Heat map of normalized intensity profiles of the proteins included in a mitochondrial fraction from Arabidopsis thaliana leaves. The map consists of 70 columns corresponding to the 70 gel slices and 1359 lines corresponding to the 1359 identified unique proteins. Relative protein quantity is indicated by shades of blue (dark blue stands for high quantity, light blue/white for low quantity). Quantitative profiles of proteins are aligned according to similarity by hierarchical clustering using the NOVA software.
A heatmap covering the abundance profiles of 1290 proteins (rows) in 47 gel fractions (columns). Proteins of a mitochondrial fraction isolated from Arabidopsis leafs during the day were solubilized with mild concentrations of digitonin and were natively separated by Large-Pore Blue-Native PAGE (lpBN-PAGE) as described in (Rugen et al 2021) allowing the coverage of a mass range of 0.04 - 25 MDa. Relative protein abundance is indicated by shades of blue (dark blue stands for high quantity, light blue/white for low quantity). Quantitative profiles of proteins are aligned according to similarity by hierarchical clustering using the NOVA software.
This heatmap is part of a larger dataset comprising a total of 10 different heatmaps. For more details, please check the corresponding publication. Please feel free to contact Dr. Nils Rugen if you want to access the remaining heatmaps.
Please note: The gel stripe was adjusted to match the mitochondrial protein complexes I, III and V.
A heatmap covering the abundance profiles of 1095 proteins (rows) in 47 gel fractions (columns). Proteins of a mitochondrial fraction isolated from Arabidopsis leafs during the night were solubilized with mild concentrations of digitonin and were natively separated by Large-Pore Blue-Native PAGE (lpBN-PAGE) as described in (Rugen et al 2021) allowing the coverage of a mass range of 0.04 - 25 MDa. Relative protein abundance is indicated by shades of blue (dark blue stands for high quantity, light blue/white for low quantity). Quantitative profiles of proteins are aligned according to similarity by hierarchical clustering using the NOVA software.
This heatmap is part of a larger dataset comprising a total of 10 different heatmaps. For more details, please check the corresponding publication. Please feel free to contact Dr. Nils Rugen if you want to access the remaining heatmaps.
Please note: The gel stripe was adjusted to match the mitochondrial protein complexes I, III and V.
A chloroplast fraction from Arabidopsis thaliana was separated by Blue native PAGE. The gel stripe was cut into 44 fractions. All fractions were analyzed by quantitative label-free shotgun proteomics. The heatmap consists of 44 columns corresponding to the 44 gel slices and 1374 lines corresponding to the 1374 identified unique proteins. The map displays the normalized (max) intensity profiles of all identified proteins along the 1D BN gel stripe. Relative protein quantity is indicated by shades of blue (dark blue stands for high quantity, light blue/white for low quantity). Profiles are aligned according to similarity by hierarchical clustering using the NOVA software.
Abundance profiles of ribosomal and ribosome-related proteins in cross-linked Arabidopsis leaf mitochondria. Proteins of a mitochondrial fraction isolated from leaf material treated with formaldehyde immediately after cell disruption were solubilized with digitonin and separated by lpBN PAGE. The resulting gel lane was cut into 45 fractions and all fractions were subjected to label-free quantitative shotgun proteomics. The heatmap displays the abundance profiles of proteins annotated as ribosomal subunits or ribosome associated proteins detected in this approach. Please note that the clusters shown here do are different to the master heatmap containing all identified proteins due to the selection process. Protein abundance is illustrated by color: white is absence of detection, shades of blue indicate amounts relative to the highest detected abundance of a particular protein across all fractions.
Abundance profiles of small subunit ribosomal proteins and associated proteins in cross-linked Arabidopsis leaf mitochondria. Proteins of a mitochondrial fraction isolated from leaf material treated with formaldehyde immediately after cell disruption were solubilized with digitonin and separated by lpBN PAGE. The resulting gel lane was cut into 45 fractions and all fractions were subjected to label-free quantitative shotgun proteomics. Heatmap is a cutout of the master heatmap derived from hierarchical clustering of all identified proteins. Protein abundance is illustrated by color: white is absence of detection, shades of blue indicate amounts relative to the highest detected abundance of a particular protein across all fractions (dark blue).
Abundance profiles of large subunit ribosomal proteins and associated proteins in cross-linked Arabidopsis leaf mitochondria. Proteins of a mitochondrial fraction isolated from leaf material treated with formaldehyde immediately after cell disruption were solubilized with digitonin and separated by lpBN PAGE. The resulting gel lane was cut into 45 fractions and all fractions were subjected to label-free quantitative shotgun proteomics. Heatmap is a cutout of the master heatmap derived from hierarchical clustering of all identified proteins. Protein abundance is illustrated by color: white is absence of detection, shades of blue indicate amounts relative to the highest detected abundance of a particular protein across all fractions.
Abundance profiles of small and large ribosomal subunits separated by sucrose velocity density gradient ultracentrifugation. Proteins of a mitochondrial fraction isolated from leaf material treated with formaldehyde immediately after cell disruption were solubilized with digitonin and separated in an 8% to 40% sucrose gradient. The gradient was divided into 29 fractions, each of which being subjected to label-free quantitative shotgun analysis. Hierarchical clustering of MS results yieldeda heatmap in the same fashion as outlined for the lpBN PAGE. Cutouts of the master clusters containing small subunit (top cluster) and large subunit (bottom cluster) are shown. Protein abundance is illustrated by color: white is absence of detection, shades of brown indicate amounts relative to the highest detected abundance of a particular protein across all fractions.
