• 2026.6–present: Assistant Professor, School of Environment and Energy, Peking University

• 2022.7–2026.5: Postdoctoral Researcher, University of California, Berkeley

• 2017.9–2022.6: Ph.D., College of Environmental and Resource Sciences, Zhejiang University

• 2013.9–2017.6: B.S., College of Environmental and Resource Sciences, Zhejiang University

• Mining microbial dark matters: Integrating multi-omics data (metagenomics, metatranscriptomics, etc.) with artificial intelligence to discover novel microorganisms and extrachromosomal genetic elements, and to characterize their metabolic functions and ecological roles.

• Microbial mechanisms of element transformation: Focusing on the transformation of key elements such as carbon, nitrogen, and sulfur, resolving their core metabolic pathways, uncovering metabolic interactions among different microbial groups, and elucidating the community-level processing mechanisms.

• Environmental responses and climate feedback: Investigating how microorganisms evolve under environmental gradients and global change, and exploring the role of microorganisms in regulating elemental cycling along with their potential climate feedback mechanisms.

1. Shi, L. D., West-Roberts, J., Schoelmerich, M. C., Penev, P. I., Chen, L., Amano, Y., Lei, S., Sachdeva, R., Banfield, J. F.* Methanotrophic Methanoperedens archaea host diverse and interacting extrachromosomal elements. Nature Microbiology, 2024, 9, 2422-2433.

2. Shi, L. D., Guo, T., Lv, P. L., Niu, Z. F., Zhou, Y. J., Tang, X. J.,* Zheng, P., Zhu, L. Z., Zhu, Y. G., Kappler, A., Zhao, H. P.* Coupled anaerobic methane oxidation and reductive arsenic mobilization in wetland. Nature Geoscience, 2020, 13, 799-805.

3. Shi, L. D.#, Ercoli, M. F.#, Kim, J., de Araujo Junior, A. T., Estera-Molina, K., Soni, S., Weitz, T. S., Shigenaga, A. M., Dukovski, I., Sachdeva, R., Turumtay, H., Louie, K. B., Bowen, B. P., Kosina, S. M., Scheller, H. V., Pett-Ridge, J., Segrè, D., Northen, T. R., Ronald, P. C.*, Banfield, J. F.* Reduced methane emissions in transgenic rice genotypes are associated with altered rhizosphere microbial hydrogen cycling. Nature Communications, 2026, 17, 2028.

4. Shi, L. D., Lv, P. L., McIlroy, S., Wang, Z., Dong, X. L., Kouris, A., Lai, C. Y., Tyson, G., Strous, M., Zhao, H. P.* Methane-dependent selenate reduction by a bacterial consortium. The ISME Journal, 2021, 15, 3683-3692.

5. Shi, L. D.*, Penev, P. I., Nissley, A. J., Nayak, D. D., Sachdeva, R., Cate, J. H., Banfield, J. F.* Circularization of 23S rRNA but not 16S rRNA within archaeal ribosomes. Genome Biology, 2026, 27, 42.

For a full list of publications, see Google Scholar or ORCID.

We welcome applications for master's students, Ph.D. students, and postdoctoral researchers with backgrounds in environmental microbiology, bioinformatics, environmental engineering, or related fields.