DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Label-Free Multiphoton Imaging of Microbes in Root, Mineral, and Soil Matrices with Time-Gated Coherent Raman and Fluorescence Lifetime Imaging

Journal Article · · Environmental Science and Technology
ORCiD logo [1];  [2];  [2]; ORCiD logo [2];  [2]; ORCiD logo [2]; ORCiD logo [3];  [1]; ORCiD logo [1]; ORCiD logo [2]
  1. Materials Science Division, Physical & Life Sciences, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
  2. Nuclear and Chemical Sciences Division, Physical & Life Sciences, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
  3. Nuclear and Chemical Sciences Division, Physical & Life Sciences, Lawrence Livermore National Laboratory, Livermore, California 94550, United States, Life and Environmental Sciences Department, University of California Merced, Merced, California 95343, United States

Not Available

Research Organization:
Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States)
Sponsoring Organization:
USDOE; USDOE Office of Science (SC), Biological and Environmental Research (BER)
Grant/Contract Number:
AC52-07NA27344
OSTI ID:
1840076
Report Number(s):
LLNL-JRNL-825764
Journal Information:
Environmental Science and Technology, Journal Name: Environmental Science and Technology Journal Issue: 3 Vol. 56; ISSN 0013-936X
Publisher:
American Chemical SocietyCopyright Statement
Country of Publication:
United States
Language:
English

References (87)

In Vivo Multiphoton Microscopy of Basal Cell Carcinoma journal October 2015
Use of Fluorescent Probes: Their Effect on Cell Biology and Limitations journal October 2012
Reference database of Raman spectra of biological molecules journal January 2007
Rapid 3D chemical-specific imaging of minerals using stimulated Raman scattering microscopy: Rapid 3D coherent Raman imaging of minerals journal March 2017
Fluorescence microscopy for visualization of soil microorganisms?a review journal April 2004
Microbial interactions in the rhizosphere: beneficial influences of plant growth-promoting rhizobacteria on nutrient acquisition process. A review journal January 2015
The rhizosphere: a playground and battlefield for soilborne pathogens and beneficial microorganisms journal February 2008
Strategies and methods for studying the rhizosphere—the plant science toolbox journal April 2009
Sebacina vermifera: a unique root symbiont with vast agronomic potential journal December 2015
Classification and identification of pigmented cocci bacteria relevant to the soil environment via Raman spectroscopy journal May 2015
In vivo time-lapse documentation using confocal and multi-photon microscopy reveals the mechanisms of invasion into the Arabidopsis root vascular system by Fusarium oxysporum journal October 2007
Autofluorescence detection of arbuscular mycorrhizal fungal structures in palm roots: an underestimated experimental method journal August 2006
Greatest soil microbial diversity found in micro-habitats journal March 2018
Sticky dead microbes: Rapid abiotic retention of microbial necromass in soil journal October 2020
Fourier transform Raman spectroscopic characterisation of cells of the plant-associated soil bacterium Azospirillum brasilense Sp7 journal May 2001
Raman spectroscopy and chemical imaging for quantification of filtered waterborne bacteria journal July 2006
Multifaceted beneficial effects of rhizosphere microorganisms on plant health and productivity journal July 2008
In vivo observations of the arbuscular mycorrhizal fungus Glomus mosseae in roots by confocal laser scanning microscopy journal March 1999
Direct Raman Spectroscopic Measurements of Biological Nitrogen Fixation under Natural Conditions: An Analytical Approach for Studying Nitrogenase Activity journal December 2016
Three dimensional imaging of plant roots in situ with X-ray Computed Tomography journal February 1997
Fiji: an open-source platform for biological-image analysis journal June 2012
Rapid resonance Raman microspectroscopy to probe carbon dioxide fixation by single cells in microbial communities journal November 2011
Microbial life on a sand grain: from bulk sediment to single grains journal December 2017
Nonlinear magic: multiphoton microscopy in the biosciences journal November 2003
Adaptive optics improves multiphoton super-resolution imaging journal June 2017
High-speed coherent Raman fingerprint imaging of biological tissues journal July 2014
Dual-color deep-tissue three-photon microscopy with a multiband infrared laser journal June 2018
Adaptive optics two-photon microscopy enables near-diffraction-limited and functional retinal imaging in vivo journal May 2020
Soil bacterial diversity mediated by microscale aqueous-phase processes across biomes journal January 2020
Organo–organic and organo–mineral interfaces in soil at the nanometer scale journal November 2020
Characterization of carotenoids in soil bacteria and investigation of their photodegradation by UVA radiation via resonance Raman spectroscopy journal January 2015
Deviations from Beer's law on the microscale – nonadditivity of absorption cross sections journal January 2019
Multiphoton microscopy in life sciences journal November 2000
Quantitative determination of the nonlinear bulk and surface response from alpha-quartz using phase sensitive SFG spectroscopy journal August 2019
In vivo multiphoton microscopy of NADH and FAD redox states, fluorescence lifetimes, and cellular morphology in precancerous epithelia journal November 2007
Fluorescence lifetime imaging of free and protein-bound NADH. journal February 1992
Comparison of coherent and spontaneous Raman microspectroscopies for noninvasive detection of single bacterial endospores journal May 2007
In vivo multiphoton microscopy of NADH and FAD redox states, fluorescence lifetimes, and cellular morphology in precancerous epithelia journal November 2007
Uniform polarity microtubule assemblies imaged in native brain tissue by second-harmonic generation microscopy journal May 2003
Live imaging of root–bacteria interactions in a microfluidics setup journal March 2017
In vivo diagnostics of early abiotic plant stress response via Raman spectroscopy journal March 2017
Imaging cells and extracellular matrix in vivo by using second-harmonic generation and two-photon excited fluorescence journal August 2002
Multiphoton fluorescence excitation: new spectral windows for biological nonlinear microscopy. journal October 1996
Nile red: a selective fluorescent stain for intracellular lipid droplets journal March 1985
Microbial interactions and biocontrol in the rhizosphere journal March 2001
Genome Sequence of the Plant Growth Promoting Fungus Serendipita vermifera subsp. bescii : The First Native Strain from North America journal January 2018
Nonlinear Dielectric Polarization in Optical Media journal June 1962
Three-Dimensional Vibrational Imaging by Coherent Anti-Stokes Raman Scattering journal May 1999
Translocation and Utilization of Fungal Storage Lipid in the Arbuscular Mycorrhizal Symbiosis journal January 2002
Quantitative 3D Analysis of Plant Roots Growing in Soil Using Magnetic Resonance Imaging journal January 2016
X-Ray Computed Tomography Reveals the Response of Root System Architecture to Soil Texture journal May 2016
Arbuscular mycorrhizal fungi stimulate organic phosphate mobilization associated with changing bacterial community structure under field conditions journal July 2018
Micro-scale determinants of bacterial diversity in soil journal November 2013
Fluorescence lifetime imaging - techniques and applications: FLUORESCENCE LIFETIME IMAGING journal May 2012
Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis: Quantifying the rhizosphere using image analysis journal November 2014
Forward-collected simultaneous fluorescence lifetime imaging and coherent anti-Stokes Raman scattering microscopy journal January 2011
Label-free imaging and quantitative chemical analysis of Alzheimer’s disease brain samples with multimodal multiphoton nonlinear optical microspectroscopy journal May 2015
Raman Spectroscopy of Microbial Pigments journal March 2014
Spatial and Resource Factors Influencing High Microbial Diversity in Soil journal January 2002
Mapping of Sugar and Amino Acid Availability in Soil around Roots with Bacterial Sensors of Sucrose and Tryptophan journal January 1999
Unraveling the complexity of deep gas accumulations with three-dimensional multimodal CARS microscopy journal December 2012
Non-invasive monitoring of pharmacodynamics during the skin wound healing process using multimodal optical microscopy journal April 2020
Imaging arbuscular mycorrhizal structures in living roots of Nicotiana tabacum by light, epifluorescence, and confocal laser scanning microscopy journal February 2001
Two-Photon Excitation Fluorescence Microscopy journal August 2000
Principles of Multiphoton Microscopy journal January 2006
Surface-Enhanced Raman Scattering (SERS) in Microbiology: Illumination and Enhancement of the Microbial World journal March 2018
Coherent anti-Stokes Raman scattering imaging of lipids in cancer metastasis journal January 2009
Recovering complete plant root system architectures from soil via X-ray μ-Computed Tomography journal January 2013
Non-invasive imaging of plant roots in different soils using magnetic resonance imaging (MRI) journal November 2017
Optical coherence tomography imaging of plant root growth in soil journal January 2020
Hyperspectral imaging with laser-scanning sum-frequency generation microscopy journal January 2017
A multimodal platform for nonlinear optical microscopy and microspectroscopy journal January 2009
Combined scanning optical coherence and two-photon-excited fluorescence microscopy journal January 1999
Fluorescence lifetime evaluation of whole soils from the Amazon rainforest journal January 2017
Simultaneous label-free autofluorescence and multi-harmonic imaging reveals in vivo structural and metabolic changes in murine skin journal January 2019
High-resolution adaptive optics scanning laser ophthalmoscope with dual deformable mirrors journal January 2007
Theoretical and experimental characterization of coherent anti-Stokes Raman scattering microscopy journal January 2002
Time-gated single photon counting enables separation of CARS microscopy data from multiphoton-excited tissue autofluorescence journal January 2007
Scanning coherent anti-Stokes Raman microscope journal January 1982
CARS Microscopy for Biology and Medicine journal January 2004
Transparent Soil for Imaging the Rhizosphere journal September 2012
Interpreting Second-Harmonic Generation Images of Collagen I Fibrils journal February 2005
Characterization of the Myosin-Based Source for Second-Harmonic Generation from Muscle Sarcomeres journal January 2006
Imaging with Raman Spectroscopy journal September 2010
Autofluorescence in Plants journal May 2020
Labeling proteins inside living cells using external fluorophores for microscopy journal December 2016
Transparent soil microcosms for live-cell imaging and non-destructive stable isotope probing of soil microorganisms journal November 2020