical Research Unit, Kisumu 40100, Kenya
| | - David Schnabel
- Walter Reed Army Institute of Research, Silver Spring, MD 20910, USA
| | - Eyako K Wurapa
- Division of Emerging Infectious Disease, US Army Medical Research Unit, Kenya, P. O.Box 606-00621, Village Market, Nairobi 00621, Kenya
| | - Rosemary Sang
- Centre for Virus Research, Kenya Medical Research Institute, P. O. Box 54628, Nairobi 00100, Kenya
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Roehrig JT. West nile virus in the United States - a historical perspective. Viruses 2013; 5:3088-108. [PMID: 24335779 PMCID: PMC3967162 DOI: 10.3390/v5123088] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2013] [Revised: 10/23/2013] [Accepted: 11/29/2013] [Indexed: 11/16/2022] Open
Abstract
Prior to 1999, West Nile virus (WNV) was a bit player in the screenplay of global vector-borne viral diseases. First discovered in the West Nile District of Uganda in 1937, this Culex sp.-transmitted virus was known for causing small human febrile outbreaks in Africa and the Middle East. Prior to 1995, the last major human WNV outbreak was in the 1950s in Israel. The epidemiology and ecology of WNV began to change in the mid-1990s when an epidemic of human encephalitis occurred in Romania. The introduction of WNV into Eastern Europe was readily explained by bird migration between Africa and Europe. The movement of WNV from Africa to Europe could not, however, predict its surprising jump across the Atlantic Ocean to New York City and the surrounding areas of the United States (U.S.). This movement of WNV from the Eastern to Western Hemisphere in 1999, and its subsequent dissemination throughout two continents in less than ten years is widely recognized as one of the most significant events in arbovirology during the last two centuries. This paper documents the early events of the introduction into and the spread of WNV in the Western Hemisphere.
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Affiliation(s)
- John T Roehrig
- Arboviral Diseases Branch, Division of Vector-Borne Diseases, National Center for Zoonotic and Emerging Infectious Diseases, U.S. Centers for Disease Control and Prevention, 3156 Rampart Road, Fort Collins, CO 80521, USA.
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Reeves WK, Breidenbaugh MS, Thomas EE, Glowacki MN. Mosquitoes of Thule Air Base, Greenland. JOURNAL OF THE AMERICAN MOSQUITO CONTROL ASSOCIATION 2013; 29:383-384. [PMID: 24551973 DOI: 10.2987/13-6341.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Thule Air Base in western Greenland had a previously uncharacterized mosquito pest problem. Swarms of bloodfeeding mosquitoes have been reported from June to late August, but the species were unknown. We conducted a base-wide mosquito vector survey from June to July 2012. One species of mosquito, Aedes impiger, was collected and > 3,000 were processed for polymerase chain reaction-based virus surveillance. Active mosquito breeding sites were located throughout the base and surrounding valley. Two pools of mosquitoes from Thule Air Base tested positive for an Orthobunyavirus; however, DNA sequencing of the viral amplicons was not complete enough to fully identify the agent.
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Affiliation(s)
- Will K Reeves
- US Air Force School of Aerospace Medicine, Epidemiology Consult Service, 2510 5th Street, Wright-Patterson AFB, OH 45433, USA
| | - Mark S Breidenbaugh
- US Air Force Aerial Spray Unit, Youngstown Air Reserve Station, Vienna, OH 44473, USA
| | - Earl E Thomas
- Headquarters US Air Forces in Europe-Air Forces Africa, Unit 3050 Box 10, APO AE 09094
| | - Meaghan N Glowacki
- The Ohio State University, College of Veterinary Medicine, 1900 Coffey Road, Columbus, OH 43210, USA
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Zhang HL, Zhang YZ, Yang WH, Feng Y, Nasci RS, Yang J, Liu YH, Dong CL, Li S, Zhang BS, Yin ZL, Wang PY, Fu SH, Li MH, Liu F, Zhang J, Sun J, Li CW, Gao XY, Liu H, Wang HY, Petersen LR, Liang GD. Mosquitoes of Western Yunnan Province, China: seasonal abundance, diversity, and arbovirus associations. PLoS One 2013; 8:e77017. [PMID: 24146951 PMCID: PMC3795637 DOI: 10.1371/journal.pone.0077017] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2013] [Accepted: 08/29/2013] [Indexed: 02/07/2023] Open
Abstract
OBJECTIVE The western borderland between Yunnan Province, China, and Myanmar is characterized by a climate that facilitates year-round production of mosquitoes. Numerous mosquito-transmitted viruses, including Japanese encephalitis virus circulate in this area. This project was to describe seasonal patterns in mosquito species abundance and arbovirus activity in the mosquito populations. METHODS Mosquitoes were collected in Mangshi and Ruili cities of Dehong Prefecture near the border of China and Burma in Yunnan Province, the Peoples Republic of China in 2010. We monitored mosquito species abundance for a 12-month period using ultraviolet light, carbon dioxide baited CDC light and gravid traps; and tested the captured mosquitoes for the presence of virus to evaluate mosquito-virus associations in rural/agricultural settings in the area. RESULTS A total of 43 species of mosquitoes from seven genera were collected, including 15 Culex species, 15 Anopheles spp., four Aedes spp., three Armigeres spp., one Mimomyia spp., two Uranotaenia spp. and three Mansonia spp.. Species richness and diversity varied between Mangshi and Ruili. Culex tritaeniorhynchus, Culex quinquefasciatus, Anopheles sinensis and Anopheles peditaeniatus were the most abundant species in both sampling sites. Ultraviolet light traps collected more specimens than CDC light traps baited with dry ice, though both collected the same variety of mosquito species. The CDC gravid trap was the most effective trap for capture of Culex quinquefasciatus, a species underrepresented in light trap collections. A total of 26 virus strains were isolated, which included 13 strains of Japanese encephalitis virus, four strains of Getah virus, one strain of Oya virus, one strain from the orbivirus genus, and seven strains of Culex pipien pallens densovirus. CONCLUSIONS The present study illustrates the value of monitoring mosquito populations and mosquito-transmitted viruses year-round in areas where the climate supports year-round adult mosquito activity.
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Affiliation(s)
- Hai-Lin Zhang
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Yu-Zhen Zhang
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Wei-Hong Yang
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Yun Feng
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Roger S. Nasci
- Division of Vector-Borne Diseases, Center for Disease Control and Prevention, Fort Collins, Colorado, United States of America
| | - Jie Yang
- Dehong Prefecture Center for Disease Control and Prevention, Mangshi, Yunnan, P.R. China
| | - Yong-Hua Liu
- Ruili City Center for Disease Control and Prevention, Ruili, Yunnan, P.R. China
| | - Chao-Liang Dong
- Dehong Prefecture Center for Disease Control and Prevention, Mangshi, Yunnan, P.R. China
| | - Shi Li
- Ruili City Center for Disease Control and Prevention, Ruili, Yunnan, P.R. China
| | - Bao-Sen Zhang
- Dehong Prefecture Center for Disease Control and Prevention, Mangshi, Yunnan, P.R. China
| | - Zheng-Liu Yin
- Ruili City Center for Disease Control and Prevention, Ruili, Yunnan, P.R. China
| | - Pi-Yu Wang
- Yunnan Institute of Parasitic Diseases, Simao, Yunnan, P.R. China
| | - Shi-Hong Fu
- State Key Laboratory for Infectious Disease Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, P.R. China
| | - Ming-Hua Li
- State Key Laboratory for Infectious Disease Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, P.R. China
| | - Fen Liu
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Juan Zhang
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Jie Sun
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Can-Wei Li
- Yunnan Institute of Endemic Disease Control and Prevention/ Yunnan Provincial Center of Virus and Rickettsia Research, Dali, Yunnan, P.R. China
| | - Xiao-Yan Gao
- State Key Laboratory for Infectious Disease Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, P.R. China
| | - Hong Liu
- State Key Laboratory for Infectious Disease Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, P.R. China
| | - Huan-Yu Wang
- State Key Laboratory for Infectious Disease Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, P.R. China
| | - Lyle R. Petersen
- Division of Vector-Borne Diseases, Center for Disease Control and Prevention, Fort Collins, Colorado, United States of America
| | - Guo-Dong Liang
- State Key Laboratory for Infectious Disease Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, P.R. China
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Salar R, Gahlawat S, Siwach P, Duhan J, Gahlawat SK. Rapid Detection of Viruses Using Loop-Mediated Isothermal Amplification (LAMP): A Review. BIOTECHNOLOGY: PROSPECTS AND APPLICATIONS 2013. [PMCID: PMC7122297 DOI: 10.1007/978-81-322-1683-4_21] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Most of the diseases caused by viral infection are found to be fatal, and the diagnosis is difficult due to confusion with other causative agents. So, a highly efficient molecular-based advance detection technique, i.e., loop-mediated isothermal amplification (LAMP) method, is developed for diagnosis of viral infections by various workers. It is based on amplification of DNA at very low level under isothermal conditions, using a set of four specifically designed primers and a DNA polymerase with strand displacement activity. This technique is found to be superior than most of the molecular techniques like PCR, RT-PCR, and real-time PCR due to its high specificity, sensitivity, and rapidity. Major advantage of LAMP method is its cost-effectiveness as it can be done simply by using water bath or dry bath. Here, in this review information regarding almost all the effective LAMP techniques which is developed so far for diagnosis of numerous viral pathogens is presented.
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Affiliation(s)
- R.K. Salar
- grid.448811.0Department of Biotechnology, Chaudhary Devi Lal University, Sirsa, Haryana India
| | - S.K. Gahlawat
- grid.448811.0Department of Biotechnology, Chaudhary Devi Lal University, Sirsa, Haryana India
| | - P. Siwach
- grid.448811.0Department of Biotechnology, Chaudhary Devi lal University, Sirsa, Haryana India
| | - J.S. Duhan
- grid.448811.0Department of Biotechnology, Chaudhary Devi Lal University, Sirsa, Haryana India
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O'Guinn ML, Turell MJ, Kengluecha A, Jaichapor B, Kankaew P, Miller RS, Endy TP, Jones JW, Coleman RE, Lee JS. Field detection of Tembusu virus in western Thailand by rt-PCR and vector competence determination of select culex mosquitoes for transmission of the virus. Am J Trop Med Hyg 2013; 89:1023-8. [PMID: 24043687 DOI: 10.4269/ajtmh.13-0160] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
Tembusu virus (TMUV; Ntaya serocomplex) was detected in two pools of mosquitoes captured near Sangkhlaburi, Thailand, as well as from sera from sentinel ducks from the same area. Although TMUV has been isolated from several mosquito species in Asia, no studies have ever shown competent vectors for this virus. Therefore, we allowed mosquitoes captured near Sangkhlaburi to feed on young chickens that had been infected with TMUV. These mosquitoes were tested approximately 2 weeks later to determine infection, dissemination, and transmission rates. Culex vishnui developed high viral titers after feeding on TMUV-infected chicks and readily transmitted virus to naïve chickens. In contrast, Cx. fuscocephala seemed less susceptible to infection, and more importantly, zero of five fuscocephala with a disseminated infection transmitted virus by bite, indicating a salivary gland barrier. These results provide evidence for the involvement of Culex mosquitoes in the transmission of TMUV in the environment.
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Affiliation(s)
- Monica L O'Guinn
- Virology Division, United States Army Medical Research Institute of Infectious Diseases, Frederick, Maryland; Department of Entomology, Armed Forces Research Institute of Medical Sciences, Bangkok, Thailand
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Lanciotti RS, Kosoy OI, Bosco-Lauth AM, Pohl J, Stuchlik O, Reed M, Lambert AJ. Isolation of a novel orthobunyavirus (Brazoran virus) with a 1.7kb S segment that encodes a unique nucleocapsid protein possessing two putative functional domains. Virology 2013; 444:55-63. [DOI: 10.1016/j.virol.2013.05.031] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2013] [Revised: 04/30/2013] [Accepted: 05/22/2013] [Indexed: 10/26/2022]
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Grubaugh ND, McMenamy SS, Turell MJ, Lee JS. Multi-gene detection and identification of mosquito-borne RNA viruses using an oligonucleotide microarray. PLoS Negl Trop Dis 2013; 7:e2349. [PMID: 23967358 PMCID: PMC3744434 DOI: 10.1371/journal.pntd.0002349] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2013] [Accepted: 06/19/2013] [Indexed: 01/25/2023] Open
Abstract
BACKGROUND Arthropod-borne viruses are important emerging pathogens world-wide. Viruses transmitted by mosquitoes, such as dengue, yellow fever, and Japanese encephalitis viruses, infect hundreds of millions of people and animals each year. Global surveillance of these viruses in mosquito vectors using molecular based assays is critical for prevention and control of the associated diseases. Here, we report an oligonucleotide DNA microarray design, termed ArboChip5.1, for multi-gene detection and identification of mosquito-borne RNA viruses from the genera Flavivirus (family Flaviviridae), Alphavirus (Togaviridae), Orthobunyavirus (Bunyaviridae), and Phlebovirus (Bunyaviridae). METHODOLOGY/PRINCIPAL FINDINGS The assay utilizes targeted PCR amplification of three genes from each virus genus for electrochemical detection on a portable, field-tested microarray platform. Fifty-two viruses propagated in cell-culture were used to evaluate the specificity of the PCR primer sets and the ArboChip5.1 microarray capture probes. The microarray detected all of the tested viruses and differentiated between many closely related viruses such as members of the dengue, Japanese encephalitis, and Semliki Forest virus clades. Laboratory infected mosquitoes were used to simulate field samples and to determine the limits of detection. Additionally, we identified dengue virus type 3, Japanese encephalitis virus, Tembusu virus, Culex flavivirus, and a Quang Binh-like virus from mosquitoes collected in Thailand in 2011 and 2012. CONCLUSIONS/SIGNIFICANCE We demonstrated that the described assay can be utilized in a comprehensive field surveillance program by the broad-range amplification and specific identification of arboviruses from infected mosquitoes. Furthermore, the microarray platform can be deployed in the field and viral RNA extraction to data analysis can occur in as little as 12 h. The information derived from the ArboChip5.1 microarray can help to establish public health priorities, detect disease outbreaks, and evaluate control programs.
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Affiliation(s)
- Nathan D Grubaugh
- Virology Division, United States Army Medical Research Institute of Infectious Diseases, Fort Detrick, Frederick, Maryland, United States of America.
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Sekaran SD, Artsob H. Molecular diagnostics for the detection of human flavivirus infections. ACTA ACUST UNITED AC 2013; 1:521-30. [PMID: 23496358 DOI: 10.1517/17530059.1.4.521] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Flaviviruses constitute a genus of viruses that are important etiologic agents of human disease, causing clinical disease ranging from fever to severe manifestations, such as encephalitis and hemorrhagic fever. Serology is presently the most frequently used means of diagnosing flavivirus infections. However, other diagnostic tests may be employed, such as molecular detection, virus isolation and antigen-capture procedures. The applicability of the latter three diagnostic procedures can be expected to vary depending upon the infecting flavivirus, as some flaviviruses, such as dengue, display high and long-term viremias, whereas other flaviviruses produce no, or barely detectable, viremias. Molecular diagnostic techniques have been successfully applied to the diagnosis of flavivirus infections and have the advantage of rapidity, sensitivity and specific identification of the infecting virus. However, it is important to ensure that the right detection tools are employed (for example, appropriate primers and probes to detect the specific virus) and that the laboratory maintains a high proficiency in their testing procedures. Some of the studies that have been employed in the diagnosis of flavivirus infections are reviewed in this article. It seems that there is the potential to develop testing algorithms that successfully employ molecular diagnostics alone or in conjunction with other laboratory techniques for the diagnosis of acute human flavivirus infections.
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Affiliation(s)
- Shamala Devi Sekaran
- University of Malaya, Department of Medical Microbiology, Faculty of Medicine, 50603 Kuala Lumpur, Malaysia
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Del Amo J, Sotelo E, Fernández-Pinero J, Gallardo C, Llorente F, Agüero M, Jiménez-Clavero MA. A novel quantitative multiplex real-time RT-PCR for the simultaneous detection and differentiation of West Nile virus lineages 1 and 2, and of Usutu virus. J Virol Methods 2013; 189:321-7. [PMID: 23499258 DOI: 10.1016/j.jviromet.2013.02.019] [Citation(s) in RCA: 66] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2012] [Revised: 01/22/2013] [Accepted: 02/21/2013] [Indexed: 12/11/2022]
Abstract
An increase in activity of two mosquito-borne flaviviruses, West Nile virus (WNV) and Usutu virus (USUV), has been reported in Europe in recent years. The current epidemiological situation calls for RT-PCR methods that are able to detect not only the widespread lineage 1 (L1) WNV, but also lineage 2 (L2) WNV. In addition, the presence in Europe of the closely related USUV requires methods that can identify these three flaviviruses and permit an efficient and accurate differential diagnosis. Here we describe a new one-step real-time multiplex RT-PCR that detects and differentiates efficiently WNV-L1, WNV-L2 and USUV in a single reaction. The assay is based on different sets of primers and fluorogenic probes specific to each virus that are labelled with selective, non-overlapping fluorogen-quencher pairs. This enables the fluorescence emitted by each probe, characterized by distinct wavelengths, to be differentiated. This multiplex assay was very sensitive to all of the target viruses; in addition, there were no cross-reactions between the viruses and the assay did not react to any other phylogenetically or symptomatically related viruses. Quantitation was enabled through the use of in vitro-transcribed RNAs developed specifically for each virus as copy number standards. This new assay was validated using different types of experimental and field samples.
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Affiliation(s)
- Javier Del Amo
- Centro de Investigación en Sanidad Animal, CISA-INIA, Valdeolmos, Spain
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