Tokyo Tech Scientists Discover Deep Microbes' Key Contribution to Earth's Carbon Cycle

New findings highlight the importance of Microorganisms in the geochemistry of natural gas and petroleum

Research

Published: April 9, 2019

Figure 1: Typical samples analyzed in the study. Left-hand side: Incubation of bacteria with propane. Right-hand side: Natural gas sample. Credit - N. Escanlar/ELSI
Figure 1. Typical samples analyzed in the study.
Left-hand side: Incubation of bacteria with propane.
Right-hand side: Natural gas sample.
Credit - N. Escanlar/ELSI

Hydrocarbons play key roles in atmospheric and biogeochemistry, the energy economy, and climate change. Most hydrocarbons form in anaerobic environments through high temperature or microbial decomposition of organic matter. Microorganisms can also "eat" hydrocarbons underground, preventing them from reaching the atmosphere. Using a new technique developed at the Earth-Life Science Institute (ELSI), an international team led by the Tokyo Institute of Technology professors Alexis Gilbert, Naohiro Yoshida and Yuichiro Ueno show that biological hydrocarbon degradation gives a unique biological signature. These findings could help detect subsurface biology and understand the carbon cycle and its impact on climate.

Humanity exploits Earth's vast reservoirs of hydrocarbons as one of its principle energy sources. The ways in which carbon is fixed and processed during the formation of these reservoirs have important consequences for resource exploration. In addition, the release of hydrocarbons from Earth's subsurface reservoirs can have important implications on Earth's climate, since light hydrocarbons such as methane are potent greenhouse gases. Scientists would like to understand the potentially important role Earth's enormous subsurface biosphere might play in deep hydrocarbon reservoir behaviour. To date, it has been difficult to estimate how much hydrocarbons have been affected by subsurface microorganisms.

Gilbert and coworkers overcame this difficulty by using a new method developed at ELSI that enables the measurement of position specific stable carbon isotope ratios. Hydrocarbons are mostly long chains of carbon atoms attached to hydrogen atoms, but carbon has two naturally abundant isotopes (types of carbon atom with different numbers of neutrons, and thus different masses, which can be measured), carbon-12 (¹²C) and carbon-13 (¹³C). Due to the ways organisms form the molecules that ultimately become environmental hydrocarbons, the ratio of ¹²C/¹³C for each specific carbon atom position in a hydrocarbon can be unique. The research here focused on propane, a natural gas hydrocarbon molecule containing three carbon atoms.

The researchers fed propane to microorganisms in the lab to measure the specific ¹²C/¹³C signature produced these organisms, and measured the non-biological changes that occurred when propane is broken down at high temperatures, a process known as "cracking." They then used these baseline measurements to interpret natural gas samples from the US, Canada and Australia, allowing them to detect the presence of microorganisms using propane as "food" in natural gas reservoirs, and to quantify the amount of hydrocarbons eaten by microorganisms. "When I started analyzing samples from the bacterial simulation experiments, they matched perfectly what we observed in the field, suggesting the presence of propane degrading bacteria in the natural gas reservoirs," Gilbert noted. Thus, this study revealed the presence of microorganisms that would have been difficult to detect using conventional methods, and opens a new window to understanding global hydrocarbon cycling.

"I was particularly interested in deciphering biological from non-biological processes related to organic molecules. This question has implication for the origin of life, for detection of life in the Universe, but also for our understanding of the biosphere and its evolution on Earth," says Gilbert. This study also has important implications with global climate change, as propane and other hydrocarbons are greenhouse gases and pollutants. Though the team did not attempt to quantify how much hydrocarbons are being "eaten" by microorganisms at the global scale, they believe their approach will allow such quantification in the near future, and suggest this will benefit models aiming to quantify global hydrocarbon cycling.

Finally, Gilbert adds, in the future this kind of approach may be useful for the detection of life on extraterrestrial bodies such as other planets or moons in our solar system. Though their current machine is too large to be sent to space, their techniques could be applied to samples brought back to Earth, or their instrument could be miniaturized.

Figure 2. Natural gas reservoirs examined in the study. Red symbols indicate reservoirs where biodegradation was detected. Credit: Alexis Gilbert, Tokyo Tech

Figure 2.: Natural gas reservoirs examined in the study. Red symbols indicate reservoirs where biodegradation was detected.
Credit: Alexis Gilbert, Tokyo Tech

Figure 3. Analysis of molecular isotope species of propane of natural gas samples. Arrows indicate data from simulation experiments: cultivation of propane-degrading bacteria (red) and "cracking" (light blue). Red symbols indicate samples that have been degraded by bacteria. Credit: Alexis Gilbert, Tokyo Tech

Figure 3.: Analysis of molecular isotope species of propane of natural gas samples. Arrows indicate data from simulation experiments: cultivation of propane-degrading bacteria (red) and "cracking" (light blue). Red symbols indicate samples that have been degraded by bacteria.
Credit: Alexis Gilbert, Tokyo Tech

Figure 4. Carbon Isotopic molecular species of propane and the different speed at which they are metabolized by bacteria. Credit: Yuichiro Ueno, ELSI

Figure 4.: Carbon Isotopic molecular species of propane and the different speed at which they are metabolized by bacteria.
Credit: Yuichiro Ueno, ELSI

Reference

Authors :	Alexis Gilbert^1,2, Barbara Sherwood Lollar³, Florin Musat⁴, Thomas Giunta³, Songcan Chen⁴, Yuki Kajimoto⁵, Keita Yamada⁴, Christopher J. Boreham⁶, Naohiro Yoshida^1,5, and Yuichiro Ueno^1,2
Title of original paper :	Intramolecular Isotopic Evidence for Bacterial Oxidation of Propane in Subsurface Natural Gas Reservoirs
Journal :	Proceedings of the National Academy of Sciences
DOI :	10.1073/pnas.1817784116
Affiliations :	¹Department of Earth and Planetary Sciences, Tokyo Institute of Technology, Meguro, 152-8551 Tokyo, Japan. ²Earth-Life Science Institute, Tokyo Institute of Technology, Meguro, 152-8550 Tokyo, Japan. ³Department of Earth Sciences, University of Toronto, Toronto, ON, Canada M5S 3B1. ⁴Helmholtz Centre for Environmental Research – UFZ, 04318 Leipzig, Germany. ⁵Department of Environmental Chemistry and Engineering, Tokyo Institute of Technology, Yokohama, 226-8503 Kanagawa, Japan. ⁶Geoscience Australia, Canberra, ACT 2601, Australia.

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Further Information

Assistant Professor Alexis Gilbert

Earth and Planetary Science Department

Tokyo Institute of Technology

Affiliated Scientist

Earth-Life Science Institute (ELSI)

Tokyo Institute of Technology

Email gilbert.a.aa@m.titech.ac.jp
Tel +81-3-5734-2617 / Fax +81-3-5734-3537

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