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Related Concept Videos

Methods to Assess Microbial Communities01:19

Methods to Assess Microbial Communities

Microbial communities, comprising bacteria, archaea, and eukaryotic microorganisms, inhabit diverse ecosystems and play crucial roles in environmental and biological processes. Their diversity is defined by three main parameters: species richness (the number of distinct species), species abundance (the relative quantity of each species), and species evenness (how uniformly individual species are distributed in various locations). These factors together shape the structure and ecological balance...
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
Labeling DNA Probes03:31

Labeling DNA Probes

DNA probes are fragments of DNA labeled with a reporter tag to enable their detection or purification. The resulting labeled DNA probes can then hybridize to target nucleic acid sequences through complementary base-pairing, and may be used to recover or identify these regions.
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
Applications of Molecular Taxonomy01:20

Applications of Molecular Taxonomy

Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
Deep Sea Microbial Ecology01:18

Deep Sea Microbial Ecology

The deep ocean and its underlying sediments represent vast, largely unexplored microbial habitats that extend far beyond the sunlit photic zone. The photic (euphotic) zone typically spans the upper ~100–200 meters of pelagic waters in the open ocean, but its depth varies geographically and seasonally, where sufficient light supports photosynthetic life. Below this lies the deep sea, spanning roughly 1000–6000 meters (bathypelagic to abyssal zones), with deeper hadal trenches extending beyond...

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Related Experiment Video

Updated: Jul 4, 2026

DNA Stable-Isotope Probing (DNA-SIP)
14:57

DNA Stable-Isotope Probing (DNA-SIP)

Published on: August 2, 2010

DNA-based stable isotope probing: a link between community structure and function.

Ondrej Uhlík1, Katerina Jecná, Mary Beth Leigh

  • 1Institute of Chemical Technology Prague, Department of Biochemistry and Microbiology, Technicka 3, 166 28 Prague 6, Czech Republic.

The Science of the Total Environment
|June 25, 2008
PubMed
Summary

DNA-stable isotope probing (DNA-SIP) links microbial identity with function by tracking labeled substrates. This powerful microbial ecology technique requires careful execution to ensure accurate results.

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Identification of Metabolically Active Bacteria in the Gut of the Generalist Spodoptera littoralis via DNA Stable Isotope Probing Using 13C-Glucose
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Identification of Metabolically Active Bacteria in the Gut of the Generalist Spodoptera littoralis via DNA Stable Isotope Probing Using 13C-Glucose

Published on: November 13, 2013

Simultaneous DNA-RNA Extraction from Coastal Sediments and Quantification of 16S rRNA Genes and Transcripts by Real-time PCR
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Simultaneous DNA-RNA Extraction from Coastal Sediments and Quantification of 16S rRNA Genes and Transcripts by Real-time PCR

Published on: June 11, 2016

Related Experiment Videos

Last Updated: Jul 4, 2026

DNA Stable-Isotope Probing (DNA-SIP)
14:57

DNA Stable-Isotope Probing (DNA-SIP)

Published on: August 2, 2010

Identification of Metabolically Active Bacteria in the Gut of the Generalist Spodoptera littoralis via DNA Stable Isotope Probing Using 13C-Glucose
12:11

Identification of Metabolically Active Bacteria in the Gut of the Generalist Spodoptera littoralis via DNA Stable Isotope Probing Using 13C-Glucose

Published on: November 13, 2013

Simultaneous DNA-RNA Extraction from Coastal Sediments and Quantification of 16S rRNA Genes and Transcripts by Real-time PCR
11:37

Simultaneous DNA-RNA Extraction from Coastal Sediments and Quantification of 16S rRNA Genes and Transcripts by Real-time PCR

Published on: June 11, 2016

Area of Science:

  • Microbial Ecology
  • Molecular Biology
  • Environmental Science

Background:

  • DNA-based methods identify microbial diversity but not function.
  • Linking microbial identity to specific functions is crucial for understanding ecosystems.

Purpose of the Study:

  • Introduce DNA-based stable isotope probing (DNA-SIP) as a method to link microbial phylogeny and function.
  • Highlight its applications in studying microbial utilization of various compounds.

Main Methods:

  • DNA-SIP involves providing 13C-labeled substrates to microbial communities.
  • Isopycnic centrifugation separates 13C-DNA from active organisms from 12C-DNA of inactive ones.
  • Metagenomic analysis of isolated DNA reveals taxonomic and functional information.

Main Results:

  • DNA-SIP has successfully identified microbial communities utilizing diverse substrates, from simple compounds to xenobiotics.
  • It enables both taxonomic identification and functional gene analysis of active microbes.
  • The technique has become a leading method in microbial ecology research.

Conclusions:

  • DNA-SIP is a powerful tool for linking microbial identity with function.
  • Careful methodology is essential to avoid misinterpretation of results.
  • It advances our understanding of microbial roles in various environments.