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To visualise cell cycle progression in live cells, we used the FUCCI system17 and established a MCF10A cell line, which expresses two different fluorescent markers for G1 and S-G2, respectively (Fig. 4a).
All sections were counterstained with Gill's haematoxylin (Sigma Aldrich) to visualise cell nuclei.
Slides were postwashed in 2 × SSC at 72°C for 5 min and counterstained with DAPI to visualise cell nuclei.
To visualise cell file-specific AIP1-2-mCherry expression, longitudinal sections at a distance of 3.54 µm from a top view of the analysed seedling root were processed by maximum-intensity projection, employing ZEN lite 2012 analysis software.
Biopsy specimens taken from the same individuals as used for penetrability measurements were fixed to preserve the mucus, immunostained for MUC2, and counterstained for DNA to visualise cell nuclei and bacteria.
Biopsy samples were fixed to preserve the mucus, immunostained for MUC2, and counterstained for DNA to visualise cell nuclei and bacteria (FISH probes do not detect all bacteria associated with the biopsy samples).
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We analysed Dbx1Cre R26YFP embryos between E8.0 and E9.5 using YFP immunostaining to visualise cells deriving from dbx1-expressing progenitors.
DeadEasy Caspase could be used for automatic counting of apoptotic cell number in other tissues or model organisms (e.g. fish, mouse) so long as stainings of comparable qualities are used to visualise cells of comparable sizes, as indicated in Table 1 and Table 3 and Figure 4.
The standard method to measure transwell matrigel invasion is by staining invasion chambers with crystal violet to visualise cells.
However, if it is desirable to visualise cells directly and perhaps perform further phenotypic or molecular characterisation, then a cytometric approach may be preferable.
Chondrocyte viability was determined at the end of the culture period using fluorescence microscopy to visualise cells labelled with calcein AM and ethidium homodimer.
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