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A liquid chromatography - mass spectrometry method to measure (13)C-isotope enrichment for DNA stable-isotope probing

Auclair, Julie; Lépine, François et Villemur, Richard ORCID logoORCID: https://orcid.org/0000-0001-9768-8937 (2012). A liquid chromatography - mass spectrometry method to measure (13)C-isotope enrichment for DNA stable-isotope probing Canadian Journal of Microbiology , vol. 58 , nº 3. pp. 287-92. DOI: 10.1139/w11-133.

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DNA stable-isotope probing (DNA-SIP) is a cultivation-independent technique that makes it possible to associate metabolic function and taxonomic identity in a wide range of terrestrial and aquatic environments. In DNA-SIP, DNA is labeled via the assimilation of a labeled growth substrate that is subsequently used to identify microorganisms involved in assimilation of the substrate. However, the labeling time has to be sufficient to obtain labeled DNA but not so long such that cross-feeding of (13)C-labeled metabolites from the primary consumers to nontarget species can occur. Confirmation that the DNA is isotopically labeled in DNA-SIP assays can be achieved using an isotope ratio mass spectrometer. In this study, we describe the development of a method using liquid chromatography (HPLC) coupled to a quadrupole mass spectrometer (QMS) to measure the (13)C enrichment of thymine incorporated into DNA in Escherichia coli cultures fed with [(13)C]acetate. The method involved the hydrolysis of DNA extracted from the cultures that released the nucleotides, followed by the separation of the thymine by HPLC on a reverse-phase C(8) column in isocratic elution mode and the detection and quantification of (13)C-labeled thymine by QMS. To mimic a DNA-SIP assay, a DNA mixture was made using (13)C-labeled E. coli DNA with DNA extracted from five bacterial species. The HPLC-MS method was able to measure the correct proportion of (13)C-DNA in the mix. This method can then be used as an alternative to the use of isotope ratio mass spectrometry in DNA-SIP assays.[on SciFinder (R)]

Type de document: Article
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Centre: Centre INRS-Institut Armand Frappier
Date de dépôt: 04 mars 2024 16:24
Dernière modification: 04 mars 2024 16:24
URI: https://espace.inrs.ca/id/eprint/13977

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