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Microbial Taxon-Specific Isotope Incorporation with DNA Quantitative Stable Isotope Probing.
- Source :
-
Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2019; Vol. 2046, pp. 137-149. - Publication Year :
- 2019
-
Abstract
- Quantitative stable isotope probing (qSIP) measures rates of taxon-specific element assimilation in intact microbial communities, utilizing substrates labeled with a heavy isotope.The laboratory protocol for qSIP is nearly identical to that for conventional stable isotope probing, with two key additions: (1) in qSIP, qPCR measurements are conducted on each density fraction recovered after isopycnic separation, and (2) in qSIP, multiple density fractions are sequenced spanning the entire range of densities over which nucleic acids were recovered. qSIP goes beyond identifying taxa assimilating a substrate, as it also allows for measuring that assimilation for each taxon within a given microbial community. Here, we describe an analysis process necessary to determine atom fraction excess of a heavy stable isotope added to an environmental sample for a given taxon's DNA.
- Subjects :
- Carbon Isotopes analysis
Carbon Isotopes metabolism
Classification
DNA, Bacterial metabolism
Environmental Microbiology
Nitrogen Isotopes analysis
Nitrogen Isotopes metabolism
Oxygen Isotopes analysis
Oxygen Isotopes metabolism
DNA Probes metabolism
DNA, Bacterial genetics
Isotope Labeling methods
Microbiota genetics
Subjects
Details
- Language :
- English
- ISSN :
- 1940-6029
- Volume :
- 2046
- Database :
- MEDLINE
- Journal :
- Methods in molecular biology (Clifton, N.J.)
- Publication Type :
- Academic Journal
- Accession number :
- 31407302
- Full Text :
- https://doi.org/10.1007/978-1-4939-9721-3_11