Stable isotope probing with 18O-water to investigate microbial growth and death in environmental samples

Egbert Schwartz; Michaela Hayer; Bruce A. Hungate; Benjamin J. Koch; Theresa A. McHugh; William Mercurio; Ember M. Morrissey; Katerina Soldanova

doi:10.1016/j.copbio.2016.03.003

Stable isotope probing with ¹⁸O-water to investigate microbial growth and death in environmental samples

Egbert Schwartz, Michaela Hayer, Bruce A. Hungate, Benjamin J. Koch, Theresa A. McHugh, William Mercurio, Ember M. Morrissey, Katerina Soldanova

Biological Sciences

Research output: Contribution to journal › Review article › peer-review

29 Scopus citations

Abstract

Growth and mortality of microorganisms have been characterized through DNA stable isotope probing (SIP) with ¹⁸O-water in soils from a range of ecosystems. Conventional SIP has been improved by sequencing a marker gene in all fractions retrieved from an ultracentrifuge tube to produce taxon density curves, which allow estimating the atom percent isotope composition of each microbial taxon's genome. Very recent advances in SIP with ¹⁸O-water include expansion of the technique to aquatic samples, investigations of microbial turnover in soil, and the first use of ¹⁸O-water in RNA-SIP studies.

Original language	English (US)
Pages (from-to)	14-18
Number of pages	5
Journal	Current Opinion in Biotechnology
Volume	41
DOIs	https://doi.org/10.1016/j.copbio.2016.03.003
State	Published - Oct 1 2016

ASJC Scopus subject areas

Biotechnology
Bioengineering
Biomedical Engineering

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title = "Stable isotope probing with 18O-water to investigate microbial growth and death in environmental samples",

abstract = "Growth and mortality of microorganisms have been characterized through DNA stable isotope probing (SIP) with 18O-water in soils from a range of ecosystems. Conventional SIP has been improved by sequencing a marker gene in all fractions retrieved from an ultracentrifuge tube to produce taxon density curves, which allow estimating the atom percent isotope composition of each microbial taxon's genome. Very recent advances in SIP with 18O-water include expansion of the technique to aquatic samples, investigations of microbial turnover in soil, and the first use of 18O-water in RNA-SIP studies.",

author = "Egbert Schwartz and Michaela Hayer and Hungate, {Bruce A.} and Koch, {Benjamin J.} and McHugh, {Theresa A.} and William Mercurio and Morrissey, {Ember M.} and Katerina Soldanova",

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AU - Schwartz, Egbert

AU - Hayer, Michaela

AU - Hungate, Bruce A.

AU - Koch, Benjamin J.

AU - McHugh, Theresa A.

AU - Mercurio, William

AU - Morrissey, Ember M.

AU - Soldanova, Katerina

PY - 2016/10/1

Y1 - 2016/10/1

N2 - Growth and mortality of microorganisms have been characterized through DNA stable isotope probing (SIP) with 18O-water in soils from a range of ecosystems. Conventional SIP has been improved by sequencing a marker gene in all fractions retrieved from an ultracentrifuge tube to produce taxon density curves, which allow estimating the atom percent isotope composition of each microbial taxon's genome. Very recent advances in SIP with 18O-water include expansion of the technique to aquatic samples, investigations of microbial turnover in soil, and the first use of 18O-water in RNA-SIP studies.

AB - Growth and mortality of microorganisms have been characterized through DNA stable isotope probing (SIP) with 18O-water in soils from a range of ecosystems. Conventional SIP has been improved by sequencing a marker gene in all fractions retrieved from an ultracentrifuge tube to produce taxon density curves, which allow estimating the atom percent isotope composition of each microbial taxon's genome. Very recent advances in SIP with 18O-water include expansion of the technique to aquatic samples, investigations of microbial turnover in soil, and the first use of 18O-water in RNA-SIP studies.

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M3 - Review article

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EP - 18

JO - Current Opinion in Biotechnology

JF - Current Opinion in Biotechnology

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Stable isotope probing with ¹⁸O-water to investigate microbial growth and death in environmental samples

Abstract

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