矿物-微生物相互作用研究的新利器：三维原子探针（APT）

方谦; 杨僚; 仇鑫程; 杨浩; 洪汉烈; 陈中强

doi:10.3799/dqkx.2025.016

Volume 50 Issue 3

Mar. 2025

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Article Navigation > Earth Science > 2025 > 50(3): 1201-1219

Fang Qian, Yang Liao, Qiu Xincheng, Yang Hao, Hong Hanlie, Chen Zhong-Qiang, 2025. A New Tool for Unraveling Mineral-Microbe Interactions: Atom Probe Tomography (APT). Earth Science, 50(3): 1201-1219. doi: 10.3799/dqkx.2025.016

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Fang Qian, Yang Liao, Qiu Xincheng, Yang Hao, Hong Hanlie, Chen Zhong-Qiang, 2025. A New Tool for Unraveling Mineral-Microbe Interactions: Atom Probe Tomography (APT). Earth Science, 50(3): 1201-1219. doi: 10.3799/dqkx.2025.016

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A New Tool for Unraveling Mineral-Microbe Interactions: Atom Probe Tomography (APT)

doi: 10.3799/dqkx.2025.016

State Key Laboratory of Geomicrobiology and Environmental Changes, China University of Geosciences (Wuhan), Wuhan 430078, China

Received Date: 2024-12-03
Publish Date: 2025-03-25

Abstract

Abstract

Mineral-microbe interaction (MMI) is one of the most dynamic geological processes driving the evolution of Earth's system, profoundly influencing Earth life's evolutionary processes. MMIs are also a key research focus in mineralogy and geomicrobiology. To fully understand the interactions between microbes and minerals, one of the critical areas is to decode how microorganisms affect the structural and compositional changes on mineral surfaces at an ultra-microscopic scale. Although significant progress has been made in the MMI studies in recent years, major challenges still remain due to the microscopic processes occurring at nanoscale and even sub-nanoscale levels. Simultaneous characterization of mineral structures, chemical compositions, and microbial remnants at these scales remains difficult, leaving many fundamental mechanistic questions unresolved. The emerging three-dimensional atom probe technology (APT) overcomes these limitations. APT enables near-atomic scale imaging and quantitative analysis of nearly all elements/isotopes simultaneously, with a detection limit as low as 10⁻⁶. This provides near-atomic scale, high-sensitivity analysis for research into mineral-microbe interactions. Originally developed and widely applied in materials science, APT has attracted increasing attention in the field of Earth sciences in recent years. This paper provides an overview of the principles, development, and sample preparation involved in APT, introduces the concept of biomineralization and related studies, and focuses on the key applications of APT technology in fields such as microbial mineralization, identifying geological microbial remnants, and biomaterials related to mineral-microbe interactions. Finally, we objectively summarize the current limitations and challenges of APT technology in the study of mineral-microbe interactions and explore the future development directions of this advanced in-situ micro-area technique in the field of mineral-microbe research.
- biomineralization,
- geomicrobiology,
- biominerals,
- biomaterials,
- cross-sphere research,
- nanoscience,
- mineralogy

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