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Yorodumi- EMDB-13228: Cryo-electron tomogram of a hybrid virus particle generated by co... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-13228 | ||||||||||||
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Title | Cryo-electron tomogram of a hybrid virus particle generated by coinfection of human Influenza A virus and Respiratory Syncytial virus on lung cells. | ||||||||||||
Map data | Cryo-electron tomogram of a hybrid virus particle generated during coinfection of Influenza A virus and Respiratory Syncytial virus in lung cells. | ||||||||||||
Sample |
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Keywords | hybrid virus / filament / glycoprotein spikes / RNPs / VIRUS | ||||||||||||
Biological species | Hybrid virus particle formed from RSV A2 and IAV PR8 | ||||||||||||
Method | electron tomography / cryo EM | ||||||||||||
Authors | Vijayakrishnan S / Haney J / Murcia PR | ||||||||||||
Funding support | United Kingdom, 3 items
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Citation | Journal: Nat Microbiol / Year: 2022 Title: Coinfection by influenza A virus and respiratory syncytial virus produces hybrid virus particles. Authors: Joanne Haney / Swetha Vijayakrishnan / James Streetley / Kieran Dee / Daniel Max Goldfarb / Mairi Clarke / Margaret Mullin / Stephen D Carter / David Bhella / Pablo R Murcia / Abstract: Interactions between respiratory viruses during infection affect transmission dynamics and clinical outcomes. To identify and characterize virus-virus interactions at the cellular level, we ...Interactions between respiratory viruses during infection affect transmission dynamics and clinical outcomes. To identify and characterize virus-virus interactions at the cellular level, we coinfected human lung cells with influenza A virus (IAV) and respiratory syncytial virus (RSV). Super-resolution microscopy, live-cell imaging, scanning electron microscopy and cryo-electron tomography revealed extracellular and membrane-associated filamentous structures consistent with hybrid viral particles (HVPs). We found that HVPs harbour surface glycoproteins and ribonucleoproteins of IAV and RSV. HVPs use the RSV fusion glycoprotein to evade anti-IAV neutralizing antibodies and infect and spread among cells lacking IAV receptors. Finally, we show that IAV and RSV coinfection in primary cells of the bronchial epithelium results in viral proteins from both viruses co-localizing at the apical cell surface. Our observations define a previously unknown interaction between respiratory viruses that might affect virus pathogenesis by expanding virus tropism and enabling immune evasion. | ||||||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_13228.map.gz | 600.2 MB | EMDB map data format | |
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Header (meta data) | emd-13228-v30.xml emd-13228.xml | 11.1 KB 11.1 KB | Display Display | EMDB header |
Images | emd_13228.png | 224.4 KB | ||
Filedesc metadata | emd-13228.cif.gz | 4.5 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-13228 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-13228 | HTTPS FTP |
-Validation report
Summary document | emd_13228_validation.pdf.gz | 405 KB | Display | EMDB validaton report |
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Full document | emd_13228_full_validation.pdf.gz | 404.5 KB | Display | |
Data in XML | emd_13228_validation.xml.gz | 4.7 KB | Display | |
Data in CIF | emd_13228_validation.cif.gz | 5.3 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-13228 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-13228 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_13228.map.gz / Format: CCP4 / Size: 648 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | Cryo-electron tomogram of a hybrid virus particle generated during coinfection of Influenza A virus and Respiratory Syncytial virus in lung cells. | ||||||||||||||||||||
Voxel size | X=Y=Z: 11.992 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Sample components
-Entire : Hybrid virus particle formed from RSV A2 and IAV PR8
Entire | Name: Hybrid virus particle formed from RSV A2 and IAV PR8 |
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Components |
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-Supramolecule #1: Hybrid virus particle formed from RSV A2 and IAV PR8
Supramolecule | Name: Hybrid virus particle formed from RSV A2 and IAV PR8 / type: virus / ID: 1 / Parent: 0 Details: This sample was A549 lung fibroblasts coinfected with both the PR8 strain of Influenza A virus and the A2 strain of Respiratory Syncytial Virus. NCBI-ID: 1972429 Sci species name: Hybrid virus particle formed from RSV A2 and IAV PR8 Sci species strain: A2 and PR8 / Virus type: VIRION / Virus isolate: STRAIN / Virus enveloped: Yes / Virus empty: No |
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Host (natural) | Organism: Homo sapiens (human) / Strain: PR8 and A2 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | electron tomography |
Aggregation state | cell |
-Sample preparation
Buffer | pH: 7.5 |
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Grid | Model: Quantifoil R2/2 / Material: GOLD / Mesh: 200 |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV Details: Blotted from backside for 5 seconds before plunging.. |
Details | This sample was A549 lung fibroblasts coinfected with the human PR8 strain of Influenza A virus and A2 strain of Respiratory Syncytial virus directly on EM grids. |
Sectioning | Other: NO SECTIONING |
Fiducial marker | Manufacturer: British Biocell International / Diameter: 20 nm |
-Electron microscopy
Microscope | JEOL CRYO ARM 300 |
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Specialist optics | Energy filter - Name: In-column Omega Filter / Energy filter - Slit width: 30 eV |
Image recording | Film or detector model: DIRECT ELECTRON DE-64 (8k x 8k) / Detector mode: COUNTING / Average electron dose: 1.6 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 50000 |
Sample stage | Specimen holder model: JEOL CRYOSPECPORTER / Cooling holder cryogen: NITROGEN |
-Image processing
Final reconstruction | Algorithm: BACK PROJECTION / Software - Name: IMOD (ver. 4.11) Software - details: Tomograms reconstructed using Etomo module of IMOD Details: Tilt series were aligned and dose filtered using alignframes module in IMOD; tomograms were reconstructed using weighted back projection via the etomo module in IMOD. CTF correction was ...Details: Tilt series were aligned and dose filtered using alignframes module in IMOD; tomograms were reconstructed using weighted back projection via the etomo module in IMOD. CTF correction was carried out using ctfplotter. Final tomograms were binned by 8 (bin8) to aid in visualisation and interpretation. Number images used: 61 |
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