Extracellular Vesicles (EVs) are known to play a crucial role in intracellular communication. They are released by most cell types during apoptosis. However, healthy cells also secrete EVs which deliver, among others, nucleic acids.
Extracellular Vesicles (EVs) are known to play a crucial role in intracellular communication (Contreras-Naranjo et al., 2018). They are released by most cell types during apoptosis (Borges et al., 2013). However, healthy cells also secrete EVs which deliver, among others, nucleic acids (Ratajczak et al., 2006; Cai et al., 2013). After being taken up, these small fractions of RNAs and DNAs can alter the behaviour of their recipient cell (Fischer et al., 2016). The relatively small size of Extracellular Vesicles hindered the analysis of nucleic acid containing EVs to this point. Here we report an easy and quick method to analyse size and concentration of nucleic acid containing EVs by fluorescent NTA (f-NTA) after staining with DAPI.
Analysis of nucleic acid containing EVs is of great interest as it is known that this horizontal RNA and DNA transfer orchestrates the transcription of the target cell and has therefore a strong impact on a wide range of different diseases (Sansone et al, 2017). Moreover, it has been shown that the appearance of nucleic acid containing EVs can be altered by diseases (Kitai et al., 2017).
4′,6-Diamidin-2-phenylindol (DAPI) is a well-known fluorescent stain which is used for many different applications such as fluorescence microscopy or flow cytometry. It can pass cell membranes and is therefore an ideal dye to detect nucleic acids inside intact membranous particles. DAPI binds the AT rich regions of double stranded DNA and also intercalates in RNA. Its absorption maximum is at 358nm, and when bound to DNA its emission maximum is in the blue range. When bound to RNA the emission is about 5-fold weaker and the excitation maximum is shifted into the green range.
The new Particle Metrix ZetaView® QUATT is equipped with a 405nm as well as with a 488nm, 520 nm and 640 nm excitation lasers and suitable long pass fluorescence filter sets making the instrument a perfect tool to analyse DNA- as well as RNA-bound DAPI.
To prove this capability, HTC116 cell line derived exosomes (HansaBioMed, Estonia) were used and simultaneously stained with DAPI and Cell Mask© Deep Red (Thermo Fisher, USA) followed by size and concentration measurements with the Particle Matrix ZetaView® QUATT.
The results clearly show an overall scatter concentration of 2.0 x 1011 particles/ml (see Figure 2). The mean size was calculated to 106.5 nm. (Figure 1 blue curve).
Purity measurements with Cell Mask© Deep Red (CMDR) however indicate that only about 75% (concentration = 1,5 x 1011) of the total particles are surrounded by a biological membrane (see Figure 2). The size measurement of the membranous particles fully confirms the scatter measurement. The mean diameter of the CMDR positive vesicles was calculated to be 113.2 nm (see Figure 1, red curve). All other particles that are non-visible in the red fluorescence channel (CMDR) but detected in scatter mode are most likely inorganic nanobubbles, insoluble salt crystals or protein aggregates.
Internal DNA / RNA staining of the HTC116 derived EVs with DAPI was performed as described under Methods. By exciting the samples with the 405nm laser, 1 x 1010 particles/ml were detected, which is about 13% of the total membranous particles (see Figure 2). This indicates that only a fraction of the HTC116 cell line derived EVs contain detectable amount of nucleic acids. However, it remains unclear if the DAPI-negative vesicles do not contain nucleic acids or if the DNA / RNA concentration in those vesicles is below the detection limit of the ZetaView NTA System. The median size of the DAPI positive fraction tend to be a bit higher (116.9 nm) compared to the fraction of all membranous particles but is still within the statistical variance of the measurement method (Figure 1, green curve).
These results show that the ZetaView could be a very useful tool to analyse size and concentration of nucleic acid containing EVs.
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Kitai Y., Kawasaki T., Sueyoshi T., Kobiyama K., Ishii K.J., Zou J., Akira S., Matsuda T., Kawai T. DNA-Containing Exosomes Derived from Cancer Cells Treated with Topotecan Activate a STING-Dependent Pathway and Reinforce Antitumor Immunity. J Immunol. 2017 ;198(4):1649-1659.
After successfully showing C-NTA of double-stained MSC-EVs in our previous study (https://bit.ly/43GG0Yk) and confirming
the results with image flow cytometry, this note describes C-NTA of multi-stained MSC-EVs using a PMX-430 QUATT NTA
system with four lasers.
In this new application note we describe a quick determination of the physical titer of coronaviruses by fluorescence-based Nanoparticle Tracking Analysis and specific spike antibody recognition.
In this report, we describe the quantification of colocalization ratios on double-stained MSC-derived EVs using fluorochrome conjugated antibodies against the
cell surface antigens CD9 and CD41, which also serve as EV marker proteins.
In addition to using Nano Particle Tracking Analysis (NTA) to measurement the size distribution and concentration of EV samples, both Microfluidic Resistive Pulse Sensing (MRPS) and the Single Particle Interference Reflectance Image Sensor (SP-IRIS) methods have been widely used as an alternative means of characterizing EVs. In this note, we relay two specific cases for using the ZetaView® NTA system to achieve relative “high-throughput” analysis of many EV samples, along estimations of throughput for MRPS & SPIRIS methods for an equivalent number of samples; further, we establish realistic estimates for the high cost of ownership for operating MRPS & SP-IRIS systems as a result of the cost of consumables as well as the substantially greater amount of time spent to run the same number of samples.
Along with generally accepted methods are some “tricks of the trade” such as the addition of Tween® or BSA; however, some of those additions are problematic.
Determination of the titer of viruses and bacteriophages is an indispensable key technology in virological research and for diagnostic purposes. Depending on the method used, the measurements are either qualitative or quantitative, very time-consuming, and do not provide information about integrity or aggregation behaviour of the virus particles. Nanoparticle Tracking Analysis with the Particle Metrix ZetaView® instrument allows the user to perform a rapid concentration determination of virus particles. Using the bacteriophage Phi6 as an example, we show how titer, purity and integrity of phage particles can be measured quickly and reliably using the fluorescence detection capability of the Particle Metrix ZetaView® instrument.
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