2023 Stephenson Research and Technology Center
101 David L Boren Blvd
Norman, OK 73019
B.Sc., Hunan Agricultural University, Changsha, China, 1981
M.Sc., Hunan Agricultural University, Changsha, China, 1984
Ph.D., Washington State University, Pullman, WA, 1993
Postdoc, Michigan State University, East Lansing, MI, 1993-1995
Postdoc, Oak Ridge National Laboratory, Oak Ridge, TN, 1996-1997
Microbiology, Molecular and Cellular Biology, Environmental Science, Ecology, Anaerobic Microbiology, Bioinformatics, Metagenomics
The long-term research interests in my lab are centered on environmental microbiology across different organizational levels ranging from genomes to ecosystems, which can be further divided into the following areas: (1) Functional genomics: Linking genes to functions through understanding gene functions and regulatory networks by focusing on several important groups of microorganisms; (2) Genomics technologies: Developing integrated high throughput experimental and bioinformatic technologies such as GeoChip for microbial community analysis; (3) Ecological genomics: Linking community structure to ecosystem functioning through applications of high throughput integrated cutting-edge genomic technologies to address frontier research questions related to bioenergy, global changes, carbon sequestration, environmental remediation, industrial and agricultural practices, ecological theories, and public health; (4) Metagenomics and microbial ecology: Using high throughput genome sequencing and associated genomics technologies to examine microbial community diversity at various habitats, microbial biogeography and mechanisms shaping microbial diversity patterns, distribution and dynamics; (5) Evolutionary genomics: Linking genotypes to phenotypes through long-term laboratory experimental evolution, and comparative sequence analysis; (6) Bioinformatics and systems biology: Developing novel ecological network and mathematical modeling approaches to address questions related to systems biology and ecosystem sciences important to environments, energy as well as human health. My lab has performed multi-disciplinary studies using integrative experimental and computational approaches by taking the advantages of the lab’s broad background in microbial genomics, molecular biology, molecular evolution, microbiology, ecology, mathematics, and bioinformatics.
Yuan M, J Zhang, K Xue, L Wu, Y Deng, J Deng, L Hale, X Zhou, Z He, Y Yang, JD Van Nostrand, EAG Schuur, KT Kostantinidis, CR Penton, JR Cole, JM Tiedje, Y Luo, and J Zhou. 2017. Microbial functional diversity covaries with permafrost thaw-induced environmental heterogeneity in tundra soil. Glob Change Bio. DOI: 10.1111/gcb.13820.
Wen C, L Wu, Y Qin, JD Van Nostrand, S Bo, K Xue, Y Deng, F Liu, and J Zhou. 2017. Evaluation of the Reproducibility of Amplicon Sequencing with Illumina MiSeq Platform. PLoS One, 12(4):e0176716. doi: 10.1371/journal.pone.0176716.
Wu L, Y Yang , S Wang, H Yue, Q Lin, Y Hu, Z He, JD Van Nostrand, L Hale, X Li, JA Gilbert, and J Zhou. 2017. Alpine soil carbon is vulnerable to rapid microbial decomposition under climate cooling. ISME J. 11:2102-2111.
Hemme, CL, SJ Green, L Rishishwar, O Prakash, A Pettenato, R Chakraborty, AM Deutchbauer, JD Van Nostrand, L Wu, Z He, IK Jordan, TC Hazen, AP Arkin, JE Kostka, and J-Z Zhou. 2016. Lateral Gene Transfer in a Heavy Metal-Contaminated Groundwater Microbial Community (pdf). mBio, 7:e02234-15
Xue K, M Yuan , Z Shi, Y Qin, Y Deng, L Cheng, L Wu, Z He, J Van Nostrand, R Bracho, S Natali, E Schuur, C Luo, K Konstantinidis, Q Wang, J Cole, J Tiedje, Y Luo, and J-Z Zhou. 2016. Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming. Nat Clim Change. 6:595-600.
Zhou, JZ, Y Deng, L Shen, C Wen , Q Yan, D Ning, Y Qin, K Xue, L Wu, Z He, JW Voordeckers, JD Van Nostrand, V Buzzard, ST Michaletz, BJ Enquist, MD Weiser, M Kaspari, R Waide, Y Yang, JH Brown. 2016. Temperature mediates continental-scale diversity of microbes in forest soils. Nat Comm. 7:12083. doi:10.1038/ncomms12083.
Wu L, C Wen, Y Qin, H Yin, Q Tu, JD Van Nostrand, T Yuan, M Yuan, Y Deng, and J-Z Zhou. 2015. Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis. BMC Microbiol. 15:125. DOI 10.1186/s12866-015-0450-4
Xu, T., Y. Li, Z. Shi, C.L. Hemme, Y. Li, Y. Zhu, J.D. Van Nostrand, Z. He, and J.-Z. Zhou. 2015. Efficient Genome Editing in Clostridium cellulolyticum via CRISPR-Cas9 Nickase. Appl. Environ. Microbiol. 81:4423–4431.
Zhou, J., Z. He, Y. Yang, Y. Deng, S.G. Tringe and L. Alvarez-Cohen. 2015. High-throughput metagenomic technologies for complex microbial community analysis: Open and closed formats. mBio, 6:1e02288-14
Zhou, J.-Z., Y. Deng, P. Zhang, K. Xue, Y. Liang, J. D. Van Nostrand, Y. Yang, Z. He, L. Wu, D. A. Stahl, T. C. Hazen, J. M Tiedje, and A. P. Arkin. 2014. Stochasticity, Succession and Environmental Perturbations in a Fluidic Ecosystem. Proc. Nat. Acad. Sci. USA, 111: E836-E845 , doi:10.1073/pnas.1324044111
Zhou J, He Q, Hemme CL, Mukhopadhyay A, Hillesland K., Zhou A, He Z, Van Nostrand JD, Hazen TC, Stahl DA, Wall JD, and Arkin AP. 2011. How sulphate-reducing microorganisms cope with stress: lessons from systems biology. Nature Reviews in Microbiology 9: 452-466.