In Situ Culturing
In Situ Culturing - Related Videos
11:07
In Situ Isolation and Culturing of Recalcitrant Soil Bacteria using an Isolation Chip (iChip)
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2025
This protocol describes the design and use of an isolation chip (iChip) for in situ cultivation of recalcitrant soil microbes in their natural environment. It also describes the in situ cultivation of antimicrobial-producing soil bacteria. The protocol can be adapted to recover bacteria from diverse niches with other desirable properties.
08:00
Whole-Mount In Situ Hybridization
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2023
Whole-mount in situ hybridization (WMISH) is a common technique used for visualizing the location of expressed RNAs in embryos. In this process, synthetically produced RNA probes are first complementarily bound, or "hybridized," to the transcripts of target genes. Immunohistochemistry or fluorescence is then used to detect these RNA hybrids, revealing spatial and temporal patterns of gene expression. Unlike traditional in situ hybridization techniques, which require thin tissue sections whose...
08:45
Method for Culture of Early Chick Embryos ex vivo (New Culture)
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Cited by 9 •
2008
This video demonstrates New culture, a method by which chick embryos are cultured outside the egg for up to 24 hr. This method enables one to study early development (primitive streak to 14 som.), a period corresponding to E7-9 in mouse. Applications of this technique include electroporation, in situ hybridization and immunohistochemistry.
08:55
Methods of Ex Situ and In Situ Investigations of Structural Transformations: The Case of Crystallization of Metallic Glasses
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2018
Here, we present a protocol to describe ex situ and in situ investigations of structural transformations in metallic glasses. We employed nuclear-based analytical methods which inspect hyperfine interactions. We demonstrate the applicability of Mössbauer spectrometry and nuclear forward scattering of synchrotron radiation during temperature-driven experiments.
11:26
In Situ Ca2+ Imaging of the Enteric Nervous System
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Cited by 24 •
2015
The enteric nervous system (ENS) is a network of neurons and glia located in the gut wall that controls intestinal reflexes. This protocol describes methods for recording the activity of enteric neurons and glia in live preparations of ENS using Ca2+ imaging.
FAQs
Permeable chambers retain cells or environmental samples while allowing nutrients, chemical signals, and other dissolved factors to pass between the habitat and the enclosed material. This exchange exposes organisms to conditions supplied by their native environment rather than relying entirely on laboratory media. As a result, growth may reflect environmental influences that are difficult to reproduce under standard culture conditions.
Many microorganisms may depend on environmental nutrients, signals, or other dissolved factors that standard laboratory media do not reproduce. By preserving access to these habitat-derived influences, the method can create conditions more compatible with organisms that fail to grow in conventional culture. Recovery from the device therefore expands opportunities to study microbial diversity beyond organisms readily maintained in the laboratory.
Chemical signals diffusing from the surrounding habitat can influence organisms enclosed in the culturing device. Their presence helps maintain contact with environmental cues and may reveal how microbes respond to, or depend on, conditions outside the laboratory. This makes the approach useful for examining microbial physiology and interactions with the environment rather than measuring growth in isolation from its natural chemical context.
A sample or selected cells are enclosed in a chamber or device that retains the organisms while remaining permeable to dissolved environmental factors. The enclosure is then used directly within the organisms’ natural habitat, where nutrients and chemical signals can diffuse into the system. Researchers can subsequently examine the organisms supported under those conditions for physiological, ecological, or diversity-focused studies.
Recovered organisms can provide information about microbial physiology, diversity, and ecology under conditions connected to their native habitat. The method can also reveal relationships between microbes and environmental factors that are less apparent in isolated laboratory systems. These outcomes help connect the ability to grow an organism with broader questions about its environmental context and biological behavior.
The approach is especially valuable when researchers need to investigate microorganisms that are difficult to recover using standard laboratory conditions or when environmental context is central to the question. It supports studies of microbial communities and their habitats, while also providing a foundation for identifying organisms with potential value in biotechnology and environmental research.