Mass Spectrometry Image Correlation: Quantifying Colocalization

2008 ◽  
Vol 7 (8) ◽  
pp. 3619-3627 ◽  
Author(s):  
Liam A. McDonnell ◽  
Alexandra van Remoortere ◽  
René J. M. van Zeijl ◽  
André M. Deelder
Keyword(s):  
Mass Spectrometry ◽  
Image Correlation ◽  
Mass Spectrometry Image

scholarly journals Quantifying element incorporation in multispecies biofilms using nanoscale secondary ion mass spectrometry image analysis

2016 ◽  
Vol 11 (2) ◽  
pp. 02A322 ◽  
Author(s):  
Ryan S. Renslow ◽  
Stephen R. Lindemann ◽  
Jessica K. Cole ◽  
Zihua Zhu ◽  
Christopher R. Anderton
Keyword(s):  
Mass Spectrometry ◽  
Image Analysis ◽  
Secondary Ion Mass Spectrometry ◽  
Mass Spectrometry Image ◽  
Ion Mass Spectrometry ◽  
Secondary Ion ◽  
Multispecies Biofilms

scholarly journals Microbial Identification, High-Resolution Microscopy and Spectrometry of the Rhizosphere in Its Native Spatial Context

2021 ◽  
Vol 12 ◽  
Author(s):  
Chaturanga D. Bandara ◽  
Matthias Schmidt ◽  
Yalda Davoudpour ◽  
Hryhoriy Stryhanyuk ◽  
Hans H. Richnow ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
High Resolution ◽  
Image Registration ◽  
Spatial Organization ◽  
Secondary Ion Mass Spectrometry ◽  
Image Correlation ◽  
Chemical Mapping ◽  
Microbial Identification ◽  
Ion Mass Spectrometry ◽  
Secondary Ion

During the past decades, several stand-alone and combinatorial methods have been developed to investigate the chemistry (i.e., mapping of elemental, isotopic, and molecular composition) and the role of microbes in soil and rhizosphere. However, none of these approaches are currently applicable to characterize soil-root-microbe interactions simultaneously in their spatial arrangement. Here we present a novel approach that allows for simultaneous microbial identification and chemical analysis of the rhizosphere at micro− to nano-meter spatial resolution. Our approach includes (i) a resin embedding and sectioning method suitable for simultaneous correlative characterization of Zea mays rhizosphere, (ii) an analytical work flow that allows up to six instruments/techniques to be used correlatively, and (iii) data and image correlation. Hydrophilic, immunohistochemistry compatible, low viscosity LR white resin was used to embed the rhizosphere sample. We employed waterjet cutting and avoided polishing the surface to prevent smearing of the sample surface at nanoscale. The quality of embedding was analyzed by Helium Ion Microscopy (HIM). Bacteria in the embedded soil were identified by Catalyzed Reporter Deposition-Fluorescence in situ Hybridization (CARD-FISH) to avoid interferences from high levels of autofluorescence emitted by soil particles and organic matter. Chemical mapping of the rhizosphere was done by Scanning Electron Microscopy (SEM) with Energy-dispersive X-ray analysis (SEM-EDX), Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS), nano-focused Secondary Ion mass Spectrometry (nanoSIMS), and confocal Raman spectroscopy (μ-Raman). High-resolution correlative characterization by six different techniques followed by image registration shows that this method can meet the demanding requirements of multiple characterization techniques to identify spatial organization of bacteria and chemically map the rhizosphere. Finally, we presented individual and correlative workflows for imaging and image registration to analyze data. We hope this method will be a platform to combine various 2D analytics for an improved understanding of the rhizosphere processes and their ecological significance.

scholarly journals High-Resolution Chemical Mapping and Microbial Identification of Rhizosphere using Correlative Microscopy

2021 ◽  
Author(s):  
Chaturanga D. Bandara ◽  
Matthias Schmidt ◽  
Yalda Davoudpour ◽  
Hryhoriy Stryhanyuk ◽  
Hans H. Richnow ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
High Resolution ◽  
Image Registration ◽  
Spatial Organization ◽  
Secondary Ion Mass Spectrometry ◽  
Image Correlation ◽  
Chemical Mapping ◽  
Microbial Identification ◽  
Ion Mass Spectrometry ◽  
Secondary Ion

AbstractDuring the past decades, several stand-alone and combinatory methods have been developed to investigate the chemistry (i.e. mapping of elemental, isotopic and molecular composition) and the role of microbes in soil and rhizosphere. However, none of these approaches are currently capable of characterizing soil-root-microbe interactions simultaneously in their spatial arrangement. Here we present a novel approach that allows chemical and microbial identification of the rhizosphere at micro-to nano-meter spatial resolution. Our approach includes i) a resin embedding and sectioning method suitable for simultaneous correlative characterization of Zea mays rhizosphere, ii) an analytical work flow that allows up to six instruments/techniques to be used correlatively, and iii) data and image correlation. Hydrophilic, immunohistochemistry compatible, low viscosity LR white resin was used to embed the rhizosphere sample. We employed waterjet cutting and avoided polishing the surface to prevent smearing of the sample surface at nanoscale. Embedding quality was analyzed by Helium Ion Microscopy (HIM). Bacteria in the embedded soil was identified by Catalyzed Reporter Deposition-Fluorescence In Situ Hybridization (CARD-FISH) to avoid interferences from high levels of auto fluorescence emitted by soil particles and organic matter. Chemical mapping of the rhizosphere was done by Scanning Electron Microscopy (SEM) with Energy-dispersive X-ray analysis (SEM-EDX), Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS), nano-focused Secondary Ion mass Spectrometry (nanoSIMS), and confocal Raman spectroscopy (µ-Raman). High-resolution correlative characterization by six different techniques followed by image registration shows that this method can meet the demanding requirements of multiple characterization techniques to chemically map the rhizosphere and identify spatial organization of bacteria. Finally, we presented individual and correlative workflows for imaging and image registration to analyze data. We hope this method will be a platform to combine various 2D analytics for an ample understanding of the rhizosphere processes and their ecological significance.Graphical Abstract

scholarly journals DetectTLC: Automated Reaction Mixture Screening Utilizing Quantitative Mass Spectrometry Image Features

2015 ◽  
Vol 27 (2) ◽  
pp. 359-365 ◽  
Author(s):  
Chanchala D. Kaddi ◽  
Rachel V. Bennett ◽  
Martin R. L. Paine ◽  
Mitchel D. Banks ◽  
Arthur L. Weber ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Image Features ◽  
Quantitative Mass Spectrometry ◽  
Mass Spectrometry Image

How SIMS microscopy can be used in medicine

1992 ◽  
Vol 50 (2) ◽  
pp. 1602-1603
Author(s):  
Philippe Fragu
Keyword(s):  
Mass Spectrometry ◽  
Biomedical Applications ◽  
Secondary Ion Mass Spectrometry ◽  
Chemical Elements ◽  
Biological Applications ◽  
The Past ◽  
Potential Source ◽  
Secondary Ion ◽  
Chemical Integrity ◽  
Scientific Endeavour

The identification, localization and quantification of intracellular chemical elements is an area of scientific endeavour which has not ceased to develop over the past 30 years. Secondary Ion Mass Spectrometry (SIMS) microscopy is widely used for elemental localization problems in geochemistry, metallurgy and electronics. Although the first commercial instruments were available in 1968, biological applications have been gradual as investigators have systematically examined the potential source of artefacts inherent in the method and sought to develop strategies for the analysis of soft biological material with a lateral resolution equivalent to that of the light microscope. In 1992, the prospects offered by this technique are even more encouraging as prototypes of new ion probes appear capable of achieving the ultimate goal, namely the quantitative analysis of micron and submicron regions. The purpose of this review is to underline the requirements for biomedical applications of SIMS microscopy.Sample preparation methodology should preserve both the structural and the chemical integrity of the tissue.

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