Label-free Genomic Imaging
Label-free Genomic Imaging - Related Videos
02:48
Labeling of Replicating HSV-1 Genomes with a Nucleoside Analog
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2026
Source: Dembowski, J. A., Deluca, N. A. Purification of Viral DNA for the Identification of Associated Viral and Cellular Proteins. J. Vis. Exp. (2017)This video demonstrates the infection of stationary-phase mammalian cells with HSV-1 (Herpes Simplex Virus-1), followed by replication of the viral genome using host and viral replication machinery. A synthetic nucleoside analog is incorporated into newly synthesized viral DNA to label replicating genomes, which are subsequently isolated for...
09:19
Simultaneous Label-Free Autofluorescence Multi-Harmonic Microscopy
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Cited by 3 •
2025
This protocol presents a step-by-step guide for the Simultaneous Label-free Autofluorescence Multi-harmonic (SLAM) microscopic technique, including details on how to generate the laser light source, prepare a tissue sample, conduct imaging, and analyze the data. SLAM advances nonlinear microscopy by measuring four complementary label-free contrasts to investigate the tissue microenvironment.
08:31
Isolation and Genome Analysis of Single Virions using 'Single Virus Genomics'
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Cited by 2 •
2013
Single Virus Genomics (SVG) is a method to isolate and amplify the genomes of single virons. Viral suspensions of a mixed assemblage are sorted using flow cytometry onto a microscope slide with discrete wells containing agarose, thereby capturing the virion and reducing genome shearing during downstream processing. Whole genome amplification is achieved using multiple displacement amplification (MDA) resulting in genomic material that is suitable for sequencing.
09:17
Labeling and Imaging Cells in the Zebrafish Hindbrain
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Cited by 7 •
2010
Key to understanding the morphogenetic processes that shape the early embryo is the ability to image cells at high resolution. We describe here a technique for labeling single cells or small clusters of cells in whole zebrafish embryos with membrane-targeted Green Fluorescent Protein.
08:33
Labelling and Visualization of Mitochondrial Genome Expression Products in Baker's Yeast Saccharomyces cerevisiae
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2021
Baker’s yeast mitochondrial genome encodes eight polypeptides. The goal of the current protocol is to label all of them and subsequently visualize them as separate bands.
FAQs
The measurement step converts nucleic-acid-associated optical properties into image contrast. Light scattering, refractive-index variations, and vibrational responses provide different physical signals that image analysis can interpret spatially. Together, these signals allow researchers to examine genome architecture and chromatin organization while avoiding dependence on tag emission as the primary source of contrast.
Each signal reports a different aspect of the nucleic-acid environment. Scattering reflects how structures interact with light, refractive-index variation marks optical differences within the sample, and vibrational responses provide chemically related contrast. Combining these measurements can strengthen interpretation of genome organization and molecular dynamics rather than relying on a single optical feature.
Fluorescent or chemical labeling can require additional sample preparation and may alter the system being studied. By measuring intrinsic optical signatures, this approach reduces the need for those tags and associated preparation steps. That makes it useful when preserving native cellular organization or observing molecular behavior with minimal intervention is important.
Specialized microscopy captures weak or otherwise difficult-to-interpret optical signatures from nucleic acids and their surroundings. Image analysis then organizes those measurements into spatial or temporal information about genome architecture, chromatin organization, and molecular dynamics. The combination is important because the raw optical response alone does not directly describe higher-level genomic structure.
A study first prepares the biological sample with reduced reliance on fluorescent or chemical tags, then acquires optical measurements using an appropriate specialized microscope. Researchers subsequently analyze the resulting images to identify organization or dynamic behavior in nucleic-acid-containing regions. The workflow can be adapted to cellular, microfluidic, computational, or single-cell platforms.
The resulting measurements can provide evidence about genome architecture, chromatin organization, and molecular dynamics. These outcomes connect optical observations with changes in cellular structure or behavior, allowing investigators to examine how genomic organization relates to cell function. Interpretation depends on image analysis that translates measured optical signatures into biologically meaningful spatial patterns.
Applications described for this approach include studies of cell function, disease mechanisms, and therapeutic response. Its reduced labeling burden also supports minimally perturbative cellular assessment. Integration with microfluidic, computational, and single-cell platforms may extend measurements across engineered experimental systems and help connect genomic organization with cellular states or treatment-associated changes.