The largest database of trusted experimental protocols

Zen 2014

Manufactured by Zeiss
Sourced in Germany

ZEN 2014 is a software suite developed by Zeiss to control and manage microscopy imaging systems. It provides a user interface and tools for acquiring, processing, and analyzing microscopy data. The software supports a range of Zeiss microscopes and imaging modalities.

Automatically generated - may contain errors

6 protocols using zen 2014

1

In vivo localization of ANN1-GFP during plasmolysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
For in vivo localization study of ANN1-GFP during plasmolysis, 3- to 4-day-old Arabidopsis plants expressing proANN1::ANN1:GFP or 35S::sGFP (control) constructs were used. Samples were mounted in half-strength MS medium (or in half-strength MS medium with FM4-64) in micro-chambers, and hypocotyl epidermal or primary root cells were documented at control conditions. Osmotic stress was induced either with 500 mM NaCl or 1 M mannitol solutions for hypocotyl, and 250 mM NaCl or 500 mM mannitol for root (in half-strength MS), which were applied by perfusion in a volume of about 100–150 µl. Imaging of ANN1-GFP or free GFP relocations during plasmolysis was done within the range of 1–40 min. Subsequently, deplasmolysis was realized by thorough sample perfusion with half-strength MS. Experiments were conducted by Airyscan CLSM 880 (Carl Zeiss, Germany) equipped with 20×/0.8 NA dry Plan-Apochromat objective (Carl Zeiss, Germany). Samples (hypocotyl in ANN1-GFP line) were imaged with a 488-nm excitation laser line and BP420-480 and BP495-550 emission filters for GFP detection. The image post-processing was done using ZEN 2014 software (Carl Zeiss, Germany). Additionally, Photoshop 6.0/CS, Microsoft Excel, and PowerPoint were used for final figure plates preparation.
+ Open protocol
+ Expand
2

Colocalization of ANN1-GFP in Arabidopsis Roots

Check if the same lab product or an alternative is used in the 5 most similar protocols
The membrane styryl dye FM4-64 [N-(3-triethylammoniumpropyl)-4-(6-(4-(diethylamino)phenyl)hexatrienyl) pyridinium dibromide; Thermo Fisher Scientific, Waltham, MA, United States] was used for colocalization study of ANN1-GFP or free GFP (control) with the plasma membrane in root cells. Three-day-old Arabidopsis seedlings were placed in a drop of half-strength MS culture medium with 4 μM FM4-64 on a microscope slide in darkness for 15 min. After imaging under control conditions for approximately 15 min, the sample was washed by perfusion with the dye-free half-strength MS medium containing NaCl or mannitol and observed further. Specimens were observed by Airyscan CLSM 880 (Carl Zeiss, Germany) equipped with 20×/0.8 NA dry Plan-Apochromat objective (Carl Zeiss, Germany) and imaged using 488-nm excitation laser line and BP420-480 and BP495-550 emission filters for GFP detection, while FM4-64 was detected using beam splitter MBS 488/561 and BP420-480 and LP605. After the post-processing of images, fluorescence intensities of ANN1-GFP, free GFP, and FM4-64 were measured at the interface along two adjacent epidermal cells in the elongation zone of the primary root in ZEN 2014 software (Carl Zeiss, Germany). Photoshop 6.0/CS, Microsoft Excel, and PowerPoint were used for final figure plate preparation.
+ Open protocol
+ Expand
3

Visualizing Citrine Expression in Thalli

Check if the same lab product or an alternative is used in the 5 most similar protocols
Five-day-old thalli expressing 2×Citrine driven by the MpSYP12B promoter were embedded in low-melt agarose gel and observed using a Light-sheet Z.1 microscope (Carl Zeiss) equipped with a water immersion lens (×5, numerical aperture = 0.16). The samples were excited at 488 nm (Argon 488 laser). Acquisition and construction of three-dimension images from multi-angle images were conducted using the ZEN2014 software (Carl Zeiss). The images were processed digitally with Imaris 8.2 (Bitplane) and Photoshop software.
+ Open protocol
+ Expand
4

Lignin Detection in Wheat Roots

Check if the same lab product or an alternative is used in the 5 most similar protocols
Root segments (first 25 mm from the root apex) of different treatment 48 h after inoculation with F. pseudograminearum were used for lignin histochemical detection. Lignin staining was performed according to the literature [55 (link),56 (link),57 (link)]. Stained cross-sections of roots were observed under confocal laser scanning microscope LSM710 (Carl Zeiss, Oberkochen, Germany) using following settings: 561 nm excitation wavelength, 0.6% laser power, the default gain, 600–650 nm emission bandwidth. Fluorescence intensity measurement and post-processing were performed using ZEN 2014 software (Carl Zeiss). Average fluorescence intensity was calculated from at least two wheat roots in three biological replicates (n = 6).
+ Open protocol
+ Expand
5

Quantitative Analysis of SIMK and MAPK Co-localization in Alfalfa Symbiosis

Check if the same lab product or an alternative is used in the 5 most similar protocols
The mode of co-localization of fluorescence signals was analysed on immunolabelled root samples of alfalfa control and transgenic plants co-cultivated with E. meliloti. Quantitative co-localization analysis between SIMK and activated MAPKs was conducted in particular ROIs at early symbiotic stages around infection pockets (3–4 dpi) and ITs (6–7 dpi). The measured area of infection pockets and ITs was selected manually with the drawing tool of the ZEN software, outlining the analysed region of early infection structures. The co-localization range was measured from single plane confocal sections. In total, three independent optical sections per infection pocket and IT were analysed using the co-localization tool of Zeiss ZEN 2014 software (Blue version). Background thresholds were automatically implemented by the iterative Costes approach (Costes et al., 2004 (link)), and co-localization data were calculated from manually selected ROIs. Data were displayed in intensity-corrected scatterplot diagrams, the intensity correlation of co-localizing pixels was expressed by Pearson’s correlative coefficient, and results were graphically edited using Microsoft Excel.
+ Open protocol
+ Expand
6

Light Sheet Imaging of Stained and Cleared Samples

Check if the same lab product or an alternative is used in the 5 most similar protocols
Images were acquired on a ZEISS lightsheet Z1 microscope using the Zen 2014 software (ZEISS). The lightsheet was generated by lasers (wavelength 488nm and 561nm) and dual side illumination was applied (Illumination optics Lightsheet Z.1 5×/0.1 ZEISS). Fluorescent signals were detected with 5X air detection objectives for clearing chambers (Lightsheet Z.1 detection optics 5×/0.16 clearing, n=1.45, ZEISS) and acquired with PCO.Edge sCMOS cameras (liquid cooled, 1920 x 1920 pixels, 16-bit readout) . Stained and cleared samples were submerged in a chamber filled with CUBIC 2 solution. Tiles were defined with TileScan (ZEISS) for big samples, step size was optimized by Zen. All images were acquired in 16-bit.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!