SSBD:database v3

Dataset Fig5A_KO-VB_SARS

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Project

Project
393-Fujimoto-CoV2Infect
Title
SARS-CoV-2 infection to the co-culture of bronchial organoids and vascular beds in a microfluidic device
Description
Blood vessels show various COVID-19-related conditions including thrombosis and cytokine propagation. Existing in vitro blood vessel models cannot represent the consequent changes in the vascular structure or determine the initial infection site, making it difficult to evaluate how epithelial and endothelial tissues are damaged. Here, the authors developed a microphysiological system (MPS) that co-culture the bronchial organoids and the vascular bed to analyze infection site and interactions. In this system, virus-infected organoids caused damage in vascular structure. However, vasculature was not damaged or infected when the virus was directly introduced to vascular bed. The knockout of interferon-related genes and inhibition of the JAK/STAT pathway reduced the vascular damage, indicating the protective effect of interferon response suppression. The results demonstrate selective infection of bronchial epithelial cells and vascular damage by cytokines and also indicate the applicability of MPS to investigate how the infection influences vascular structure and functions.
License
CC BY
Funding
KAKENHI (Grant-in-Aid for Scientific Research) on Priority Areas ‘Systems Genomics’ [17017038]

Dataset

Title
Z-series images of KO-VB in the SARS-CoV-2-infected device
Description
Z-series images of KO-VB in the SARS-CoV-2-infected device in which KO-VB and bronchial organoids were co-culured. KO-VB is vascular bed made from IFNAR2 KO (Knocking out interferon alpha and beta receptor subunit 2)-HUVECs. Channel1: CD31, Channel2: Alexa Fluor 647 labeled phalloidin, Channel3: DAPI, Channel4: Differential interference image
License
CC BY
Submitted at
None
Released at
None
Updated at

Biosamples

Description
Co-culture of bronchial organoids, which were derived from normal human bronchial epithelial cells, and vascular beds, which were composed from IFNAR2 KO (Knocking out interferon alpha and beta receptor subunit 2)-HUVECs, in a special microfluidic device.
Organisms
Homo sapiens (NCBI:txid9606)
Strains
Cells
endothelial cell of umbilical vein (CL_0002618) bronchial epithelial cell (CL_0002328)
Cell lines
Intrinsic variables
Interferon alpha and beta receptor subunit 2 were knocked out from Human Umbilical Vein Endothelial Cells.
Extrinsic variables
The SARS-CoV-2 virus was applied to the bronchial organoids

Ontologies

UBERON
Anatomical entities
Gene ontology: Biological processes
viral process (GO:0016032)
Gene ontology: Cellular components
nucleus (GO:0005634) actin cytoskeleton (GO:0015629)
Gene ontology: Molecular functions

Genetics

Gene names
NA
Protein names
Platelet endothelial cell adhesion molecule (P16284) Actin, cytoplasmic 1 (P60709)
Genetic methods
Protein tags
Alexa Fluor 647 (FBbi:00000447)
Probes
DAPI (FBbi:00000459)
Oligo Primer
Genotype

Treatments

Reagent or Compound
Concentrations
0.1 multiplicity of infection (UO_0010075)
FoldDilution

Imaging Methods

Dimensions
2048x2048x29x4x1
X scales
0.31 micrometer
Y scales
0.31 micrometer/pixel
Z scales
2.88 micrometer
T scales
Channels
4 channel
Microscopy types
confocal microscopy (FBbi:00000251)
Detection methods
Visualization methods
primary antibody plus labeled secondary antibody GFP 4',6-diamidino-2-phenylindole (DAPI)
Illumination methods
Sources of contrast
Contrast enhancing methods
Resolution enhancing methods
Image parameters
Sample preparation methods
fixation method

Instruments

Body
Olympus-Evident FV3000
Model
Light source
Detector
Objective
Olympus-Evident LUCPLFLN20X
Filter set
Dichroic