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Deboutte W, De Smet L, Brunain M, Basler N, De Rycke R, Smets L, de Graaf DC, Matthijnssens J. Known and novel viruses in Belgian honey bees: yearly differences, spatial clustering, and associations with overwintering loss. Microbiol Spectr 2024; 12:e0358123. [PMID: 38860822 PMCID: PMC11218457 DOI: 10.1128/spectrum.03581-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2024] [Accepted: 05/06/2024] [Indexed: 06/12/2024] Open
Abstract
In recent years, managed honey bee colonies have been suffering from an increasing number of biotic and abiotic stressors, resulting in numerous losses of colonies worldwide. A pan-European study, EPILOBEE, estimated the colony loss in Belgium to be 32.4% in 2012 and 14.8% in 2013. In the current study, absolute viral loads of four known honey bee viruses (DWV-A, DWV-B, AmFV, and BMLV) and three novel putative honey bee viruses (Apis orthomyxovirus 1, apthili virus, and apparli virus) were determined in 300 Flemish honey bee samples, and associations with winter survival were determined. This revealed that, in addition to the known influence of DWV-A and DWV-B on colony health, one of the newly described viruses (apthili virus) shows a strong yearly difference and is also associated with winter survival. Furthermore, all scrutinized viruses revealed significant spatial clustering patterns, implying that despite the limited surface area of Flanders, local virus transmission is paramount. The vast majority of samples were positive for at least one of the seven investigated viruses, and up to 20% of samples were positive for at least one of the three novel viruses. One of those three, Apis orthomyxovirus 1, was shown to be a genuine honey bee-infecting virus, able to infect all developmental stages of the honey bee, as well as the Varroa destructor mite. These results shed light on the most prevalent viruses in Belgium and their roles in the winter survival of honey bee colonies. IMPORTANCE The western honey bee (Apis mellifera) is a highly effective pollinator of flowering plants, including many crops, which gives honey bees an outstanding importance both ecologically and economically. Alarmingly high annual loss rates of managed honey bee colonies are a growing concern for beekeepers and scientists and have prompted a significant research effort toward bee health. Several detrimental factors have been identified, such as varroa mite infestation and disease from various bacterial and viral agents, but annual differences are often not elucidated. In this study, we utilize the viral metagenomic survey of the EPILOBEE project, a European research program for bee health, to elaborate on the most abundant bee viruses of Flanders. We complement the existing metagenomic data with absolute viral loads and their spatial and temporal distributions. Furthermore, we identify Apis orthomyxovirus 1 as a potentially emerging pathogen, as we find evidence for its active replication honey bees.
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Affiliation(s)
- Ward Deboutte
- KU Leuven-University of Leuven, Department of Microbiology, Immunology and Transplantation, Division of Clinical and Epidemiological Virology, Rega Institute, Leuven, Belgium
| | - Lina De Smet
- UGent-Ghent University, Department of Biochemistry and Microbiology, Laboratory of Molecular Entomology and Bee Pathology (L-MEB), Ghent, Belgium
| | - Marleen Brunain
- UGent-Ghent University, Department of Biochemistry and Microbiology, Laboratory of Molecular Entomology and Bee Pathology (L-MEB), Ghent, Belgium
| | - Nikolas Basler
- KU Leuven-University of Leuven, Department of Microbiology, Immunology and Transplantation, Division of Clinical and Epidemiological Virology, Rega Institute, Leuven, Belgium
| | - Riet De Rycke
- VIB Center for Inflammation Research and BioImaging Core, Ghent, Belgium
- Department of Biomedical Molecular Biology, UGent-Ghent University, Ghent, Belgium
| | - Lena Smets
- KU Leuven-University of Leuven, Department of Microbiology, Immunology and Transplantation, Division of Clinical and Epidemiological Virology, Rega Institute, Leuven, Belgium
| | - Dirk C de Graaf
- UGent-Ghent University, Department of Biochemistry and Microbiology, Laboratory of Molecular Entomology and Bee Pathology (L-MEB), Ghent, Belgium
| | - Jelle Matthijnssens
- KU Leuven-University of Leuven, Department of Microbiology, Immunology and Transplantation, Division of Clinical and Epidemiological Virology, Rega Institute, Leuven, Belgium
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Rapid detection of φX-174 virus based on synchronous fluorescence of tryptophan. Anal Bioanal Chem 2022; 415:509-515. [PMID: 36441232 PMCID: PMC9702944 DOI: 10.1007/s00216-022-04436-2] [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: 09/06/2022] [Revised: 11/09/2022] [Accepted: 11/10/2022] [Indexed: 11/29/2022]
Abstract
The development of rapid methods for the detection of virus particles based on their intrinsic fluorescence (the native auto-fluorescence that originates from the non-labeled analyte) is challenging. Pure viruses may be detected in filtered solutions, based on the strong fluorescence of the amino acid tryptophan (Trp) in their proteins. Nevertheless, Trp also exists in high quantities in the hosts and host cultivation media. In this work, we developed a new method for the detection of the naked φX-174 virus. We show that a separation of φX-174 from its Escherichia coli host (grown on the standard cultivation medium nutrient agar) by simple extraction and filtration is not sufficient for its detection based on the intrinsic fluorescence since ~ 70% of the Trp fluorescence is derived from impurities. We formulate a new cultivation medium with a very low Trp concentration. We apply synchronous fluorescence measurements to show that no Trp fluorescence is detected in the extract solution upon incubation of this medium substrate with ammonium acetate extraction buffer. Finally, we apply synchronous fluorescence to detect φX-174 based on the spectral fingerprint of its native Trp content. Such a method is more rapid than usual traditional separation and detection methods which can take several hours and does not require any addition of labeling agents such as fluorescent dyes or antibodies for the detection. As other virus species contain Trp as one of the amino acids presents in their proteins, this method has the potential to apply to the detection of other viral species.
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Busto M, Tarifa EE, Cristaldi M, Badano JM, Vera CR. Simulation of thermal sanitization of air with heat recovery as applied to airborne pathogen deactivation. INTERNATIONAL JOURNAL OF ENVIRONMENTAL SCIENCE AND TECHNOLOGY : IJEST 2022; 19:11685-11698. [PMID: 35126566 PMCID: PMC8801388 DOI: 10.1007/s13762-022-03948-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2021] [Revised: 11/28/2021] [Accepted: 01/10/2022] [Indexed: 05/02/2023]
Abstract
The technique of air sterilization by thermal effect was revisited in this work. The impact of incorporating a high efficiency heat recovery exchanger to a sterilizing cell was especially assessed. A mathematical model was developed to study the dynamics and the steady state of the sterilizer. Computer simulation and reported data of thermal inactivation of pathogens permitted obtaining results for a proof-of-concept. The simulation results confirmed that the incorporation of a heat recovery exchanger permits saving more than 90% of the energy needed to heat the air to the temperature necessary for sterilization, i.e., sterilization without heat recovery consumes 10-20 times the energy of the same sterilization device with heat recovery. Sanitization temperature is the main process variable for sanitization, a fact related to the activated nature of the thermal inactivation of viruses and bacteria. Heat recovery efficiency was a strong function of the heat transfer parameters but also rather insensitive to the cell temperature. The heat transfer area determined the maximum capacity of the sterilizer (maximum air flowrate) given the restrictions of minimum sanitization efficiency and maximum power consumption. The proposed thermal sterilization device has important advantages of robustness and simplicity over other commercial sterilization devices, needing practically no maintenance and eliminating a big variety of microorganisms to any desired degree. For most pathogens, the inactivation can be total. This result is not affected by the uncertainties in thermal inactivation data, due to the Arrhenius-like dependence of inactivation. Temperature can be adjusted to achieve any removal degree.
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Affiliation(s)
- M. Busto
- Institute of Research On Catalysis and Petrochemistry, INCAPE, FIQ-UNL, CONICET, Collecting Ring, National Road 168 km 0, El Pozo, 3000 Santa Fe, Argentina
| | - E. E. Tarifa
- Faculty of Engineering, Universidad Nacional de Jujuy, CONICET, Ítalo Palanca No. 10, 4600 San Salvador de Jujuy, Argentina
| | - M. Cristaldi
- Av. Gob. Gregores & Piloto Rivera, Universidad Nacional de La Patagonia Austral, 9400 Río Gallegos, Argentina
| | - J. M. Badano
- Institute of Research On Catalysis and Petrochemistry, INCAPE, FIQ-UNL, CONICET, Collecting Ring, National Road 168 km 0, El Pozo, 3000 Santa Fe, Argentina
| | - C. R. Vera
- Institute of Research On Catalysis and Petrochemistry, INCAPE, FIQ-UNL, CONICET, Collecting Ring, National Road 168 km 0, El Pozo, 3000 Santa Fe, Argentina
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Horvitz D, Milrot E, Luria N, Makdasi E, Beth-Din A, Glinert I, Dombrovsky A, Laskar O. Nanodissection of Selected Viral Particles by Scanning Transmission Electron Microscopy/Focused Ion Beam for Genetic Identification. Anal Chem 2021; 93:13126-13133. [PMID: 34551252 DOI: 10.1021/acs.analchem.1c01001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
This study presents the development of a new correlative workflow to bridge the gap between electron microscopy imaging and genetic analysis of viruses. The workflow enables the assignment of genetic information to a specific biological entity by harnessing the nanodissection capability of focused ion beam (FIB). This correlative workflow is based on scanning transmission electron microscopy (STEM) and FIB followed by a polymerase chain reaction (PCR). For this purpose, we studied the tomato brown rugose fruit virus (ToBRFV) and the adenovirus that have significant impacts on plant integrity and human health, respectively. STEM imaging was used for the identification and localization of virus particles on a transmission electron microscopy (TEM) grid followed by FIB milling of the desired region of interest. The final-milled product was subjected to genetic analysis by the PCR. The results prove that the FIB-milling process maintains the integrity of the genetic material as confirmed by the PCR. We demonstrate the identification of RNA and DNA viruses extracted from a few micrometers of an FIB-milled TEM grid. This workflow enables the genetic analysis of specifically imaged viral particles directly from heterogeneous clinical samples. In addition to viral diagnostics, the ability to isolate and to genetically identify specific submicrometer structures may prove valuable in additional fields, including subcellular organelle and granule research.
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Affiliation(s)
- Dror Horvitz
- Electron Microscopy, Thermo Fisher Israel Ltd., HaYarden 1 street, Airport City 7019900, Israel
| | - Elad Milrot
- Department of Infectious Diseases, Israel Institute for Biological Research, P.O.B 19, Ness Ziona 74100, Israel
| | - Neta Luria
- Department of Plant Pathology, ARO, The Volcani Center, Rishon Lezion 50250, Israel
| | - Efi Makdasi
- Department of Infectious Diseases, Israel Institute for Biological Research, P.O.B 19, Ness Ziona 74100, Israel
| | - Adi Beth-Din
- Department of Biochemistry and Molecular Genetics, Israel Institute for Biological Research, P.O.B 19, Ness Ziona 74100, Israel
| | - Itai Glinert
- Department of Infectious Diseases, Israel Institute for Biological Research, P.O.B 19, Ness Ziona 74100, Israel
| | - Aviv Dombrovsky
- Department of Plant Pathology, ARO, The Volcani Center, Rishon Lezion 50250, Israel
| | - Orly Laskar
- Department of Infectious Diseases, Israel Institute for Biological Research, P.O.B 19, Ness Ziona 74100, Israel
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Chatterjee S, Mishra S, Chowdhury KD, Ghosh CK, Saha KD. Various theranostics and immunization strategies based on nanotechnology against Covid-19 pandemic: An interdisciplinary view. Life Sci 2021; 278:119580. [PMID: 33991549 PMCID: PMC8114615 DOI: 10.1016/j.lfs.2021.119580] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2021] [Revised: 04/12/2021] [Accepted: 04/25/2021] [Indexed: 02/07/2023]
Abstract
COVID-19 pandemic is still a major risk to human civilization. Besides the global immunization policy, more than five lac new cases are documented everyday. Some countries newly implement partial/complete nationwid lockdown to mitigate recurrent community spreading. To avoid the new modified stain of SARS-CoV-2 spreading, some countries imposed any restriction on the movement of the citizens within or outside the country. Effective economical point of care diagnostic and therapeutic strategy is vigorously required to mitigate viral spread. Besides struggling with repurposed medicines, new engineered materials with multiple unique efficacies and specific antiviral potency against SARS-CoV-2 infection may be fruitful to save more lives. Nanotechnology-based engineering strategy sophisticated medicine with specific, effective and nonhazardous delivery mechanism for available repurposed antivirals as well as remedial for associated diseases due to malfeasance in immuno-system e.g. hypercytokinaemia, acute respiratory distress syndrome. This review will talk about gloomy but critical areas for nanoscientists to intervene and will showcase about the different laboratory diagnostic, prognostic strategies and their mode of actions. In addition, we speak about SARS-CoV-2 pathophysiology, pathogenicity and host specific interation with special emphasis on altered immuno-system and also perceptualized, copious ways to design prophylactic nanomedicines and next-generation vaccines based on recent findings.
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Affiliation(s)
- Sujan Chatterjee
- Molecular Biology and Tissue Culture Laboratory, Post Graduate Department of Zoology, Vidyasagar College, Kolkata-700006, India
| | - Snehasis Mishra
- Cancer and Inflammatory Disorder Division, CSIR-Indian Institute of Chemical Biology, Jadavpur, Kolkata-700032, India
| | - Kaustav Dutta Chowdhury
- Cyto-genetics Laboratory, Department of Zoology, Rammohan College, 102/1, Raja Rammohan Sarani, Kolkata-700009, India
| | - Chandan Kumar Ghosh
- School of Material Science and Nanotechnology, Jadavpur University, Kolkata-700032, India.
| | - Krishna Das Saha
- Cancer and Inflammatory Disorder Division, CSIR-Indian Institute of Chemical Biology, Jadavpur, Kolkata-700032, India.
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Tesh RB, Bolling BG, Guzman H, Popov VL, Wilson A, Widen SG, Wood TG, Walker PJ, Vasilakis N. Characterization of Port Bolivar Virus, a Novel Entomobirnavirus (Birnaviridae) Isolated from Mosquitoes Collected in East Texas, USA. Viruses 2020; 12:v12040390. [PMID: 32244531 PMCID: PMC7232177 DOI: 10.3390/v12040390] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2020] [Revised: 03/24/2020] [Accepted: 03/26/2020] [Indexed: 02/07/2023] Open
Abstract
This report describes and characterizes a novel entomobirnavirus, designated Port Bolivar virus (PTBV), that was isolated from a pool of Aedes sollicitans mosquitoes collected in a saltwater marsh in East Texas, USA. Full genome sequencing and phylogenetic analyses indicate that PTBV is distinct but genetically related to Drosophila X virus and mosquito X virus, which are assigned to species in the genus Entomobirnavirus, family Birnaviridae. PTBV produced cytopathic effect (CPE) in cultures of mosquito (C6/36) cells, but not in Vero cell cultures. Ultrastructural studies of PTBV in infected C6/36 cells demonstrated unenveloped virus particles about 55 nm in diameter.
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Affiliation(s)
- Robert B. Tesh
- Department of Pathology, The University of Texas Medical Branch, Galveston, TX 77555-0609, USA; (R.B.T.); (H.G.); (V.L.P.)
- Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA
- Center for Tropical Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA
- Institute for Human Infection and Immunity, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0610, USA
- World Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA;
| | - Bethany G. Bolling
- World Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA;
| | - Hilda Guzman
- Department of Pathology, The University of Texas Medical Branch, Galveston, TX 77555-0609, USA; (R.B.T.); (H.G.); (V.L.P.)
- World Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA;
| | - Vsevolod L. Popov
- Department of Pathology, The University of Texas Medical Branch, Galveston, TX 77555-0609, USA; (R.B.T.); (H.G.); (V.L.P.)
- Center for Tropical Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA
- Institute for Human Infection and Immunity, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0610, USA
- World Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA;
| | - Ashley Wilson
- Galveston County Mosquito Control, 5115 Highway 3, Dickinson, TX 77539, USA;
| | - Steven G. Widen
- Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, USA; (S.G.W.); (T.G.W.)
| | - Thomas G. Wood
- Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555, USA; (S.G.W.); (T.G.W.)
| | - Peter J. Walker
- School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, QLD 4072, Australia;
| | - Nikos Vasilakis
- Department of Pathology, The University of Texas Medical Branch, Galveston, TX 77555-0609, USA; (R.B.T.); (H.G.); (V.L.P.)
- Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA
- Center for Tropical Diseases, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA
- Institute for Human Infection and Immunity, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0610, USA
- World Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, 301 University Blvd., Galveston, TX 77555-0609, USA;
- Correspondence: ; Tel.: +1-(409)-747-0650
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Gilbert RA, Townsend EM, Crew KS, Hitch TCA, Friedersdorff JCA, Creevey CJ, Pope PB, Ouwerkerk D, Jameson E. Rumen Virus Populations: Technological Advances Enhancing Current Understanding. Front Microbiol 2020; 11:450. [PMID: 32273870 PMCID: PMC7113391 DOI: 10.3389/fmicb.2020.00450] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2019] [Accepted: 03/02/2020] [Indexed: 01/07/2023] Open
Abstract
The rumen contains a multi-kingdom, commensal microbiome, including protozoa, bacteria, archaea, fungi and viruses, which enables ruminant herbivores to ferment and utilize plant feedstuffs that would be otherwise indigestible. Within the rumen, virus populations are diverse and highly abundant, often out-numbering the microbial populations that they both predate on and co-exist with. To date the research effort devoted to understanding rumen-associated viral populations has been considerably less than that given to the other microbial populations, yet their contribution to maintaining microbial population balance, intra-ruminal microbial lysis, fiber breakdown, nutrient cycling and genetic transfer may be highly significant. This review follows the technological advances which have contributed to our current understanding of rumen viruses and drawing on knowledge from other environmental and animal-associated microbiomes, describes the known and potential roles and impacts viruses have on rumen function and speculates on the future directions of rumen viral research.
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Affiliation(s)
- Rosalind A. Gilbert
- Department of Agriculture and Fisheries, Brisbane, QLD, Australia
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, Australia
| | - Eleanor M. Townsend
- Warwick Integrative Synthetic Biology Centre, School of Life Sciences, University of Warwick, Coventry, United Kingdom
| | - Kathleen S. Crew
- Department of Agriculture and Fisheries, Brisbane, QLD, Australia
| | - Thomas C. A. Hitch
- Functional Microbiome Research Group, Institute of Medical Microbiology, RWTH University Hospital, Aachen, Germany
| | - Jessica C. A. Friedersdorff
- Institute of Biological, Environmental and Rural Sciences, Aberystwyth University, Aberystwyth, United Kingdom
| | - Christopher J. Creevey
- Institute for Global Food Security, School of Biological Sciences, Queen’s University Belfast, Belfast, United Kingdom
| | - Phillip B. Pope
- Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway
- Faculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway
| | - Diane Ouwerkerk
- Department of Agriculture and Fisheries, Brisbane, QLD, Australia
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, Australia
| | - Eleanor Jameson
- Warwick Integrative Synthetic Biology Centre, School of Life Sciences, University of Warwick, Coventry, United Kingdom
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González-Domínguez I, Puente-Massaguer E, Cervera L, Gòdia F. Quality Assessment of Virus-Like Particles at Single Particle Level: A Comparative Study. Viruses 2020; 12:E223. [PMID: 32079288 PMCID: PMC7077327 DOI: 10.3390/v12020223] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2019] [Revised: 02/03/2020] [Accepted: 02/11/2020] [Indexed: 12/16/2022] Open
Abstract
Virus-like particles (VLPs) have emerged as a powerful scaffold for antigen presentation and delivery strategies. Compared to single protein-based therapeutics, quality assessment requires a higher degree of refinement due to the structure of VLPs and their similar properties to extracellular vesicles (EVs). Advances in the field of nanotechnology with single particle and high-resolution analysis techniques provide appealing approaches to VLP characterization. In this study, six different biophysical methods have been assessed for the characterization of HIV-1-based VLPs produced in mammalian and insect cell platforms. Sample preparation and equipment set-up were optimized for the six strategies evaluated. Electron Microscopy (EM) disclosed the presence of several types of EVs within VLP preparations and cryogenic transmission electron microscopy (cryo-TEM) resulted in the best technique to resolve the VLP ultrastructure. The use of super-resolution fluorescence microscopy (SRFM), nanoparticle tracking analysis (NTA) and flow virometry enabled the high throughput quantification of VLPs. Interestingly, differences in the determination of nanoparticle concentration were observed between techniques. Moreover, NTA and flow virometry allowed the quantification of both EVs and VLPs within the same experiment while analyzing particle size distribution (PSD), simultaneously. These results provide new insights into the use of different analytical tools to monitor the production of nanoparticle-based biologicals and their associated contaminants.
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