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Itarte M, Calvo M, Martínez-Frago L, Mejías-Molina C, Martínez-Puchol S, Girones R, Medema G, Bofill-Mas S, Rusiñol M. Assessing environmental exposure to viruses in wastewater treatment plant and swine farm scenarios with next-generation sequencing and occupational risk approaches. Int J Hyg Environ Health 2024; 259:114360. [PMID: 38555823 DOI: 10.1016/j.ijheh.2024.114360] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2023] [Revised: 02/21/2024] [Accepted: 03/18/2024] [Indexed: 04/02/2024]
Abstract
Occupational exposure to pathogens can pose health risks. This study investigates the viral exposure of workers in a wastewater treatment plant (WWTP) and a swine farm by analyzing aerosol and surfaces samples. Viral contamination was evaluated using quantitative polymerase chain reaction (qPCR) assays, and target enrichment sequencing (TES) was performed to identify the vertebrate viruses to which workers might be exposed. Additionally, Quantitative Microbial Risk Assessment (QMRA) was conducted to estimate the occupational risk associated with viral exposure for WWTP workers, choosing Human Adenovirus (HAdV) as the reference pathogen. In the swine farm, QMRA was performed as an extrapolation, considering a hypothetical zoonotic virus with characteristics similar to Porcine Adenovirus (PAdV). The modelled exposure routes included aerosol inhalation and oral ingestion through contaminated surfaces and hand-to-mouth contact. HAdV and PAdV were widespread viruses in the WWTP and the swine farm, respectively, by qPCR assays. TES identified human and other vertebrate viruses WWTP samples, including viruses from families such as Adenoviridae, Circoviridae, Orthoherpesviridae, Papillomaviridae, and Parvoviridae. In the swine farm, most of the identified vertebrate viruses were porcine viruses belonging to Adenoviridae, Astroviridae, Circoviridae, Herpesviridae, Papillomaviridae, Parvoviridae, Picornaviridae, and Retroviridae. QMRA analysis revealed noteworthy risks of viral infections for WWTP workers if safety measures are not taken. The probability of illness due to HAdV inhalation was higher in summer compared to winter, while the greatest risk from oral ingestion was observed in workspaces during winter. Swine farm QMRA simulation suggested a potential occupational risk in the case of exposure to a hypothetical zoonotic virus. This study provides valuable insights into WWTP and swine farm worker's occupational exposure to human and other vertebrate viruses. QMRA and NGS analyses conducted in this study will assist managers in making evidence-based decisions, facilitating the implementation of protection measures, and risk mitigation practices for workers.
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Affiliation(s)
- Marta Itarte
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain; Institut de Recerca de l'Aigua (IdRA), Universitat de Barcelona (UB), Barcelona, Spain.
| | - Miquel Calvo
- Secció d'Estadística, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain
| | - Lola Martínez-Frago
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain
| | - Cristina Mejías-Molina
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain; Institut de Recerca de l'Aigua (IdRA), Universitat de Barcelona (UB), Barcelona, Spain
| | - Sandra Martínez-Puchol
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain
| | - Rosina Girones
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain; Institut de Recerca de l'Aigua (IdRA), Universitat de Barcelona (UB), Barcelona, Spain
| | | | - Sílvia Bofill-Mas
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain; Institut de Recerca de l'Aigua (IdRA), Universitat de Barcelona (UB), Barcelona, Spain
| | - Marta Rusiñol
- Laboratory of Viruses Contaminants of Water and Food, Secció de Microbiologia, Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), Barcelona, Spain; Institut de Recerca de l'Aigua (IdRA), Universitat de Barcelona (UB), Barcelona, Spain
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López-Lorenzo G, Prieto A, López-Novo C, Díaz P, Remesar S, Morrondo P, Fernández G, Díaz-Cao JM. Presence of Porcine Circovirus Type 2 in the Environment of Farm Facilities without Pigs in Long Term-Vaccinated Farrow-to-Wean Farms. Animals (Basel) 2022; 12:ani12243515. [PMID: 36552435 PMCID: PMC9774950 DOI: 10.3390/ani12243515] [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: 10/26/2022] [Revised: 11/28/2022] [Accepted: 12/09/2022] [Indexed: 12/15/2022] Open
Abstract
Vaccination against Porcine Circovirus Type 2 (PCV2) even over several years has proven as an insufficient measure to eradicate the infection from farms, possibly due to not producing sterilizing immunity. Viral persistence in the farm environment has been proposed as a possible cause of reinfection, and for that reason, the main objective of this study was to identify potential critical points where PCV2 could persist in farrow-to-wean farms which had been vaccinating piglets for years. Surface samples were collected from different farm facilities with and without animals and analyzed by qPCR to detect and quantify the viral load. Most of the samples taken in animal housing facilities tested negative (96.6%); however, PCV2 was more frequently detected in samples from the offices (37.5%), the farm staff (25%) and the perimeter (21%). These results indicate that PCV2 contamination is frequent in facilities despite the long-term use of vaccination programs. Therefore, PCV2 control programs should include more exhaustive cleaning and disinfection protocols in non-animal facilities, as well as the implementation of specific biosecurity measures in these areas to minimize the risk of PCV2 introduction from external sources.
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Yang N, Li T, Dong S, Zhang S, Jia Y, Mao H, Zhang Z, Zhang F, Pan X, Zhang X, Dong Z. Detection of airborne pathogens with single photon counting and a real-time spectrometer on microfluidics. LAB ON A CHIP 2022; 22:4995-5007. [PMID: 36440701 DOI: 10.1039/d2lc00934j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
The common practice for monitoring pathogenic bioaerosols is to collect bioaerosols from air and then detect them, which lacks timeliness and accuracy. In order to improve the detection speed, here we demonstrate an innovative airflow-based optical detection method for directly identifying aerosol pathogens, and built a microfluidic-based counter composite spectrometer detection platform, which simplifies sample preparation and collection detection from two steps to one step. The method is based on principal component analysis and partial least squares discriminant analysis for particle species identification and dynamic transmission spectroscopy analysis, and single-photon measurement is used for particle counting. Compared with traditional microscopic counting and identification methods, the particle counting accuracy is high, the standard deviation is small, and the counting accuracy exceeds 92.2%. The setup of dynamic transmission spectroscopy analysis provides high-precision real-time particle identification with an accuracy rate of 93.75%. As the system is further refined, we also foresee potential applications of this method in agricultural disease control, environmental control, and infectious disease control in aerosol pathogen detection.
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Affiliation(s)
- Ning Yang
- School of Electrical and Information Engineering, Jiangsu University, Zhenjiang 212000, China
| | - Taiwei Li
- School of Electrical and Information Engineering, Jiangsu University, Zhenjiang 212000, China
| | - Sizhe Dong
- State-Key Laboratory of Analog and Mixed-Signal VLSI, Faculty of Science and Technology - ECE, Institute of Microelectronics, University of Macau, Macau 999078, China.
| | - Suliang Zhang
- School of Electrical and Information Engineering, Jiangsu University, Zhenjiang 212000, China
| | - Yanwei Jia
- State-Key Laboratory of Analog and Mixed-Signal VLSI, Faculty of Science and Technology - ECE, Institute of Microelectronics, University of Macau, Macau 999078, China.
| | - Hanping Mao
- School of Agricultural Engineering, Jiangsu University, Zhenjiang 212000, China.
| | - Zhen Zhang
- School of Environmental and Safety Engineering, Jiangsu University, Zhenjiang 212000, China.
| | - Fu Zhang
- College of Agricultural Equipment Engineering, Henan University of Science and Technology, Luoyang 471000, China
| | - Xiaoqing Pan
- Jiangsu Academy of Agricultural Sciences, Nanjing 210000, China
| | - Xiaodong Zhang
- School of Agricultural Engineering, Jiangsu University, Zhenjiang 212000, China.
| | - Zining Dong
- School of Environmental and Safety Engineering, Jiangsu University, Zhenjiang 212000, China.
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4
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Di Cesare A, Frangipani E, Citterio B, Sabatino R, Corno G, Fontaneto D, Mangiaterra G, Bencardino D, Zoppi S, Di Blasio A, Desiato R, Ru G, Marchis D. Class 1 integron and Enterococcus spp. abundances in swine farms from the " Suckling piglets" to the "Fatteners" production category. Vet Microbiol 2022; 274:109576. [PMID: 36155350 DOI: 10.1016/j.vetmic.2022.109576] [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: 05/03/2022] [Revised: 09/05/2022] [Accepted: 09/16/2022] [Indexed: 10/31/2022]
Abstract
Swine farms are considered a hotspot of antimicrobial resistance and may contribute to the spread of antibiotic-resistant and/or pathogenic bacteria into the environment as well as to farm workers. In this study, swine fecal samples have been collected over the primary production, selecting three categories, i.e., "Suckling piglets", "Weaning pigs" and "Fatteners", in six intensive swine farms, for two years. Feces were analysed for the detection and abundance of class 1 integrons (used as proxy of antibiotic resistance and of anthropogenic pollution), and of enterococci [fecal indicator bacteria (FIB) and potentially pathogenic for humans] by quantitative Real Time PCR. Furthermore, Enterococcus faecalis and Enterococcus faecium were isolated, analysed for the presence of the intI1 gene by Real Time PCR and genetically typed by Pulsed-Field Gel Electrophoresis. Both enterococci and class 1 integrons were significantly more abundant in the Suckling piglets (p = 0.0316 and 0.0242, respectively). About 8% of the isolated enterococci were positive for the intI1 gene by Real Time PCR. E. faecalis and E. faecium were found genetically heterogeneous and no specific pattern could be identified as the driver for their presence along the pig primary production. These findings suggest that the "Suckling piglets" category of production represents the key point where to mitigate the risk of transmission of enterococci and class 1 integrons with associated antibiotic resistance genes to humans and spread into the environment.
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Affiliation(s)
- Andrea Di Cesare
- Water Research Institute (IRSA) - MEG Molecular Ecology Group, CNR - National Research Council of Italy, Largo Tonolli 50, 28922, Verbania, Italy.
| | - Emanuela Frangipani
- Department of Biomolecular Sciences, University of Urbino Carlo Bo, Urbino, Italy
| | - Barbara Citterio
- Department of Biomolecular Sciences, University of Urbino Carlo Bo, Urbino, Italy
| | - Raffaella Sabatino
- Water Research Institute (IRSA) - MEG Molecular Ecology Group, CNR - National Research Council of Italy, Largo Tonolli 50, 28922, Verbania, Italy
| | - Gianluca Corno
- Water Research Institute (IRSA) - MEG Molecular Ecology Group, CNR - National Research Council of Italy, Largo Tonolli 50, 28922, Verbania, Italy
| | - Diego Fontaneto
- Water Research Institute (IRSA) - MEG Molecular Ecology Group, CNR - National Research Council of Italy, Largo Tonolli 50, 28922, Verbania, Italy
| | | | - Daniela Bencardino
- Department of Biomolecular Sciences, University of Urbino Carlo Bo, Urbino, Italy
| | - Simona Zoppi
- Istituto Zooprofilattico Sperimentale del Piemonte, Liguria e Valle d'Aosta, Torino, Italy
| | - Alessia Di Blasio
- S.C. Sanità Animale, Servizio Veterinario ASL TO3, Pinerolo, Torino, Italy
| | - Rosanna Desiato
- Istituto Zooprofilattico Sperimentale del Piemonte, Liguria e Valle d'Aosta, Torino, Italy
| | - Giuseppe Ru
- Istituto Zooprofilattico Sperimentale del Piemonte, Liguria e Valle d'Aosta, Torino, Italy
| | - Daniela Marchis
- Istituto Zooprofilattico Sperimentale del Piemonte, Liguria e Valle d'Aosta, Torino, Italy
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Dacso MM, Bente DA, Weaver SC, Kobinger GP, Melby PC, McLellan SL, Keiser PH, Hamer SA, Hamer GL, Parker GW, Douphrate DI, Rodriguez A, Goodman ML, XIII A, Gray GC. Texas professionals are employing a one health approach to protect the United States against biosecurity threats. One Health 2022; 15:100431. [PMID: 36277085 PMCID: PMC9582559 DOI: 10.1016/j.onehlt.2022.100431] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Revised: 08/29/2022] [Accepted: 08/30/2022] [Indexed: 11/28/2022] Open
Abstract
Texas is a geographically large state with large human and livestock populations, many farms, a long coastal region, and extreme fluctuations in weather. During the last 15 years, the state of Texas has frequently suffered disasters or catastrophes causing extensive morbidity and economic loss. These disasters often have complicated consequences requiring multi-faceted responses. Recently, an interdisciplinary network of professionals from multiple academic institutions has emerged to collaborate in protecting Texas and the USA using a One Health approach. These experts are training the next generation of scientists in biopreparedness; increasing understanding of pathogens that cause repetitive harm; developing new therapeutics and vaccines against them; and developing novel surveillance approaches so that emerging pathogens will be detected early and thwarted before they can cause disastrous human and economic losses. These academic One Health partnerships strengthen our ability to protect human and animal health against future catastrophes that may impact the diverse ecoregions of Texas and the world. Texas has suffered from numerous disasters or catastrophes, often more than other US states. These disasters have caused tremendous morbidity, mortality, and economic loss. Texas professionals are partnering in One Health ways to mitigate such catastrophes. These numerous collaborations are important to Texas, the USA, and abroad.
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Experimental Infection of Horses with Influenza D Virus. Viruses 2022; 14:v14040661. [PMID: 35458390 PMCID: PMC9029652 DOI: 10.3390/v14040661] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Revised: 03/19/2022] [Accepted: 03/20/2022] [Indexed: 02/04/2023] Open
Abstract
Antibodies to influenza D virus (IDV) have been detected in horses, but no evidence of disease in the field has been reported. To determine whether IDV is infectious, immunogenic, and pathogenic in horses, four 2-year-old horses seronegative for both influenza A (H3N8) and D viruses were intranasally inoculated with 6.25 × 107 TCID50/animal of D/bovine/California/0363/2019 (D/CA2019) virus, using a portable equine nebulizer system. Horses were observed daily for clinical signs including rectal temperature, nasal discharge, coughing, lung sounds, tachycardia, and tachypnea. No horses exhibited clinical signs of disease. Nasopharyngeal swabs collected from 1–8 days post-infection demonstrated virus shedding by qRT-PCR. The horses showed evidence of seroconversion as early as 13 days post-infection (dpi) and the geometric mean of the antibody titers (GMT) of all four horses ranged from 16.82–160 as demonstrated by the microneutralization assay. Further, deep RNA sequencing of the virus isolated in embryonated chicken eggs revealed no adaptive mutations indicating that IDV can replicate in horses, suggesting the possibility of interspecies transmission of IDV with bovine reservoir into equids in nature.
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Sreenivasan CC, Sheng Z, Wang D, Li F. Host Range, Biology, and Species Specificity of Seven-Segmented Influenza Viruses-A Comparative Review on Influenza C and D. Pathogens 2021; 10:1583. [PMID: 34959538 PMCID: PMC8704295 DOI: 10.3390/pathogens10121583] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Revised: 11/26/2021] [Accepted: 11/30/2021] [Indexed: 02/06/2023] Open
Abstract
Other than genome structure, influenza C (ICV), and D (IDV) viruses with seven-segmented genomes are biologically different from the eight-segmented influenza A (IAV), and B (IBV) viruses concerning the presence of hemagglutinin-esterase fusion protein, which combines the function of hemagglutinin and neuraminidase responsible for receptor-binding, fusion, and receptor-destroying enzymatic activities, respectively. Whereas ICV with humans as primary hosts emerged nearly 74 years ago, IDV, a distant relative of ICV, was isolated in 2011, with bovines as the primary host. Despite its initial emergence in swine, IDV has turned out to be a transboundary bovine pathogen and a broader host range, similar to influenza A viruses (IAV). The receptor specificities of ICV and IDV determine the host range and the species specificity. The recent findings of the presence of the IDV genome in the human respiratory sample, and high traffic human environments indicate its public health significance. Conversely, the presence of ICV in pigs and cattle also raises the possibility of gene segment interactions/virus reassortment between ICV and IDV where these viruses co-exist. This review is a holistic approach to discuss the ecology of seven-segmented influenza viruses by focusing on what is known so far on the host range, seroepidemiology, biology, receptor, phylodynamics, species specificity, and cross-species transmission of the ICV and IDV.
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Affiliation(s)
- Chithra C. Sreenivasan
- Maxwell H. Gluck Equine Research Center, University of Kentucky, Lexington, KY 40546, USA; (C.C.S.); (D.W.)
| | - Zizhang Sheng
- Aaron Diamond AIDS Research Center, Vagelos College of Physicians and Surgeons, Columbia University, New York, NY 10032, USA;
| | - Dan Wang
- Maxwell H. Gluck Equine Research Center, University of Kentucky, Lexington, KY 40546, USA; (C.C.S.); (D.W.)
| | - Feng Li
- Maxwell H. Gluck Equine Research Center, University of Kentucky, Lexington, KY 40546, USA; (C.C.S.); (D.W.)
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Oeschger TM, McCloskey DS, Buchmann RM, Choubal AM, Boza JM, Mehta S, Erickson D. Early Warning Diagnostics for Emerging Infectious Diseases in Developing into Late-Stage Pandemics. Acc Chem Res 2021; 54:3656-3666. [PMID: 34524795 DOI: 10.1021/acs.accounts.1c00383] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The spread of infectious diseases due to travel and trade can be seen throughout history, whether from early settlers or traveling businessmen. Increased globalization has allowed infectious diseases to quickly spread to different parts of the world and cause widespread infection. Posthoc analysis of more recent outbreaks-SARS, MERS, swine flu, and COVID-19-has demonstrated that the causative viruses were circulating through populations for days or weeks before they were first detected, allowing disease to spread before quarantines, contact tracing, and travel restrictions could be implemented. Earlier detection of future novel pathogens could decrease the time before countermeasures are enacted. In this Account, we examined a variety of novel technologies from the past 10 years that may allow for earlier detection of infectious diseases. We have arranged these technologies chronologically from pre-human predictive technologies to population-level screening tools. The earliest detection methods utilize artificial intelligence to analyze factors such as climate variation and zoonotic spillover as well as specific species and geographies to identify where the infection risk is high. Artificial intelligence can also be used to monitor health records, social media, and various publicly available data to identify disease outbreaks faster than traditional epidemiology. Secondary to predictive measures is monitoring infection in specific sentinel animal species, where domestic animals or wildlife are indicators of potential disease hotspots. These hotspots inform public health officials about geographic areas where infection risk in humans is high. Further along the timeline, once the disease has begun to infect humans, wastewater epidemiology can be used for unbiased sampling of large populations. This method has already been shown to precede spikes in COVID-19 diagnoses by 1 to 2 weeks. As total infections increase in humans, bioaerosol sampling in high-traffic areas can be used for disease monitoring, such as within an airport. Finally, as disease spreads more quickly between humans, rapid diagnostic technologies such as lateral flow assays and nucleic acid amplification become very important. Minimally invasive point-of-care methods can allow for quick adoption and use within a population. These individual diagnostic methods then transfer to higher-throughput methods for more intensive population screening as an infection spreads. There are many promising early warning technologies being developed. However, no single technology listed herein will prevent every future outbreak. A combination of technologies from across our infection timeline would offer the most benefit in preventing future widespread disease outbreaks and pandemics.
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Affiliation(s)
| | | | | | | | | | - Saurabh Mehta
- Department of Population Health Sciences, Weill Cornell Medicine, New York, New York 10065, United States
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9
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Ramesh A, Bailey ES, Ahyong V, Langelier C, Phelps M, Neff N, Sit R, Tato C, DeRisi JL, Greer AG, Gray GC. Metagenomic characterization of swine slurry in a North American swine farm operation. Sci Rep 2021; 11:16994. [PMID: 34417469 PMCID: PMC8379149 DOI: 10.1038/s41598-021-95804-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Accepted: 07/30/2021] [Indexed: 12/21/2022] Open
Abstract
Modern day large-scale, high-density farming environments are inherently susceptible to viral outbreaks, inadvertently creating conditions that favor increased pathogen transmission and potential zoonotic spread. Metagenomic sequencing has proven to be a useful tool for characterizing the microbial burden in both people, livestock, and environmental samples. International efforts have been successful at characterizing pathogens in commercial farming environments, especially swine farms, however it is unclear whether the full extent of microbial agents have been adequately captured or is representative of farms elsewhere. To augment international efforts we performed metagenomic next-generation sequencing on nine swine slurry and three environmental samples from a United States of America (U.S.A.) farm operation, characterized the microbial composition of slurry, and identified novel viruses. We assembled a remarkable total of 1792 viral genomes, of which 554 were novel/divergent. We assembled 1637 Picobirnavirus genome segments, of which 538 are novel. In addition, we discovered 10 new viruses belonging to a novel taxon: porcine Statoviruses; which have only been previously reported in human, macaques, mouse, and cows. We assembled 3 divergent Posaviruses and 3 swine Picornaviruses. In addition to viruses described, we found other eukaryotic genera such as Entamoeba and Blastocystis, and bacterial genera such as Listeria, Treponema, Peptoclostridium and Bordetella in the slurry. Of these, two species Entamoeba histolytica and Listeria monocytogenes known to cause human disease were detected. Further, antimicrobial resistance genes such as tetracycline and MLS (macrolide, lincosamide, streptogramin) were also identified. Metagenomic surveillance in swine fecal slurry has great potential for novel and antimicrobial resistant pathogen detection.
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Affiliation(s)
- Akshaya Ramesh
- Weill Institute for Neurosciences, University of California, San Francisco, CA, 94158, USA.,Department of Neurology, University of California, San Francisco, CA, 94158, USA.,Julia Jones Matthews Department of Public Health, Texas Tech University Health Sciences Center, Abilene, TX, USA
| | - Emily S Bailey
- Division of Infectious Diseases, Duke University School of Medicine, Durham, NC, USA. .,Julia Jones Matthews Department of Public Health, Texas Tech University Health Sciences Center, Abilene, TX, USA.
| | - Vida Ahyong
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - Charles Langelier
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA.,Division of Infectious Diseases, University of California San Francisco, San Francisco, CA, 94158, USA
| | - Maira Phelps
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - Norma Neff
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - Rene Sit
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - Cristina Tato
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - Joseph L DeRisi
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA.,Department of Biochemistry and Biophysics, University of California, San Francisco, CA, 94158, USA
| | - Annette G Greer
- Department of Bioethics and Interdisciplinary Studies, Brody School of Medicine, North Carolina Agromedicine Institute, East Carolina University, Greenville, NC, USA
| | - Gregory C Gray
- Division of Infectious Diseases, Duke University School of Medicine, Durham, NC, USA.,Duke Global Health Institute, Duke University, Durham, NC, USA.,Emerging Infectious Disease Program, Duke-NUS Medical School, Singapore, Singapore.,Global Health Center, Duke Kunshan University, Kunshan, China
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10
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Li M, Wang L, Qi W, Liu Y, Lin J. Challenges and Perspectives for Biosensing of Bioaerosol Containing Pathogenic Microorganisms. MICROMACHINES 2021; 12:798. [PMID: 34357208 PMCID: PMC8307108 DOI: 10.3390/mi12070798] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/12/2021] [Revised: 06/29/2021] [Accepted: 07/04/2021] [Indexed: 12/20/2022]
Abstract
As an important route for disease transmission, bioaerosols have received increasing attention. In the past decades, many efforts were made to facilitate the development of bioaerosol monitoring; however, there are still some important challenges in bioaerosol collection and detection. Thus, recent advances in bioaerosol collection (such as sedimentation, filtration, centrifugation, impaction, impingement, and microfluidics) and detection methods (such as culture, molecular biological assay, and immunological assay) were summarized in this review. Besides, the important challenges and perspectives for bioaerosol biosensing were also discussed.
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Affiliation(s)
| | | | | | | | - Jianhan Lin
- Key Laboratory of Agricultural Information Acquisition Technology, Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing 100083, China; (M.L.); (L.W.); (W.Q.); (Y.L.)
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11
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Wang L, Qi W, Liu Y, Essien D, Zhang Q, Lin J. Recent Advances on Bioaerosol Collection and Detection in Microfluidic Chips. Anal Chem 2021; 93:9013-9022. [PMID: 34160193 DOI: 10.1021/acs.analchem.1c00908] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Bioaerosols containing pathogenic microorganisms have posed a great threat to human and animal health. Effective monitoring of bioaerosols containing pathogenic viruses and bacteria is of great significance to prevent and control infectious diseases. This Feature summarizes recent advances on bioaerosol collection and detection based on microfluidic chips. Besides, the challenges and trends for bioaerosol collection and detection were also discussed.
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Affiliation(s)
- Lei Wang
- Key Laboratory of Agricultural Information Acquisition Technology, Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing 100083, China.,Department of Biosystems Engineering, University of Manitoba, Winnipeg, Manitoba R3T 5V6, Canada
| | - Wuzhen Qi
- Key Laboratory of Agricultural Information Acquisition Technology, Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing 100083, China
| | - Yuanjie Liu
- Key Laboratory of Agricultural Information Acquisition Technology, Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing 100083, China
| | - Desmond Essien
- Department of Biosystems Engineering, University of Manitoba, Winnipeg, Manitoba R3T 5V6, Canada
| | - Qiang Zhang
- Department of Biosystems Engineering, University of Manitoba, Winnipeg, Manitoba R3T 5V6, Canada
| | - Jianhan Lin
- Key Laboratory of Agricultural Information Acquisition Technology, Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing 100083, China
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