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Jizhong Zhou, Ph.D. - Publications

Affiliations: 
2005- Department of Microbiology and Plant Biology University of Oklahoma, Norman, OK, United States 
Area:
Environmental genomics, Microbial ecology
Website:
https://www.ou.edu/ieg
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Year Citation  Score
2024 Qiao M, Sun R, Wang Z, Dumack K, Xie X, Dai C, Wang E, Zhou J, Sun B, Peng X, Bonkowski M, Chen Y. Legume rhizodeposition promotes nitrogen fixation by soil microbiota under crop diversification. Nature Communications. 15: 2924. PMID 38575565 DOI: 10.1038/s41467-024-47159-x  0.302
2024 Michael JP, Putt AD, Yang Y, Adams BG, McBride KR, Fan Y, Lowe KA, Ning D, Jagadamma S, Moon JW, Klingeman DM, Zhang P, Fu Y, Hazen TC, Zhou J. Reproducible responses of geochemical and microbial successional patterns in the subsurface to carbon source amendment. Water Research. 255: 121460. PMID 38552495 DOI: 10.1016/j.watres.2024.121460  0.304
2024 Zhang Z, Zhang L, Zhang L, Chu H, Zhou J, Ju F. Diversity and distribution of biosynthetic gene clusters in agricultural soil microbiomes. Msystems. e0126323. PMID 38470142 DOI: 10.1128/msystems.01263-23  0.412
2024 Zhang Y, Deng Y, Wang C, Li S, Lau FTK, Zhou J, Zhang T. Effects of operational parameters on bacterial communities in Hong Kong and global wastewater treatment plants. Msystems. e0133323. PMID 38411061 DOI: 10.1128/msystems.01333-23  0.318
2024 Zhu L, Luan L, Chen Y, Wang X, Zhou S, Zou W, Han X, Duan Y, Zhu B, Li Y, Liu W, Zhou J, Zhang J, Jiang Y, Sun B. Community assembly of organisms regulates soil microbial functional potential through dual mechanisms. Global Change Biology. 30: e17160. PMID 38379454 DOI: 10.1111/gcb.17160  0.417
2024 Zheng Y, Wang B, Gao P, Yang Y, Xu B, Su X, Ning D, Tao Q, Li Q, Zhao F, Wang D, Zhang Y, Li M, Winkler MH, Ingalls AE, ... Zhou J, et al. Novel order-level lineage of ammonia-oxidizing archaea widespread in marine and terrestrial environments. The Isme Journal. 18. PMID 38365232 DOI: 10.1093/ismejo/wrad002  0.33
2024 Tao X, Yang Z, Feng J, Jian S, Yang Y, Bates CT, Wang G, Guo X, Ning D, Kempher ML, Liu XJA, Ouyang Y, Han S, Wu L, Zeng Y, ... ... Zhou J, et al. Experimental warming accelerates positive soil priming in a temperate grassland ecosystem. Nature Communications. 15: 1178. PMID 38331994 DOI: 10.1038/s41467-024-45277-0  0.673
2024 Tian J, Dungait JAJ, Hou R, Deng Y, Hartley IP, Yang Y, Kuzyakov Y, Zhang F, Cotrufo MF, Zhou J. Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. Nature Communications. 15: 377. PMID 38191568 DOI: 10.1038/s41467-023-44647-4  0.357
2023 Ma Z, Jiao S, Zheng K, Ni H, Li D, Zhang N, Yang Y, Zhou J, Sun B, Liang Y. Multiple spatial scales of bacterial and fungal structural and functional traits affect carbon mineralization. Molecular Ecology. PMID 38063481 DOI: 10.1111/mec.17235  0.383
2023 Peng Q, Lin L, Tu Q, Wang X, Zhou Y, Chen J, Jiao N, Zhou J. Unraveling the roles of coastal bacterial consortia in degradation of various lignocellulosic substrates. Msystems. e0128322. PMID 37417747 DOI: 10.1128/msystems.01283-22  0.348
2023 Wang M, Sun X, Cao B, Chiariello NR, Docherty KM, Field CB, Gao Q, Gutknecht JLM, Guo X, He G, Hungate BA, Lei J, Niboyet A, Le Roux X, Shi Z, ... ... Zhou J, et al. Long-term elevated precipitation induces grassland soil carbon loss via microbe-plant-soil interplay. Global Change Biology. PMID 37317051 DOI: 10.1111/gcb.16811  0.622
2023 Jiang M, Delgado-Baquerizo M, Yuan MM, Ding J, Yergeau E, Zhou J, Crowther TW, Liang Y. Home-based microbial solution to boost crop growth in low-fertility soil. The New Phytologist. PMID 37149890 DOI: 10.1111/nph.18943  0.375
2023 Liang QY, Zhang JY, Ning D, Yu WX, Chen GJ, Tao X, Zhou J, Du ZJ, Mu DS. Niche Modification by Sulfate-Reducing Bacteria Drives Microbial Community Assembly in Anoxic Marine Sediments. Mbio. e0353522. PMID 36988509 DOI: 10.1128/mbio.03535-22  0.309
2023 Shi K, Cheng H, Cornell CR, Wu H, Gao S, Jiang J, Liu T, Wang A, Zhou J, Liang B. Micro-aeration assisted with electrogenic respiration enhanced the microbial catabolism and ammonification of aromatic amines in industrial wastewater. Journal of Hazardous Materials. 448: 130943. PMID 36860074 DOI: 10.1016/j.jhazmat.2023.130943  0.336
2023 Ji M, Fan X, Cornell CR, Zhang Y, Yuan MM, Tian Z, Sun K, Gao R, Liu Y, Zhou J. Tundra Soil Viruses Mediate Responses of Microbial Communities to Climate Warming. Mbio. e0300922. PMID 36786571 DOI: 10.1128/mbio.03009-22  0.399
2022 He H, Carlson AL, Nielsen PH, Zhou J, Daigger GT. Comparative analysis of floc characteristics and microbial communities in anoxic and aerobic suspended growth processes. Water Environment Research : a Research Publication of the Water Environment Federation. 94: e10822. PMID 36544219 DOI: 10.1002/wer.10822  0.309
2022 Liao H, Hao X, Qin F, Delgado-Baquerizo M, Liu Y, Zhou J, Cai P, Chen W, Huang Q. Microbial autotrophy explains large-scale soil CO fixation. Global Change Biology. PMID 36226978 DOI: 10.1111/gcb.16452  0.353
2022 Qi Q, Zhao J, Tian R, Zeng Y, Xie C, Gao Q, Dai T, Wang H, He JS, Konstantinidis KT, Yang Y, Zhou J, Guo X. Microbially enhanced methane uptake under warming enlarges ecosystem carbon sink in a Tibetan alpine grassland. Global Change Biology. PMID 36191158 DOI: 10.1111/gcb.16444  0.611
2022 Ma X, Wang T, Shi Z, Chiariello NR, Docherty K, Field CB, Gutknecht J, Gao Q, Gu Y, Guo X, Hungate BA, Lei J, Niboyet A, Le Roux X, Yuan M, ... ... Zhou J, et al. Correction: Long-term nitrogen deposition enhances microbial capacities in soil carbon stabilization but reduces network complexity. Microbiome. 10: 144. PMID 36056428 DOI: 10.1186/s40168-022-01349-1  0.533
2022 Xie C, Ma X, Zhao Y, Dai T, Song W, Qi Q, Feng J, Cui X, Zhou J, Huang X, Qi F, Zeng Y, Zhou J, Lin G, Yang Y. Nitrogen addition and warming rapidly alter microbial community compositions in the mangrove sediment. The Science of the Total Environment. 157992. PMID 35970461 DOI: 10.1016/j.scitotenv.2022.157992  0.33
2022 Ma X, Wang T, Shi Z, Chiariello NR, Docherty K, Field CB, Gutknecht J, Gao Q, Gu Y, Guo X, Hungate BA, Lei J, Niboyet A, Le Roux X, Yuan M, ... ... Zhou J, et al. Long-term nitrogen deposition enhances microbial capacities in soil carbon stabilization but reduces network complexity. Microbiome. 10: 112. PMID 35902889 DOI: 10.1186/s40168-022-01309-9  0.6
2022 Wu L, Zhang Y, Guo X, Ning D, Zhou X, Feng J, Yuan MM, Liu S, Guo J, Gao Z, Ma J, Kuang J, Jian S, Han S, Yang Z, ... ... Zhou J, et al. Reduction of microbial diversity in grassland soil is driven by long-term climate warming. Nature Microbiology. PMID 35697795 DOI: 10.1038/s41564-022-01147-3  0.559
2022 Tiedje JM, Bruns MA, Casadevall A, Criddle CS, Eloe-Fadrosh E, Karl DM, Nguyen NK, Zhou J. Microbes and Climate Change: a Research Prospectus for the Future. Mbio. e0080022. PMID 35438534 DOI: 10.1128/mbio.00800-22  0.418
2022 Cornell CR, Zhang Y, Ning D, Wu L, Wagle P, Steiner JL, Xiao X, Zhou J. Temporal Dynamics of Bacterial Communities along a Gradient of Disturbance in a U.S. Southern Plains Agroecosystem. Mbio. e0382921. PMID 35420482 DOI: 10.1128/mbio.03829-21  0.413
2022 Song W, Liu J, Qin W, Huang J, Yu X, Xu M, Stahl D, Jiao N, Zhou J, Tu Q. Functional Traits Resolve Mechanisms Governing the Assembly and Distribution of Nitrogen-Cycling Microbial Communities in the Global Ocean. Mbio. e0383221. PMID 35285696 DOI: 10.1128/mbio.03832-21  0.312
2022 Liu W, Xue K, Hu R, Zhou J, Van Nostrand JD, Dimitrou J, Giagnoni L, Renella G. Long-Term Effects of Soil Remediation with Willow Short Rotation Coppice on Biogeographic Pattern of Microbial Functional Genes. Microorganisms. 10. PMID 35056589 DOI: 10.3390/microorganisms10010140  0.409
2022 Xiao N, Zhou A, Kempher ML, Zhou BY, Shi ZJ, Yuan M, Guo X, Wu L, Ning D, Van Nostrand J, Firestone MK, Zhou J. Disentangling direct from indirect relationships in association networks. Proceedings of the National Academy of Sciences of the United States of America. 119. PMID 34992138 DOI: 10.1073/pnas.2109995119  0.462
2021 Wang S, Bao X, Feng K, Deng Y, Zhou W, Shao P, Zheng T, Yao F, Yang S, Liu S, Shi R, Bai Z, Xie H, Yu J, Zhang Y, ... ... Zhou J, et al. Warming-driven migration of core microbiota indicates soil property changes at continental scale. Science Bulletin. 66: 2025-2035. PMID 36654172 DOI: 10.1016/j.scib.2021.01.021  0.319
2021 Deng J, Frolking S, Bajgain R, Cornell CR, Wagle P, Xiao X, Zhou J, Basara J, Steiner J, Li C. Improving a Biogeochemical Model to Simulate Microbial-Mediated Carbon Dynamics in Agricultural Ecosystems. Journal of Advances in Modeling Earth Systems. 13: e2021MS002752. PMID 35865275 DOI: 10.1029/2021MS002752  0.34
2021 Wang G, Gao Q, Yang Y, Hobbie SE, Reich PB, Zhou J. Soil enzymes as indicators of soil function: a step toward greater realism in microbial ecological modeling. Global Change Biology. PMID 34905647 DOI: 10.1111/gcb.16036  0.356
2021 Wu L, Yang F, Feng J, Tao X, Qi Q, Wang C, Schuur EAG, Bracho R, Huang Y, Cole JR, Tiedje JM, Zhou J. Permafrost thaw with warming reduces microbial metabolic capacities in subsurface soils. Molecular Ecology. PMID 34878672 DOI: 10.1111/mec.16319  0.58
2021 Wang A, Shi K, Ning D, Cheng H, Wang H, Liu W, Gao S, Li Z, Han J, Liang B, Zhou J. Electrical selection for planktonic sludge microbial community function and assembly. Water Research. 206: 117744. PMID 34653795 DOI: 10.1016/j.watres.2021.117744  0.333
2021 Escalas A, Paula FS, Guilhaumon F, Yuan M, Yang Y, Wu L, Liu F, Feng J, Zhang Y, Zhou J. Macroecological distributions of gene variants highlight the functional organization of soil microbial systems. The Isme Journal. PMID 34580430 DOI: 10.1038/s41396-021-01120-8  0.365
2021 Bates CT, Escalas A, Kuang J, Hale L, Wang Y, Herman D, Nuccio EE, Wan X, Bhattacharyya A, Fu Y, Tian R, Wang G, Ning D, Yang Y, Wu L, ... ... Zhou J, et al. Conversion of marginal land into switchgrass conditionally accrues soil carbon but reduces methane consumption. The Isme Journal. PMID 34211103 DOI: 10.1038/s41396-021-00916-y  0.582
2021 Zhang C, Xiao X, Zhao Y, Zhou J, Sun B, Liang Y. Patterns of microbial arsenic detoxification genes in low-arsenic continental paddy soils. Environmental Research. 111584. PMID 34186083 DOI: 10.1016/j.envres.2021.111584  0.388
2021 Teng J, Tian J, Barnard R, Yu G, Kuzyakov Y, Zhou J. Aboveground and Belowground Plant Traits Explain Latitudinal Patterns in Topsoil Fungal Communities From Tropical to Cold Temperate Forests. Frontiers in Microbiology. 12: 633751. PMID 34177822 DOI: 10.3389/fmicb.2021.633751  0.332
2021 Huang M, Chai L, Jiang D, Zhang M, Jia W, Huang Y, Zhou J. Dissolved organic matter (DOM) quality drives biogeographic patterns of soil bacterial communities and their association networks in semi-arid regions. Fems Microbiology Ecology. PMID 34156067 DOI: 10.1093/femsec/fiab083  0.368
2021 Sun C, Zhang B, Ning D, Zhang Y, Dai T, Wu L, Li T, Liu W, Zhou J, Wen X. Seasonal dynamics of the microbial community in two full-scale wastewater treatment plants: Diversity, composition, phylogenetic group based assembly and co-occurrence pattern. Water Research. 200: 117295. PMID 34091223 DOI: 10.1016/j.watres.2021.117295  0.305
2021 Cornell CR, Zhang Y, Van Nostrand JD, Wagle P, Xiao X, Zhou J. Temporal Changes of Virus-Like Particle Abundance and Metagenomic Comparison of Viral Communities in Cropland and Prairie Soils. Msphere. e0116020. PMID 34077260 DOI: 10.1128/mSphere.01160-20  0.36
2021 Yuan MM, Kakouridis A, Starr E, Nguyen N, Shi S, Pett-Ridge J, Nuccio E, Zhou J, Firestone M. Fungal-Bacterial Cooccurrence Patterns Differ between Arbuscular Mycorrhizal Fungi and Nonmycorrhizal Fungi across Soil Niches. Mbio. 12. PMID 33879589 DOI: 10.1128/mBio.03509-20  0.594
2021 Lui LM, Majumder EL, Smith HJ, Carlson HK, von Netzer F, Fields MW, Stahl DA, Zhou J, Hazen TC, Baliga NS, Adams PD, Arkin AP. Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology. Frontiers in Microbiology. 12: 642422. PMID 33841364 DOI: 10.3389/fmicb.2021.642422  0.302
2021 Ma B, Stirling E, Liu Y, Zhao K, Zhou J, Singh BK, Tang C, Dahlgren RA, Xu J. Soil Biogeochemical Cycle Couplings Inferred from a Function-Taxon Network. Research (Washington, D.C.). 2021: 7102769. PMID 33796862 DOI: 10.34133/2021/7102769  0.36
2021 Qi Q, Haowei Y, Zhang Z, Van Nostrand JD, Wu L, Guo X, Feng J, Wang M, Yang S, Zhao J, Gao Q, Zhang Q, Zhao M, Xie C, Ma Z, ... ... Zhou J, et al. Microbial Functional Responses Explain Alpine Soil Carbon Fluxes under Future Climate Scenarios. Mbio. 12. PMID 33622729 DOI: 10.1128/mBio.00761-20  0.394
2021 Shu D, Guo Y, Zhang B, Zhang C, Van Nostrand JD, Lin Y, Zhou J, Wei G. Rare prokaryotic sub-communities dominate the complexity of ecological networks and soil multinutrient cycling during long-term secondary succession in China's Loess Plateau. The Science of the Total Environment. 774: 145737. PMID 33611012 DOI: 10.1016/j.scitotenv.2021.145737  0.417
2021 Cheng J, Han Z, Cong J, Yu J, Zhou J, Zhao M, Zhang Y. Edaphic variables are better indicators of soil microbial functional structure than plant-related ones in subtropical broad-leaved forests. The Science of the Total Environment. 773: 145630. PMID 33582323 DOI: 10.1016/j.scitotenv.2021.145630  0.366
2021 Gao Y, Ding J, Yuan M, Chiariello N, Docherty K, Field C, Gao Q, Gu B, Gutknecht J, Hungate BA, Le Roux X, Niboyet A, Qi Q, Shi Z, Zhou J, et al. Long-term warming in a Mediterranean-type grassland affects soil bacterial functional potential but not bacterial taxonomic composition. Npj Biofilms and Microbiomes. 7: 17. PMID 33558544 DOI: 10.1038/s41522-021-00187-7  0.649
2021 Tian J, Zong N, Hartley IP, He N, Zhang J, Powlson D, Zhou J, Kuzyakov Y, Zhang F, Yu G, Dungait JAJ. Microbial metabolic response to winter warming stabilizes soil carbon. Global Change Biology. PMID 33528058 DOI: 10.1111/gcb.15538  0.363
2021 Li D, Ni H, Jiao S, Lu Y, Zhou J, Sun B, Liang Y. Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies. Microbiome. 9: 20. PMID 33482926 DOI: 10.1186/s40168-020-00978-8  0.323
2020 Gao Q, Wang G, Xue K, Yang Y, Xie J, Yu H, Bai S, Liu F, He Z, Ning D, Hobbie SE, Reich PB, Zhou J. Stimulation of soil respiration by elevated CO is enhanced under nitrogen limitation in a decade-long grassland study. Proceedings of the National Academy of Sciences of the United States of America. PMID 33318221 DOI: 10.1073/pnas.2002780117  0.32
2020 Cheng J, Yang Y, Yuan MM, Gao Q, Wu L, Qin Z, Shi ZJ, Schuur EAG, Cole JR, Tiedje JM, Zhou J. Winter warming rapidly increases carbon degradation capacities of fungal communities in tundra soil: potential consequences on carbon stability. Molecular Ecology. PMID 33305411 DOI: 10.1111/mec.15773  0.58
2020 Han S, Luo X, Hao X, Ouyang Y, Zeng L, Wang L, Wen S, Wang B, Van Nostrand JD, Chen W, Zhou J, Huang Q. Microscale heterogeneity of the soil nitrogen cycling microbial functional structure and potential metabolism. Environmental Microbiology. PMID 33283951 DOI: 10.1111/1462-2920.15348  0.369
2020 Chen Q, Yuan Y, Hu Y, Wang J, Si G, Xu R, Zhou J, Xi C, Hu A, Zhang G. Excessive nitrogen addition accelerates N assimilation and P utilization by enhancing organic carbon decomposition in a Tibetan alpine steppe. The Science of the Total Environment. 142848. PMID 33268263 DOI: 10.1016/j.scitotenv.2020.142848  0.374
2020 Guo X, Gao Q, Yuan M, Wang G, Zhou X, Feng J, Shi Z, Hale L, Wu L, Zhou A, Tian R, Liu F, Wu B, Chen L, Jung CG, ... ... Zhou J, et al. Gene-informed decomposition model predicts lower soil carbon loss due to persistent microbial adaptation to warming. Nature Communications. 11: 4897. PMID 32994415 DOI: 10.1038/s41467-020-18706-z  0.694
2020 Wilpiszeski RL, Gionfriddo CM, Wymore AM, Moon JW, Lowe KA, Podar M, Rafie S, Fields MW, Hazen TC, Ge X, Poole F, Adams MWW, Chakraborty R, Fan Y, Van Nostrand JD, ... Zhou J, et al. In-field bioreactors demonstrate dynamic shifts in microbial communities in response to geochemical perturbations. Plos One. 15: e0232437. PMID 32986713 DOI: 10.1371/journal.pone.0232437  0.307
2020 Ning D, Yuan M, Wu L, Zhang Y, Guo X, Zhou X, Yang Y, Arkin AP, Firestone MK, Zhou J. A quantitative framework reveals ecological drivers of grassland microbial community assembly in response to warming. Nature Communications. 11: 4717. PMID 32948774 DOI: 10.1038/S41467-020-18560-Z  0.596
2020 Wu B, Liu F, Zhou A, Li J, Shu L, Kempher ML, Yang X, Ning D, Pan F, Zane GM, Wall JD, Van Nostrand JD, Juneau P, Chen S, Yan Q, ... Zhou J, et al. Experimental evolution reveals nitrate tolerance mechanisms in Desulfovibrio vulgaris. The Isme Journal. PMID 32934357 DOI: 10.1038/S41396-020-00753-5  0.339
2020 He Z, Deng Y, Xu M, Li J, Liang J, Xiong J, Yu H, Wu B, Wu L, Xue K, Shi S, Carrillo Y, Van Nostrand JD, Hobbie SE, Reich PB, ... ... Zhou J, et al. Microbial functional genes commonly respond to elevated carbon dioxide. Environment International. 144: 106068. PMID 32871382 DOI: 10.1016/J.Envint.2020.106068  0.473
2020 Mu DS, Wang S, Liang QY, Du ZZ, Tian R, Ouyang Y, Wang XP, Zhou A, Gong Y, Chen GJ, Van Nostrand J, Yang Y, Zhou J, Du ZJ. Bradymonabacteria, a novel bacterial predator group with versatile survival strategies in saline environments. Microbiome. 8: 126. PMID 32867860 DOI: 10.1186/S40168-020-00902-0  0.34
2020 Li E, Deng T, Yan L, Zhou J, He Z, Deng Y, Xu M. Elevated nitrate simplifies microbial community compositions and interactions in sulfide-rich river sediments. The Science of the Total Environment. 750: 141513. PMID 32853935 DOI: 10.1016/J.Scitotenv.2020.141513  0.417
2020 Xue K, Van Nostrand JD, Zhou J, Neu S, Müller I, Giagnoni L, Renella G. Phytomanagement Reduces Metal Availability and Microbial Metal Resistance in a Metal Contaminated Soil. Frontiers in Microbiology. 11: 1899. PMID 32849472 DOI: 10.3389/Fmicb.2020.01899  0.435
2020 Sidhu JPS, Gupta VVSR, Stange C, Ho J, Harris N, Barry K, Gonzalez D, Van Nostrand JD, Zhou J, Page D, Tiehm A, Toze S. Prevalence of antibiotic resistance and virulence genes in the biofilms from an aquifer recharged with stormwater. Water Research. 185: 116269. PMID 32798893 DOI: 10.1016/J.Watres.2020.116269  0.408
2020 Qin W, Zheng Y, Zhao F, Wang Y, Urakawa H, Martens-Habbena W, Liu H, Huang X, Zhang X, Nakagawa T, Mende DR, Bollmann A, Wang B, Zhang Y, Amin SA, ... ... Zhou J, et al. Alternative strategies of nutrient acquisition and energy conservation map to the biogeography of marine ammonia-oxidizing archaea. The Isme Journal. PMID 32636492 DOI: 10.1038/S41396-020-0710-7  0.387
2020 Avila-Jimenez ML, Burns G, He Z, Zhou J, Hodson A, Avila-Jimenez JL, Pearce D. Functional Associations and Resilience in Microbial Communities. Microorganisms. 8. PMID 32599781 DOI: 10.3390/microorganisms8060951  0.315
2020 Picazo F, Vilmi A, Aalto J, Soininen J, Casamayor EO, Liu Y, Wu Q, Ren L, Zhou J, Shen J, Wang J. Climate mediates continental scale patterns of stream microbial functional diversity. Microbiome. 8: 92. PMID 32534595 DOI: 10.1186/S40168-020-00873-2  0.374
2020 Tao X, Feng J, Yang Y, Wang G, Tian R, Fan F, Ning D, Bates CT, Hale L, Yuan MM, Wu L, Gao Q, Lei J, Schuur EAG, Yu J, ... ... Zhou J, et al. Winter warming in Alaska accelerates lignin decomposition contributed by Proteobacteria. Microbiome. 8: 84. PMID 32503635 DOI: 10.1186/S40168-020-00838-5  0.801
2020 De Vrieze J, De Mulder T, Matassa S, Zhou J, Angenent LT, Boon N, Verstraete W. Stochasticity in microbiology: managing unpredictability to reach the Sustainable Development Goals. Microbial Biotechnology. PMID 32311222 DOI: 10.1111/1751-7915.13575  0.328
2020 Zou Y, Ning D, Huang Y, Liang Y, Wang H, Duan L, Yuan T, He Z, Yang Y, Xue K, Van Nostrand JD, Zhou J. Functional structures of soil microbial community relate to contrasting NO emission patterns from a highly acidified forest. The Science of the Total Environment. 725: 138504. PMID 32302850 DOI: 10.1016/J.Scitotenv.2020.138504  0.469
2020 Zhang B, Ning D, Van Nostrand JD, Sun C, Yang Y, Zhou J, Wen X. The biogeography and assembly of microbial communities in wastewater treatment plants in China. Environmental Science & Technology. PMID 32259441 DOI: 10.1021/Acs.Est.9B07950  0.434
2020 Wu R, Chai B, Cole JR, Gunturu SK, Guo X, Tian R, Gu JD, Zhou J, Tiedje JM. Targeted assemblies of cas1 suggest CRISPR-Cas's response to soil warming. The Isme Journal. PMID 32221408 DOI: 10.1038/S41396-020-0635-1  0.522
2020 Liang Y, Xiao X, Nuccio EE, Yuan M, Zhang N, Xue K, Cohan F, Zhou J, Sun B. Differentiation strategies of soil rare and abundant microbial taxa in response to changing climatic regimes. Environmental Microbiology. PMID 32067386 DOI: 10.1111/1462-2920.14945  0.503
2020 Nuccio EE, Starr E, Karaoz U, Brodie EL, Zhou J, Tringe SG, Malmstrom RR, Woyke T, Banfield JF, Firestone MK, Pett-Ridge J. Niche differentiation is spatially and temporally regulated in the rhizosphere. The Isme Journal. PMID 31953507 DOI: 10.1038/S41396-019-0582-X  0.672
2020 Feng J, Wang C, Lei J, Yang Y, Yan Q, Zhou X, Tao X, Ning D, Yuan MM, Qin Y, Shi ZJ, Guo X, He Z, Van Nostrand JD, Wu L, ... ... Zhou J, et al. Warming-induced permafrost thaw exacerbates tundra soil carbon decomposition mediated by microbial community. Microbiome. 8: 3. PMID 31952472 DOI: 10.1186/S40168-019-0778-3  0.825
2020 Hu A, Wang J, Sun H, Niu B, Si G, Wang J, Yeh CF, Zhu X, Lu X, Zhou J, Yang Y, Ren M, Hu Y, Dong H, Zhang G. Mountain biodiversity and ecosystem functions: interplay between geology and contemporary environments. The Isme Journal. PMID 31896789 DOI: 10.1038/S41396-019-0574-X  0.455
2020 Zhao M, Cong J, Cheng J, Qi Q, Sheng Y, Ning D, Lu H, Wyckoff KN, Deng Y, Li D, Zhou J, Zhang Y. Soil Microbial Community Assembly and Interactions Are Constrained by Nitrogen and Phosphorus in Broadleaf Forests of Southern China Forests. 11: 285. DOI: 10.3390/F11030285  0.517
2020 Chen Q, Niu B, Hu Y, Wang J, Lei T, Xu‐Ri, Zhou J, Xi C, Zhang G. Multilevel Nitrogen Additions Alter Chemical Composition and Turnover of the Labile Fraction Soil Organic Matter via Effects on Vegetation and Microorganisms Journal of Geophysical Research. 125. DOI: 10.1029/2019Jg005316  0.413
2020 Sher Y, Baker NR, Herman D, Fossum C, Hale L, Zhang X, Nuccio E, Saha M, Zhou J, Pett-Ridge J, Firestone M. Corrigendum to “Microbial extracellular polysaccharide production and aggregate stability controlled by Switchgrass (Panicum virgatum) root biomass and soil water potential” [Soil Biology and Biochemistry 143 (2020) 107741] Soil Biology & Biochemistry. 148: 107907. DOI: 10.1016/J.Soilbio.2020.107907  0.592
2020 Tu Q, Yan Q, Deng Y, Michaletz ST, Buzzard V, Weiser MD, Waide R, Ning D, Wu L, He Z, Zhou J. Biogeographic patterns of microbial co-occurrence ecological networks in six American forests Soil Biology & Biochemistry. 148: 107897. DOI: 10.1016/J.Soilbio.2020.107897  0.37
2020 Pressler Y, Zhou J, He Z, Nostrand JDV, Smith AP. Post-agricultural tropical forest regeneration shifts soil microbial functional potential for carbon and nutrient cycling Soil Biology & Biochemistry. 145: 107784. DOI: 10.1016/J.Soilbio.2020.107784  0.443
2020 Sher Y, Baker NR, Herman D, Fossum C, Hale L, Zhang X, Nuccio E, Saha M, Zhou J, Pett-Ridge J, Firestone M. Microbial extracellular polysaccharide production and aggregate stability controlled by switchgrass (Panicum virgatum) root biomass and soil water potential Soil Biology and Biochemistry. 143: 107742. DOI: 10.1016/J.Soilbio.2020.107742  0.62
2020 Wan X, Gao Q, Zhao J, Feng J, Nostrand JDv, Yang Y, Zhou J. Biogeographic patterns of microbial association networks in paddy soil within Eastern China Soil Biology & Biochemistry. 142: 107696. DOI: 10.1016/J.Soilbio.2019.107696  0.377
2020 Wang Y, Zheng H, Yang Y, Liang Y, Zhou J, He Z, Chen F, Ouyang Z. Microbial functional gene diversity in natural secondary forest Ultisols Acta Oecologica-International Journal of Ecology. 105: 103575. DOI: 10.1016/J.Actao.2020.103575  0.435
2020 Cheng J, Zhao M, Cong J, Qi Q, Xiao Y, Cong W, Deng Y, Zhou J, Zhang Y. Soil pH exerts stronger impacts than vegetation type and plant diversity on soil bacterial community composition in subtropical broad-leaved forests Plant and Soil. 450: 273-286. DOI: 10.1007/S11104-020-04507-2  0.474
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2018 Wang XB, Yao J, Zhang HY, Wang XG, Li KH, Lü XT, Wang ZW, Zhou JZ, Han XG. Environmental and spatial variables determine the taxonomic but not functional structure patterns of microbial communities in alpine grasslands. The Science of the Total Environment. 654: 960-968. PMID 30453265 DOI: 10.1016/J.Scitotenv.2018.11.138  0.441
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2018 Whitman T, Neurath R, Perera A, Chu-Jacoby I, Ning D, Zhou J, Nico P, Pett-Ridge J, Firestone M. Microbial community assembly differs across minerals in a rhizosphere microcosm. Environmental Microbiology. PMID 30047192 DOI: 10.1111/1462-2920.14366  0.634
2018 Xue K, Zhou J, Van Nostrand J, Mench M, Bes C, Giagnoni L, Renella G. Functional activity and functional gene diversity of a Cu-contaminated soil remediated by aided phytostabilization using compost, dolomitic limestone and a mixed tree stand. Environmental Pollution (Barking, Essex : 1987). 242: 229-238. PMID 29980041 DOI: 10.1016/J.Envpol.2018.06.057  0.453
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2018 Shi Z, Lin Y, Wilcox KR, Souza L, Jiang L, Jiang J, Jung CG, Xu X, Yuan M, Guo X, Wu L, Zhou J, Luo Y. Successional change in species composition alters climate sensitivity of grassland productivity. Global Change Biology. PMID 29851205 DOI: 10.1111/Gcb.14333  0.362
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2018 Dignam BEA, O'Callaghan M, Condron LM, Kowalchuk GA, Van Nostrand JD, Zhou J, Wakelin SA. Effect of land use and soil organic matter quality on the structure and function of microbial communities in pastoral soils: Implications for disease suppression. Plos One. 13: e0196581. PMID 29734390 DOI: 10.1371/Journal.Pone.0196581  0.497
2018 Christensen GA, Moon J, Veach AM, Mosher JJ, Wymore AM, van Nostrand JD, Zhou J, Hazen TC, Arkin AP, Elias DA. Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition. Plos One. 13: e0194663. PMID 29558522 DOI: 10.1371/Journal.Pone.0194663  0.407
2018 Xing W, Li J, Li P, Wang C, Cao Y, Li D, Yang Y, Zhou J, Zuo J. Effects of residual organics in municipal wastewater on hydrogenotrophic denitrifying microbial communities. Journal of Environmental Sciences (China). 65: 262-270. PMID 29548397 DOI: 10.1016/J.Jes.2017.03.001  0.379
2018 Vishnivetskaya TA, Hu H, Van Nostrand JD, Wymore AM, Xu X, Qiu G, Feng X, Zhou J, Brown SD, Brandt CC, Podar M, Gu B, Elias DA. Microbial community structure with trends in methylation gene diversity and abundance in mercury-contaminated rice paddy soils in Guizhou, China. Environmental Science. Processes & Impacts. PMID 29504614 DOI: 10.1039/C7Em00558J  0.473
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2018 Reyes VC, Gedalanga PB, Merino N, Van Nostrand JD, Keely SP, De Long SK, Zhou J, Mahendra S. Differential Sensitivity of Wetland-Derived Nitrogen Cycling Microorganisms to Copper Nanoparticles Acs Sustainable Chemistry & Engineering. 6: 11642-11652. DOI: 10.1021/Acssuschemeng.8B01868  0.302
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2018 Tian J, He N, Kong W, Deng Y, Feng K, Green SM, Wang X, Zhou J, Kuzyakov Y, Yu G. Deforestation decreases spatial turnover and alters the network interactions in soil bacterial communities Soil Biology & Biochemistry. 123: 80-86. DOI: 10.1016/J.Soilbio.2018.05.007  0.428
2018 Li Y, Li Y, Chang SX, Yang Y, Fu S, Jiang P, Luo Y, Yang M, Chen Z, Hu S, Zhao M, Liang X, Xu Q, Zhou G, Zhou J. Biochar reduces soil heterotrophic respiration in a subtropical plantation through increasing soil organic carbon recalcitrancy and decreasing carbon-degrading microbial activity Soil Biology & Biochemistry. 122: 173-185. DOI: 10.1016/J.Soilbio.2018.04.019  0.439
2018 Hou Y, Yang C, Zhou A, Liu W, Liu C, Cai W, Zhou J, Wang A. Microbial community response and SDS-PAGE reveal possible mechanism of waste activated sludge acidification enhanced by microaeration coupled thermophilic pretreatment Process Biochemistry. 64: 1-8. DOI: 10.1016/J.Procbio.2017.09.010  0.363
2017 Gu Y, Van Nostrand JD, Wu L, He Z, Qin Y, Zhao FJ, Zhou J. Correction: Bacterial community and arsenic functional genes diversity in arsenic contaminated soils from different geographic locations. Plos One. 12: e0189656. PMID 29216322 DOI: 10.1371/journal.pone.0189656  0.361
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2017 Zhang Y, Yang Q, Ling J, Van Nostrand JD, Shi Z, Zhou J, Dong J. Diversity and Structure of Diazotrophic Communities in Mangrove Rhizosphere, Revealed by High-Throughput Sequencing. Frontiers in Microbiology. 8: 2032. PMID 29093705 DOI: 10.3389/Fmicb.2017.02032  0.459
2017 Yu H, He Z, Wang A, Xie J, Wu L, Van Nostrand JD, Jin D, Shao Z, Schadt CW, Zhou J, Deng Y. Divergent responses of forest soil microbial communities under elevated CO2 in different depths of upper soil layers. Applied and Environmental Microbiology. PMID 29079614 DOI: 10.1128/Aem.01694-17  0.506
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2017 Yang Z, Yang S, Van Nostrand JD, Zhou J, Fang W, Qi Q, Liu Y, Wullschleger SD, Liang L, Graham DE, Yang Y, Gu B. Microbial Community and Functional Gene Changes in Arctic Tundra Soils in a Microcosm Warming Experiment. Frontiers in Microbiology. 8: 1741. PMID 28974946 DOI: 10.3389/Fmicb.2017.01741  0.527
2017 Xu T, Li Y, He Z, Van Nostrand JD, Zhou J. Cas9 Nickase-Assisted RNA Repression Enables Stable and Efficient Manipulation of Essential Metabolic Genes in Clostridium cellulolyticum. Frontiers in Microbiology. 8: 1744. PMID 28936208 DOI: 10.3389/Fmicb.2017.01744  0.347
2017 He J, Tu Q, Ge Y, Qin Y, Cui B, Hu X, Wang Y, Deng Y, Wang K, Van Nostrand JD, Li J, Zhou J, Li Y, Zhou X. Taxonomic and Functional Analyses of the Supragingival Microbiome from Caries-Affected and Caries-Free Hosts. Microbial Ecology. PMID 28932895 DOI: 10.1007/S00248-017-1056-1  0.358
2017 Kuang J, Cadotte MW, Chen Y, Shu H, Liu J, Chen L, Hua Z, Shu W, Zhou J, Huang L. Conservation of Species- and Trait-Based Modeling Network Interactions in Extremely Acidic Microbial Community Assembly. Frontiers in Microbiology. 8: 1486. PMID 28848508 DOI: 10.3389/Fmicb.2017.01486  0.335
2017 Wu L, Yang Y, Chen S, Jason Shi Z, Zhao M, Zhu Z, Yang S, Qu Y, Ma Q, He Z, Zhou J, He Q. Microbial functional trait of rRNA operon copy numbers increases with organic levels in anaerobic digesters. The Isme Journal. PMID 28841202 DOI: 10.1038/Ismej.2017.135  0.402
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2017 Wang Y, Zhang R, He Z, Van Nostrand JD, Zheng Q, Zhou J, Jiao N. Functional Gene Diversity and Metabolic Potential of the Microbial Community in an Estuary-Shelf Environment. Frontiers in Microbiology. 8: 1153. PMID 28680420 DOI: 10.3389/Fmicb.2017.01153  0.431
2017 Yan Z, He Y, Cai H, Van Nostrand JD, He Z, Zhou J, Krumholz LR, Jiang HL. Interconnection of key microbial functional genes for enhanced benzo[a]pyrene biodegradation in sediments by microbial electrochemistry. Environmental Science & Technology. PMID 28677976 DOI: 10.1021/Acs.Est.7B00209  0.449
2017 Li P, Jiang Z, Wang Y, Deng Y, Van Nostrand JD, Yuan T, Liu H, Wei D, Zhou J. Analysis of the functional gene structure and metabolic potential of microbial community in high arsenic groundwater. Water Research. 123: 268-276. PMID 28672211 DOI: 10.1016/J.Watres.2017.06.053  0.473
2017 Qi Q, Zhao M, Wang S, Ma X, Wang Y, Gao Y, Lin Q, Li X, Gu B, Li G, Zhou J, Yang Y. The Biogeographic Pattern of Microbial Functional Genes along an Altitudinal Gradient of the Tibetan Pasture. Frontiers in Microbiology. 8: 976. PMID 28659870 DOI: 10.3389/Fmicb.2017.00976  0.527
2017 Escalas A, Troussellier M, Tong Y, Bouvier T, Bouvier C, Mouchet MA, Flores Hernandez D, Ramos Miranda J, Zhou J, Mouillot D. Functional diversity and redundancy across fish gut, sediment, and water bacterial communities. Environmental Microbiology. PMID 28618142 DOI: 10.1111/1462-2920.13822  0.42
2017 Feng W, Liang J, Hale LE, Jung CG, Chen J, Zhou J, Xu M, Yuan M, Wu L, Bracho R, Pegoraro E, Schuur EAG, Luo Y. Enhanced decomposition of stable soil organic carbon and microbial catabolic potentials by long-term field warming. Global Change Biology. PMID 28597589 DOI: 10.1111/Gcb.13755  0.498
2017 Zhou J, Deng Y, Shen L, Wen C, Yan Q, Ning D, Qin Y, Xue K, Wu L, He Z, Voordeckers JW, Van Nostrand JD, Buzzard V, Michaletz ST, Enquist BJ, et al. Correspondence: Reply to 'Analytical flaws in a continental-scale forest soil microbial diversity study'. Nature Communications. 8: 15583. PMID 28585533 DOI: 10.1038/Ncomms15583  0.337
2017 Ma X, Zhao C, Gao Y, Liu B, Wang T, Yuan T, Hale L, Van Nostrand JD, Wan S, Zhou J, Yang Y. Divergent taxonomic and functional responses of microbial communities to field simulation of aeolian soil erosion and deposition. Molecular Ecology. PMID 28570016 DOI: 10.1111/Mec.14194  0.483
2017 Zhang J, Gao Q, Zhang Q, Wang T, Yue H, Wu L, Shi J, Qin Z, Zhou J, Zuo J, Yang Y. Bacteriophage-prokaryote dynamics and interaction within anaerobic digestion processes across time and space. Microbiome. 5: 57. PMID 28569210 DOI: 10.1186/S40168-017-0272-8  0.337
2017 Wu L, Yang Y, Wang S, Yue H, Lin Q, Hu Y, He Z, Van Nostrand JD, Hale L, Li X, Gilbert JA, Zhou J. Alpine soil carbon is vulnerable to rapid microbial decomposition under climate cooling. The Isme Journal. PMID 28534876 DOI: 10.1038/Ismej.2017.75  0.467
2017 Kaspari M, Bujan J, Weiser MD, Ning D, Michaletz ST, Zhili H, Enquist BJ, Waide RB, Zhou J, Turner BL, Wright SJ. Biogeochemistry drives diversity in the prokaryotes, fungi, and invertebrates of a Panama forest. Ecology. PMID 28500769 DOI: 10.1002/Ecy.1895  0.439
2017 Yu D, Xia M, Zhang L, Song Y, Duan Y, Yuan T, Yao M, Wu L, Tian C, Wu Z, Li X, Zhou J, Qiu D. RpoN (σ(54)) is required for floc formation but not for extracellular polysaccharide biosynthesis in a floc-forming Aquincola tertiaricarbonis strain. Applied and Environmental Microbiology. PMID 28500044 DOI: 10.1128/Aem.00709-17  0.338
2017 Gu Y, D Van Nostrand J, Wu L, He Z, Qin Y, Zhao FJ, Zhou J. Bacterial community and arsenic functional genes diversity in arsenic contaminated soils from different geographic locations. Plos One. 12: e0176696. PMID 28475654 DOI: 10.1371/Journal.Pone.0176696  0.53
2017 Wen C, Wu L, Qin Y, Van Nostrand JD, Ning D, Sun B, Xue K, Liu F, Deng Y, Liang Y, Zhou J. Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform. Plos One. 12: e0176716. PMID 28453559 DOI: 10.1371/Journal.Pone.0176716  0.36
2017 Yan Q, Stegen JC, Yu Y, Deng Y, Li X, Wu S, Dai L, Zhang X, Li J, Wang C, Ni J, Li X, Hu H, Xiao F, Feng W, ... ... Zhou J, et al. Nearly a decade-long repeatable seasonal diversity patterns of bacterioplankton communities in the eutrophic Lake Donghu (Wuhan, China). Molecular Ecology. PMID 28437572 DOI: 10.1111/Mec.14151  0.419
2017 Cheng L, Zhang N, Yuan M, Xiao J, Qin Y, Deng Y, Tu Q, Xue K, Van Nostrand JD, Wu L, He Z, Zhou X, Leigh MB, Konstantinidis KT, Schuur EA, ... ... Zhou J, et al. Warming enhances old organic carbon decomposition through altering functional microbial communities. The Isme Journal. PMID 28430189 DOI: 10.1038/Ismej.2017.48  0.733
2017 Zhang Y, Liu X, Cong J, Lu H, Sheng Y, Wang X, Li D, Liu X, Yin H, Zhou J, Deng Y. The microbially-mediated soil organic carbon loss under degenerative succession in an alpine meadow. Molecular Ecology. PMID 28429833 DOI: 10.1111/Mec.14148  0.516
2017 Lyles CN, Parisi VA, Beasley WH, Van Nostrand JD, Zhou J, Suflita JM. Elucidation of the methanogenic potential from coalbed microbial communities amended with volatile fatty acids. Fems Microbiology Ecology. PMID 28369331 DOI: 10.1093/Femsec/Fix040  0.386
2017 Zhang P, He Z, Van Nostrand JD, Qin Y, Deng Y, Wu L, Tu Q, Wang J, Schadt CW, W Fields M, Hazen TC, Arkin AP, Stahl DA, Zhou J. Dynamic Succession of Groundwater Sulfate-Reducing Communities during Prolonged Reduction of Uranium in a Contaminated Aquifer. Environmental Science & Technology. PMID 28300407 DOI: 10.1021/Acs.Est.6B02980  0.397
2017 Wang XB, Lü XT, Yao J, Wang ZW, Deng Y, Cheng WX, Zhou JZ, Han XG. Habitat-specific patterns and drivers of bacterial β-diversity in China's drylands. The Isme Journal. PMID 28282041 DOI: 10.1038/Ismej.2017.11  0.389
2017 Yang S, Zhang Y, Cong J, Wang M, Zhao M, Lu H, Xie C, Yang C, Yuan T, Li D, Zhou J, Gu B, Yang Y. Variations of Soil Microbial Community Structures Beneath Broadleaved Forest Trees in Temperate and Subtropical Climate Zones. Frontiers in Microbiology. 8: 200. PMID 28239373 DOI: 10.3389/Fmicb.2017.00200  0.449
2017 Zeng F, Wang Z, Wang Y, Zhou J, Chen T. Large-scale 16S gene assembly using metagenomics shotgun sequences. Bioinformatics (Oxford, England). PMID 28158392 DOI: 10.1093/Bioinformatics/Btx018  0.352
2017 King AJ, Preheim SP, Bailey KL, Robeson MS, Roy Chowdhury T, Crable BR, Hurt RA, Mehlhorn TL, Lowe KA, Phelps TJ, Palumbo AV, Brandt CC, Brown SD, Podar M, Zhang P, ... ... Zhou J, et al. Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation. Environmental Science & Technology. PMID 28112946 DOI: 10.1021/Acs.Est.6B04751  0.41
2017 Weiser MD, Michaletz ST, Buzzard V, Deng Y, He Z, Shen L, Enquist BJ, Waide RB, Zhou J, Kaspari M. Toward a theory for diversity gradients: the abundance-adaptation hypothesis Ecography. 41: 255-264. DOI: 10.1111/Ecog.02314  0.352
2017 Tu Q, He Z, Wu L, Xue K, Xie G, Chain P, Reich PB, Hobbie SE, Zhou J. Metagenomic reconstruction of nitrogen cycling pathways in a CO2-enriched grassland ecosystem Soil Biology and Biochemistry. 106: 99-108. DOI: 10.1016/J.Soilbio.2016.12.017  0.638
2017 Li H, Yang S, Xu Z, Yan Q, Li X, Nostrand JDv, He Z, Yao F, Han X, Zhou J, Deng Y, Jiang Y. Responses of soil microbial functional genes to global changes are indirectly influenced by aboveground plant biomass variation Soil Biology & Biochemistry. 104: 18-29. DOI: 10.1016/J.Soilbio.2016.10.009  0.512
2017 Navarrete AA, Mellis EV, Escalas A, Lemos LN, Junior JL, Quaggio JA, Zhou J, Tsai SM. Zinc concentration affects the functional groups of microbial communities in sugarcane-cultivated soil Agriculture, Ecosystems & Environment. 236: 187-197. DOI: 10.1016/J.Agee.2016.12.009  0.524
2017 Li H, Xu Z, Yan Q, Yang S, Van Nostrand JD, Wang Z, He Z, Zhou J, Jiang Y, Deng Y. Soil microbial beta-diversity is linked with compositional variation in aboveground plant biomass in a semi-arid grassland Plant and Soil. 423: 465-480. DOI: 10.1007/S11104-017-3524-2  0.428
2016 Penton CR, Yang C, Wu L, Wang Q, Zhang J, Liu F, Qin Y, Deng Y, Hemme CL, Zheng T, Schuur EA, Tiedje J, Zhou J. NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient. Frontiers in Microbiology. 7: 1894. PMID 27933054 DOI: 10.3389/Fmicb.2016.01894  0.767
2016 Zhang Y, Yang Q, Ling J, Van Nostrand JD, Shi Z, Zhou J, Dong J. The Shifts of Diazotrophic Communities in Spring and Summer Associated with Coral Galaxea astreata, Pavona decussata, and Porites lutea. Frontiers in Microbiology. 7: 1870. PMID 27920768 DOI: 10.3389/Fmicb.2016.01870  0.397
2016 Zhang B, Xia Y, Wen X, Wang X, Yang Y, Zhou J, Zhang Y. The Composition and Spatial Patterns of Bacterial Virulence Factors and Antibiotic Resistance Genes in 19 Wastewater Treatment Plants. Plos One. 11: e0167422. PMID 27907117 DOI: 10.1371/Journal.Pone.0167422  0.353
2016 Zhao M, Sun B, Wu L, Gao Q, Wang F, Wen C, Wang M, Liang Y, Hale L, Zhou J, Yang Y. Zonal Soil Type Determines Soil Microbial Responses to Maize Cropping and Fertilization. Msystems. 1. PMID 27822546 DOI: 10.1128/mSystems.00075-16  0.409
2016 Wei ST, Lacap-Bugler DC, Lau MC, Caruso T, Rao S, de Los Rios A, Archer SK, Chiu JM, Higgins C, Van Nostrand JD, Zhou J, Hopkins DW, Pointing SB. Taxonomic and Functional Diversity of Soil and Hypolithic Microbial Communities in Miers Valley, McMurdo Dry Valleys, Antarctica. Frontiers in Microbiology. 7: 1642. PMID 27812351 DOI: 10.3389/Fmicb.2016.01642  0.506
2016 Tu Q, Li J, Shi Z, Chen Y, Lin L, Li J, Wang H, Yan J, Zhou Q, Li X, Li L, Zhou J, He Z. HuMiChip2 for strain level identification and functional profiling of human microbiomes. Applied Microbiology and Biotechnology. PMID 27734124 DOI: 10.1007/S00253-016-7910-0  0.328
2016 Sun Y, Shen YX, Liang P, Zhou J, Yang Y, Huang X. Multiple antibiotic resistance genes distribution in ten large-scale membrane bioreactors for municipal wastewater treatment. Bioresource Technology. 222: 100-106. PMID 27716561 DOI: 10.1016/J.Biortech.2016.09.117  0.308
2016 Webster TM, Reddy RR, Tan JY, Van Nostrand JD, Zhou J, Hayes KF, Raskin L. Anaerobic Disposal of Arsenic-Bearing Wastes Results in Low Microbially Mediated Arsenic Volatilization. Environmental Science & Technology. PMID 27715012 DOI: 10.1021/Acs.Est.6B02286  0.327
2016 Yang C, Li Y, Zhou Y, Lei X, Zheng W, Tian Y, Van Nostrand JD, He Z, Wu L, Zhou J, Zheng T. A comprehensive insight into functional profiles of free-living microbial community responses to a toxic Akashiwo sanguinea bloom. Scientific Reports. 6: 34645. PMID 27703234 DOI: 10.1038/Srep34645  0.451
2016 Xue K, Yuan MM, Xie J, Li D, Qin Y, Hale LE, Wu L, Deng Y, He Z, Van Nostrand JD, Luo Y, Tiedje JM, Zhou J. Annual Removal of Aboveground Plant Biomass Alters Soil Microbial Responses to Warming. Mbio. 7. PMID 27677789 DOI: 10.1128/Mbio.00976-16  0.613
2016 Yu Z, He Z, Tao X, Zhou J, Yang Y, Zhao M, Zhang X, Zheng Z, Yuan T, Liu P, Chen Y, Nolan V, Li X. The shifts of sediment microbial community phylogenetic and functional structures during chromium (VI) reduction. Ecotoxicology (London, England). PMID 27637513 DOI: 10.1007/S10646-016-1719-6  0.38
2016 Shen C, Shi Y, Ni Y, Deng Y, Van Nostrand JD, He Z, Zhou J, Chu H. Dramatic Increases of Soil Microbial Functional Gene Diversity at the Treeline Ecotone of Changbai Mountain. Frontiers in Microbiology. 7: 1184. PMID 27524983 DOI: 10.3389/Fmicb.2016.01184  0.523
2016 Wu L, Yang Y, Chen S, Zhao M, Zhu Z, Yang S, Qu Y, Ma Q, He Z, Zhou J, He Q. Long-term successional dynamics of microbial association networks in anaerobic digestion processes. Water Research. 104: 1-10. PMID 27497626 DOI: 10.1016/J.Watres.2016.07.072  0.331
2016 Lindsay MR, Anderson C, Fox N, Scofield G, Allen J, Anderson E, Bueter L, Poudel S, Sutherland K, Munson-McGee JH, Van Nostrand JD, Zhou J, Spear JR, Baxter BK, Lageson DR, et al. Microbialite response to an anthropogenic salinity gradient in Great Salt Lake, Utah. Geobiology. PMID 27418462 DOI: 10.1111/Gbi.12201  0.401
2016 Zhou J, Deng Y, Shen L, Wen C, Yan Q, Ning D, Qin Y, Xue K, Wu L, He Z, Voordeckers JW, Nostrand JD, Buzzard V, Michaletz ST, Enquist BJ, et al. Temperature mediates continental-scale diversity of microbes in forest soils. Nature Communications. 7: 12083. PMID 27377774 DOI: 10.1038/Ncomms12083  0.446
2016 Zhang Y, Cong J, Lu H, Deng Y, Liu X, Zhou J, Li D. Soil bacterial endemism and potential functional redundancy in natural broadleaf forest along a latitudinal gradient. Scientific Reports. 6: 28819. PMID 27357005 DOI: 10.1038/Srep28819  0.488
2016 Qiu D, Xie M, Dai J, An W, Wei H, Tian C, Kempher ML, Zhou A, He Z, Gu B, Zhou J. Differential regulation of the two ferrochelatase paralogues in Shewanella loihica PV-4 in response to environmental stresses. Applied and Environmental Microbiology. PMID 27287322 DOI: 10.1128/Aem.00203-16  0.32
2016 Shi S, Nuccio EE, Shi ZJ, He Z, Zhou J, Firestone MK. The interconnected rhizosphere: High network complexity dominates rhizosphere assemblages. Ecology Letters. PMID 27264635 DOI: 10.1111/Ele.12630  0.566
2016 Wang X, Wen X, Deng Y, Xia Y, Yang Y, Zhou J. Is there a distance-decay relationship in biological wastewater treatment plants? Applied and Environmental Microbiology. PMID 27235444 DOI: 10.1128/Aem.01071-16  0.416
2016 Xue K, Xie J, Zhou A, Liu F, Li D, Wu L, Deng Y, He Z, Van Nostrand JD, Luo Y, Zhou J. Warming Alters Expressions of Microbial Functional Genes Important to Ecosystem Functioning. Frontiers in Microbiology. 7: 668. PMID 27199978 DOI: 10.3389/Fmicb.2016.00668  0.525
2016 Johnston ER, Rodriguez-R LM, Luo C, Yuan MM, Wu L, He Z, Schuur EA, Luo Y, Tiedje JM, Zhou J, Konstantinidis KT. Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem. Frontiers in Microbiology. 7: 579. PMID 27199914 DOI: 10.3389/Fmicb.2016.00579  0.739
2016 Liang B, Kong D, Ma J, Wen C, Yuan T, Lee DJ, Zhou J, Wang A. Low temperature acclimation with electrical stimulation enhance the biocathode functioning stability for antibiotics detoxification. Water Research. 100: 157-168. PMID 27183211 DOI: 10.1016/J.Watres.2016.05.028  0.378
2016 Trivedi P, Delgado-Baquerizo M, Trivedi C, Hu H, Anderson IC, Jeffries TC, Zhou J, Singh BK. Microbial regulation of the soil carbon cycle: evidence from gene-enzyme relationships. The Isme Journal. PMID 27168143 DOI: 10.1038/Ismej.2016.65  0.515
2016 Bouskill NJ, Wood TE, Baran R, Ye Z, Bowen BP, Lim H, Zhou J, Nostrand JD, Nico P, Northen TR, Silver WL, Brodie EL. Belowground Response to Drought in a Tropical Forest Soil. I. Changes in Microbial Functional Potential and Metabolism. Frontiers in Microbiology. 7: 525. PMID 27148214 DOI: 10.3389/Fmicb.2016.00525  0.48
2016 Yan Q, Li J, Yu Y, Wang J, He Z, Van Nostrand JD, Kempher ML, Wu L, Wang Y, Liao L, Li X, Wu S, Ni J, Wang C, Zhou J. Environmental filtering decreases with fish development for the assembly of gut microbiota. Environmental Microbiology. PMID 27130138 DOI: 10.1111/1462-2920.13365  0.387
2016 Jiang Z, Li P, Van Nostrand JD, Zhang P, Zhou J, Wang Y, Dai X, Zhang R, Jiang D, Wang Y. Microbial communities and arsenic biogeochemistry at the outflow of an alkaline sulfide-rich hot spring. Scientific Reports. 6: 25262. PMID 27126380 DOI: 10.1038/Srep25262  0.387
2016 Tu Q, Deng Y, Yan Q, Shen L, Lin L, He Z, Wu L, Van Nostrand J, Buzzard V, Michaletz ST, Enquist BJ, Weiser MD, Kaspari M, Waide R, Brown JH, ... Zhou J, et al. Biogeographic Patterns of Soil Diazotrophic Communities across Six Forests in the North America. Molecular Ecology. PMID 27085668 DOI: 10.1111/Mec.13651  0.496
2016 Hemme CL, Green SJ, Rishishwar L, Prakash O, Pettenato A, Chakraborty R, Deutschbauer AM, Van Nostrand JD, Wu L, He Z, Jordan IK, Hazen TC, Arkin AP, Kostka JE, Zhou J. Lateral Gene Transfer in a Heavy Metal-Contaminated-Groundwater Microbial Community. Mbio. 7. PMID 27048805 DOI: 10.1128/Mbio.02234-15  0.435
2016 Wei H, Dai J, Xia M, Romine MF, Shi L, Beliav A, Tiedje JM, Nealson KH, Fredrickson JK, Zhou J, Qiu D. Functional Roles of CymA and NapC in Reduction of Nitrate and Nitrite by Shewanella putrefaciens W3-18-1. Microbiology (Reading, England). PMID 27010745 DOI: 10.1099/Mic.0.000285  0.457
2016 Herath A, Wawrik B, Qin Y, Zhou JZ, Callaghan AV. Transcriptional response of Desulfatibacillum alkenivorans AK-01 to growth on alkanes: insights from RT-qPCR and microarray analyses. Fems Microbiology Ecology. PMID 27009900 DOI: 10.1093/Femsec/Fiw062  0.343
2016 Wang K, Lu W, Tu Q, Ge Y, He J, Zhou Y, Gou Y, Van Nostrand JD, Qin Y, Li J, Zhou J, Li Y, Xiao L, Zhou X. Preliminary analysis of salivary microbiome and their potential roles in oral lichen planus. Scientific Reports. 6: 22943. PMID 26961389 DOI: 10.1038/Srep22943  0.307
2016 Kuang J, Huang L, He Z, Chen L, Hua Z, Jia P, Li S, Liu J, Li J, Zhou J, Shu W. Predicting taxonomic and functional structure of microbial communities in acid mine drainage. The Isme Journal. PMID 26943622 DOI: 10.1038/Ismej.2015.201  0.455
2016 Weiss S, Van Treuren W, Lozupone C, Faust K, Friedman J, Deng Y, Xia LC, Xu ZZ, Ursell L, Alm EJ, Birmingham A, Cram JA, Fuhrman JA, Raes J, Sun F, ... Zhou J, et al. Correlation detection strategies in microbial data sets vary widely in sensitivity and precision. The Isme Journal. PMID 26905627 DOI: 10.1038/Ismej.2015.235  0.355
2016 Liang Y, Zhao H, Deng Y, Zhou J, Li G, Sun B. Long-Term Oil Contamination Alters the Molecular Ecological Networks of Soil Microbial Functional Genes. Frontiers in Microbiology. 7: 60. PMID 26870020 DOI: 10.3389/Fmicb.2016.00060  0.457
2016 Van Nostrand JD, Yin H, Wu L, Yuan T, Zhou J. Hybridization of Environmental Microbial Community Nucleic Acids by GeoChip. Methods in Molecular Biology (Clifton, N.J.). 1399: 183-96. PMID 26791504 DOI: 10.1007/978-1-4939-3369-3_11  0.401
2016 Zhang YZ, Li Y, Xie BB, Chen XL, Yao QQ, Zhang XY, Kempher ML, Zhou J, Oren A, Qin QL. Nascent Genomic Evolution and Allopatric Speciation of Myroides profundi D25 in Its Transition from Land to Ocean. Mbio. 7. PMID 26758181 DOI: 10.1128/Mbio.01946-15  0.349
2016 Xia Y, Hu M, Wen X, Wang X, Yang Y, Zhou J. Diversity and interactions of microbial functional genes under differing environmental conditions: insights from a membrane bioreactor and an oxidation ditch. Scientific Reports. 6: 18509. PMID 26743465 DOI: 10.1038/Srep18509  0.418
2016 Wang J, Meier S, Soininen J, Casamayor EO, Pan F, Tang X, Yang X, Zhang Y, Wu Q, Zhou J, Shen J. Regional and global elevational patterns of microbial species richness and evenness Ecography. 40: 393-402. DOI: 10.1111/Ecog.02216  0.379
2016 Wang Y, Zhang R, Zheng Q, Deng Y, Nostrand JDV, Zhou J, Jiao N. Bacterioplankton community resilience to ocean acidification: evidence from microbial network analysis Ices Journal of Marine Science. 73: 865-875. DOI: 10.1093/Icesjms/Fsv187  0.417
2016 Wakelin S, Cave V, Dignam B, D’Ath C, Tourna M, Condron L, Zhou J, Nostrand JV, O’Callaghan M. Analysis of soil eDNA functional genes: potential to increase profitability and sustainability of pastoral agriculture New Zealand Journal of Agricultural Research. 59: 333-350. DOI: 10.1080/00288233.2016.1209529  0.454
2016 Xue K, M. Yuan M, J. Shi Z, Qin Y, Deng Y, Cheng L, Wu L, He Z, Van Nostrand JD, Bracho R, Natali S, Schuur EAG, Luo C, Konstantinidis KT, Wang Q, ... ... Zhou J, et al. Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming Nature Climate Change. 6: 595-600. DOI: 10.1038/Nclimate2940  0.677
2016 Feng W, Shi Z, Jiang J, Xia J, Liang J, Zhou J, Luo Y. Methodological uncertainty in estimating carbon turnover times of soil fractions Soil Biology and Biochemistry. 100: 118-124. DOI: 10.1016/J.Soilbio.2016.06.003  0.388
2016 Bracho R, Natali S, Pegoraro E, Crummer KG, Schädel C, Celis G, Hale L, Wu L, Yin H, Tiedje JM, Konstantinidis KT, Luo Y, Zhou J, Schuur EAG. Temperature sensitivity of organic matter decomposition of permafrost-region soils during laboratory incubations Soil Biology and Biochemistry. 97: 1-14. DOI: 10.1016/J.Soilbio.2016.02.008  0.705
2016 Jiang Y, Liang Y, Li C, Wang F, Sui Y, Suvannang N, Zhou J, Sun B. Crop rotations alter bacterial and fungal diversity in paddy soils across East Asia Soil Biology and Biochemistry. 95: 250-261. DOI: 10.1016/J.Soilbio.2016.01.007  0.499
2016 Morrison E, Newman S, Bae HS, He Z, Zhou J, Reddy KR, Ogram A. Microbial genetic and enzymatic responses to an anthropogenic phosphorus gradient within a subtropical peatland Geoderma. 268: 119-127. DOI: 10.1016/J.Geoderma.2016.01.008  0.367
2016 Xu X, Shi Z, Li D, Rey A, Ruan H, Craine JM, Liang J, Zhou J, Luo Y. Soil properties control decomposition of soil organic carbon: Results from data-assimilation analysis Geoderma. 262: 235-242. DOI: 10.1016/J.Geoderma.2015.08.038  0.434
2016 Zhu Y, Su J, Cao Z, Xue K, Quensen J, Guo G, Yang Y, Zhou J, Chu H, Tiedje JM. A buried Neolithic paddy soil reveals loss of microbial functional diversity after modern rice cultivation Science Bulletin. 61: 1052-1060. DOI: 10.1007/S11434-016-1112-0  0.607
2016 Wang M, Wang S, Wu L, Xu D, Lin Q, Hu Y, Li X, Zhou J, Yang Y. Evaluating the lingering effect of livestock grazing on functional potentials of microbial communities in Tibetan grassland soils Plant and Soil. 1-15. DOI: 10.1007/S11104-016-2897-Y  0.529
2015 Hemme CL, Tu Q, Shi Z, Qin Y, Gao W, Deng Y, Nostrand JD, Wu L, He Z, Chain PS, Tringe SG, Fields MW, Rubin EM, Tiedje JM, Hazen TC, ... ... Zhou J, et al. Comparative metagenomics reveals impact of contaminants on groundwater microbiomes. Frontiers in Microbiology. 6: 1205. PMID 26583008 DOI: 10.3389/Fmicb.2015.01205  0.681
2015 Zhang Y, Ling J, Yang Q, Wen C, Yan Q, Sun H, Van Nostrand JD, Shi Z, Zhou J, Dong J. The functional gene composition and metabolic potential of coral-associated microbial communities. Scientific Reports. 5: 16191. PMID 26536917 DOI: 10.1038/Srep16191  0.476
2015 Wang X, Van Nostrand JD, Deng Y, Lü X, Wang C, Zhou J, Han X. Scale-dependent effects of climate and geographic distance on bacterial diversity patterns across northern China's grasslands. Fems Microbiology Ecology. PMID 26519142 DOI: 10.1093/Femsec/Fiv133  0.47
2015 Wang M, Liu S, Wang F, Sun B, Zhou J, Yang Y. Microbial responses to southward and northward Cambisol soil transplant. Microbiologyopen. PMID 26503228 DOI: 10.1002/mbo3.302  0.355
2015 Liang Y, Zhang X, Zhou J, Li G. Long-term oil contamination increases deterministic assembly processes in soil microbes. Ecological Applications : a Publication of the Ecological Society of America. 25: 1235-43. PMID 26485952 DOI: 10.1890/14-1672.1  0.451
2015 Deng Y, He Z, Xiong J, Yu H, Xu M, Hobbie SE, Reich PB, Schadt CW, Kent A, Pendall E, Wallenstein M, Zhou J. Elevated carbon dioxide accelerates the spatial turnover of soil microbial communities. Global Change Biology. PMID 26414247 DOI: 10.1111/Gcb.13098  0.487
2015 Wang F, Liang Y, Jiang Y, Yang Y, Xue K, Xiong J, Zhou J, Sun B. Planting increases the abundance and structure complexity of soil core functional genes relevant to carbon and nitrogen cycling. Scientific Reports. 5: 14345. PMID 26396042 DOI: 10.1038/Srep14345  0.474
2015 Yin H, Niu J, Ren Y, Cong J, Zhang X, Fan F, Xiao Y, Zhang X, Deng J, Xie M, He Z, Zhou J, Liang Y, Liu X. An integrated insight into the response of sedimentary microbial communities to heavy metal contamination. Scientific Reports. 5: 14266. PMID 26391875 DOI: 10.1038/Srep14266  0.574
2015 Xu M, He Z, Zhang Q, Liu J, Guo J, Sun G, Zhou J. Responses of aromatic-degrading microbial communities to elevated nitrate in sediments. Environmental Science & Technology. PMID 26390227 DOI: 10.1021/Acs.Est.5B03442  0.414
2015 Qu Y, Zhang X, Ma Q, Deng J, Deng Y, Van Nostrand JD, Wu L, He Z, Qin Y, Zhou J, Zhou J. Microbial Community Dynamics and Activity Link to Indigo Production from Indole in Bioaugmented Activated Sludge Systems. Plos One. 10: e0138455. PMID 26372223 DOI: 10.1371/Journal.Pone.0138455  0.498
2015 Ding J, Zhang Y, Wang M, Sun X, Cong J, Deng Y, Lu H, Yuan T, Van Nostrand JD, Li D, Zhou J, Yang Y. Soil organic matter quantity and quality shape microbial community compositions of subtropical broadleaved forests. Molecular Ecology. PMID 26363284 DOI: 10.1111/Mec.13384  0.486
2015 Huang C, Li ZL, Chen F, Liu Q, Zhao YK, Zhou JZ, Wang AJ. Microbial community structure and function in response to the shift of sulfide/nitrate loading ratio during the denitrifying sulfide removal process. Bioresource Technology. 197: 227-234. PMID 26340031 DOI: 10.1016/J.Biortech.2015.08.019  0.388
2015 Penton CR, St Louis D, Pham A, Cole JR, Wu L, Luo Y, Schuur EA, Zhou J, Tiedje JM. Denitrifying and diazotrophic community responses to artificial warming in permafrost and tallgrass prairie soils. Frontiers in Microbiology. 6: 746. PMID 26284038 DOI: 10.3389/Fmicb.2015.00746  0.801
2015 Tu Q, Zhou X, He Z, Xue K, Wu L, Reich P, Hobbie S, Zhou J. The Diversity and Co-occurrence Patterns of N2-Fixing Communities in a CO 2-Enriched Grassland Ecosystem. Microbial Ecology. PMID 26280746 DOI: 10.1007/S00248-015-0659-7  0.516
2015 Li X, Bond PL, Van Nostrand JD, Zhou J, Huang L. From lithotroph- to organotroph-dominant: directional shift of microbial community in sulphidic tailings during phytostabilization. Scientific Reports. 5: 12978. PMID 26268667 DOI: 10.1038/Srep12978  0.49
2015 Shi S, Nuccio E, Herman DJ, Rijkers R, Estera K, Li J, da Rocha UN, He Z, Pett-Ridge J, Brodie EL, Zhou J, Firestone M. Successional Trajectories of Rhizosphere Bacterial Communities over Consecutive Seasons. Mbio. 6. PMID 26242625 DOI: 10.1128/Mbio.00746-15  0.656
2015 Sheng Z, Van Nostrand JD, Zhou J, Liu Y. The effects of silver nanoparticles on intact wastewater biofilms. Frontiers in Microbiology. 6: 680. PMID 26217316 DOI: 10.3389/Fmicb.2015.00680  0.314
2015 Deng Y, Zhang P, Qin Y, Tu Q, Yang Y, He Z, Schadt CW, Zhou J. Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation. Environmental Microbiology. PMID 26177312 DOI: 10.1111/1462-2920.12981  0.35
2015 Zhang Y, Tian Z, Liu M, Shi ZJ, Hale L, Zhou J, Yang M. High concentrations of the antibiotic spiramycin in wastewater lead to high abundance of ammonia-oxidizing archaea in nitrifying populations. Environmental Science & Technology. PMID 26125322 DOI: 10.1021/Acs.Est.5B01293  0.361
2015 Wu L, Wen C, Qin Y, Yin H, Tu Q, Van Nostrand JD, Yuan T, Yuan M, Deng Y, Zhou J. Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis. Bmc Microbiology. 15: 125. PMID 26084274 DOI: 10.1186/S12866-015-0450-4  0.384
2015 Zhang Y, Cong J, Lu H, Li G, Xue Y, Deng Y, Li H, Zhou J, Li D. Soil bacterial diversity patterns and drivers along an elevational gradient on Shennongjia Mountain, China. Microbial Biotechnology. 8: 739-46. PMID 26032124 DOI: 10.1111/1751-7915.12288  0.474
2015 Liang Y, Jiang Y, Wang F, Wen C, Deng Y, Xue K, Qin Y, Yang Y, Wu L, Zhou J, Sun B. Long-term soil transplant simulating climate change with latitude significantly alters microbial temporal turnover. The Isme Journal. 9: 2561-72. PMID 25989371 DOI: 10.1038/Ismej.2015.78  0.482
2015 Smith MB, Rocha AM, Smillie CS, Olesen SW, Paradis C, Wu L, Campbell JH, Fortney JL, Mehlhorn TL, Lowe KA, Earles JE, Phillips J, Techtmann SM, Joyner DC, Elias DA, ... ... Zhou J, et al. Natural bacterial communities serve as quantitative geochemical biosensors. Mbio. 6: e00326-15. PMID 25968645 DOI: 10.1128/Mbio.00326-15  0.407
2015 Cong J, Yang Y, Liu X, Lu H, Liu X, Zhou J, Li D, Yin H, Ding J, Zhang Y. Analyses of soil microbial community compositions and functional genes reveal potential consequences of natural forest succession. Scientific Reports. 5: 10007. PMID 25943705 DOI: 10.1038/Srep10007  0.516
2015 Wood SA, Almaraz M, Bradford MA, McGuire KL, Naeem S, Neill C, Palm CA, Tully KL, Zhou J. Farm management, not soil microbial diversity, controls nutrient loss from smallholder tropical agriculture. Frontiers in Microbiology. 6: 90. PMID 25926815 DOI: 10.3389/Fmicb.2015.00090  0.502
2015 Dai J, Wei H, Tian C, Damron FH, Zhou J, Qiu D. An extracytoplasmic function sigma factor-dependent periplasmic glutathione peroxidase is involved in oxidative stress response of Shewanella oneidensis. Bmc Microbiology. 15: 34. PMID 25887418 DOI: 10.1186/S12866-015-0357-0  0.323
2015 Zhang P, Wu WM, Van Nostrand JD, Deng Y, He Z, Gihring T, Zhang G, Schadt CW, Watson D, Jardine P, Criddle CS, Brooks S, Marsh TL, Tiedje JM, Arkin AP, ... Zhou J, et al. Dynamic Succession of Groundwater Functional Microbial Communities in Response to Emulsified Vegetable Oil Amendment during Sustained In Situ U(VI) Reduction. Applied and Environmental Microbiology. 81: 4164-72. PMID 25862231 DOI: 10.1128/Aem.00043-15  0.578
2015 Liang Y, Wu L, Clark IM, Xue K, Yang Y, Van Nostrand JD, Deng Y, He Z, McGrath S, Storkey J, Hirsch PR, Sun B, Zhou J. Over 150 years of long-term fertilization alters spatial scaling of microbial biodiversity. Mbio. 6. PMID 25852161 DOI: 10.1128/Mbio.00240-15  0.446
2015 Dopheide A, Lear G, He Z, Zhou J, Lewis GD. Functional gene composition, diversity and redundancy in microbial stream biofilm communities. Plos One. 10: e0123179. PMID 25849814 DOI: 10.1371/Journal.Pone.0123179  0.418
2015 Zhang P, Van Nostrand JD, He Z, Chakraborty R, Deng Y, Curtis D, Fields M, Hazen TC, Arkin AP, Zhou J. A slow-release substrate stimulates groundwater microbial communities for long-term in-situ Cr(VI) reduction. Environmental Science & Technology. PMID 25835088 DOI: 10.1021/Acs.Est.5B00024  0.425
2015 Xiong J, He Z, Shi S, Kent A, Deng Y, Wu L, Van Nostrand JD, Zhou J. Elevated CO2 shifts the functional structure and metabolic potentials of soil microbial communities in a C4 agroecosystem. Scientific Reports. 5: 9316. PMID 25791904 DOI: 10.1038/Srep09316  0.52
2015 Azarbad H, Nikli?ska M, Laskowski R, van Straalen NM, van Gestel CA, Zhou J, He Z, Wen C, Röling WF. Microbial community composition and functions are resilient to metal pollution along two forest soil gradients. Fems Microbiology Ecology. 91: 1-11. PMID 25764529 DOI: 10.1093/Femsec/Fiu003  0.439
2015 Qu Y, Ma Q, Deng J, Shen W, Zhang X, He Z, Van Nostrand JD, Zhou J, Zhou J. Responses of microbial communities to single-walled carbon nanotubes in phenol wastewater treatment systems. Environmental Science & Technology. 49: 4627-35. PMID 25751159 DOI: 10.1021/Es5053045  0.512
2015 Yan Q, Bi Y, Deng Y, He Z, Wu L, Van Nostrand JD, Shi Z, Li J, Wang X, Hu Z, Yu Y, Zhou J. Impacts of the Three Gorges Dam on microbial structure and potential function. Scientific Reports. 5: 8605. PMID 25721383 DOI: 10.1038/Srep08605  0.468
2015 Yue H, Wang M, Wang S, Gilbert JA, Sun X, Wu L, Lin Q, Hu Y, Li X, He Z, Zhou J, Yang Y. The microbe-mediated mechanisms affecting topsoil carbon stock in Tibetan grasslands. The Isme Journal. PMID 25689025 DOI: 10.1038/Ismej.2015.19  0.499
2015 Yang C, Li Y, Zhou B, Zhou Y, Zheng W, Tian Y, Van Nostrand JD, Wu L, He Z, Zhou J, Zheng T. Illumina sequencing-based analysis of free-living bacterial community dynamics during an Akashiwo sanguine bloom in Xiamen sea, China. Scientific Reports. 5: 8476. PMID 25684124 DOI: 10.1038/Srep08476  0.441
2015 Zhou J, He Z, Yang Y, Deng Y, Tringe SG, Alvarez-Cohen L. High-throughput metagenomic technologies for complex microbial community analysis: open and closed formats. Mbio. 6. PMID 25626903 DOI: 10.1128/Mbio.02288-14  0.426
2015 Lin J, Chen J, He J, Chen J, Yan Q, Zhou J, Xie P. Effects of microcystin-LR on bacterial and fungal functional genes profile in rat gut. Toxicon : Official Journal of the International Society On Toxinology. 96: 50-6. PMID 25617596 DOI: 10.1016/J.Toxicon.2015.01.011  0.422
2015 Tu Q, Yuan M, He Z, Deng Y, Xue K, Wu L, Hobbie SE, Reich PB, Zhou J. Fungal communities respond to long-term CO2 elevation by community reassembly. Applied and Environmental Microbiology. 81: 2445-54. PMID 25616796 DOI: 10.1128/Aem.04040-14  0.469
2015 Ding J, Zhang Y, Deng Y, Cong J, Lu H, Sun X, Yang C, Yuan T, Van Nostrand JD, Li D, Zhou J, Yang Y. Integrated metagenomics and network analysis of soil microbial community of the forest timberline. Scientific Reports. 5: 7994. PMID 25613225 DOI: 10.1038/Srep07994  0.528
2015 Ma J, Deng Y, Yuan T, Zhou J, Alvarez PJ. Succession of microbial functional communities in response to a pilot-scale ethanol-blended fuel release throughout the plume life cycle. Environmental Pollution (Barking, Essex : 1987). 198: 154-60. PMID 25603154 DOI: 10.1016/J.Envpol.2015.01.005  0.383
2015 Saxena G, Marzinelli EM, Naing NN, He Z, Liang Y, Tom L, Mitra S, Ping H, Joshi UM, Reuben S, Mynampati KC, Mishra S, Umashankar S, Zhou J, Andersen GL, et al. Ecogenomics reveals metals and land-use pressures on microbial communities in the waterways of a megacity. Environmental Science & Technology. 49: 1462-71. PMID 25564876 DOI: 10.1021/Es504531S  0.406
2015 Deng J, Gu Y, Zhang J, Xue K, Qin Y, Yuan M, Yin H, He Z, Wu L, Schuur EA, Tiedje JM, Zhou J. Shifts of tundra bacterial and archaeal communities along a permafrost thaw gradient in Alaska. Molecular Ecology. 24: 222-34. PMID 25424441 DOI: 10.1111/Mec.13015  0.7
2015 Su JQ, Ding LJ, Xue K, Yao HY, Quensen J, Bai SJ, Wei WX, Wu JS, Zhou J, Tiedje JM, Zhu YG. Long-term balanced fertilization increases the soil microbial functional diversity in a phosphorus-limited paddy soil. Molecular Ecology. 24: 136-50. PMID 25410123 DOI: 10.1111/Mec.13010  0.623
2015 Macdonald CA, Crawley MJ, Wright DJ, Kuczynski J, Robinson L, Knight R, Al-Soud WA, Sørensen SJ, Deng Y, Zhou J, Singh BK. Identifying qualitative effects of different grazing types on below-ground communities and function in a long-term field experiment. Environmental Microbiology. 17: 841-54. PMID 24935069 DOI: 10.1111/1462-2920.12539  0.485
2015 Liu S, Wang F, Xue K, Sun B, Zhang Y, He Z, Van Nostrand JD, Zhou J, Yang Y. The interactive effects of soil transplant into colder regions and cropping on soil microbiology and biogeochemistry. Environmental Microbiology. 17: 566-76. PMID 24548455 DOI: 10.1111/1462-2920.12398  0.457
2015 Wood SA, Bradford MA, Gilbert JA, Mcguire KL, Palm CA, Tully KL, Zhou J, Naeem S. Agricultural intensification and the functional capacity of soil microbes on smallholder African farms Journal of Applied Ecology. 52: 744-752. DOI: 10.1111/1365-2664.12416  0.496
2015 Trivedi P, Rochester IJ, Trivedi C, Van Nostrand JD, Zhou J, Karunaratne S, Anderson IC, Singh BK. Soil aggregate size mediates the impacts of cropping regimes on soil carbon and microbial communities Soil Biology and Biochemistry. 91: 169-181. DOI: 10.1016/J.Soilbio.2015.08.034  0.491
2015 Shi Y, Grogan P, Sun H, Xiong J, Yang Y, Zhou J, Chu H. Multi-scale variability analysis reveals the importance of spatial distance in shaping Arctic soil microbial functional communities Soil Biology and Biochemistry. 86: 126-134. DOI: 10.1016/J.Soilbio.2015.03.028  0.458
2015 Liang J, Li D, Shi Z, Tiedje JM, Zhou J, Schuur EAG, Konstantinidis KT, Luo Y. Methods for estimating temperature sensitivity of soil organic matter based on incubation data: A comparative evaluation Soil Biology and Biochemistry. 80: 127-135. DOI: 10.1016/J.Soilbio.2014.10.005  0.62
2015 Zhang Z, Wang H, Zhou J, Li H, He Z, Nostrand JDV, Wang Z, Xu X. Redox potential and microbial functional gene diversity in wetland sediments under simulated warming conditions: implications for phosphorus mobilization Hydrobiologia. 743: 221-235. DOI: 10.1007/S10750-014-2039-6  0.427
2015 Wei STS, Fernandez-Martinez MA, Chan Y, Van Nostrand JD, de los Rios-Murillo A, Chiu JMY, Ganeshram AM, Cary SC, Zhou J, Pointing SB. Diverse metabolic and stress-tolerance pathways in chasmoendolithic and soil communities of Miers Valley, McMurdo Dry Valleys, Antarctica Polar Biology. 38: 433-443. DOI: 10.1007/S00300-014-1598-3  0.502
2014 Zhao M, Wang F, Liu S, Xue K, Liang Y, Bai S, He Z, Van Nostrand JD, Zhou J, Yang Y, Sun B. GeoChip profiling of microbial community in response to global changes simulated by soil transplant and cropping. Genomics Data. 2: 166-9. PMID 26484087 DOI: 10.1016/J.Gdata.2014.06.002  0.436
2014 Gao Y, Wang S, Xu D, Yu H, Wu L, Lin Q, Hu Y, Li X, He Z, Deng Y, Zhou J, Yang Y. GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient. Genomics Data. 2: 132-4. PMID 26484083 DOI: 10.1016/J.Gdata.2014.06.003  0.526
2014 Jia X, Zhou X, Luo Y, Xue K, Xue X, Xu X, Yang Y, Wu L, Zhou J. Effects of substrate addition on soil respiratory carbon release under long-term warming and clipping in a tallgrass prairie. Plos One. 9: e114203. PMID 25490701 DOI: 10.1371/Journal.Pone.0114203  0.428
2014 Zhao J, Zuo J, Wang X, Lin J, Yang Y, Zhou J, Chu H, Li P. GeoChip-based analysis of microbial community of a combined nitritation-anammox reactor treating anaerobic digestion supernatant. Water Research. 67: 345-54. PMID 25459223 DOI: 10.1016/J.Watres.2014.09.029  0.476
2014 Li X, Rui J, Xiong J, Li J, He Z, Zhou J, Yannarell AC, Mackie RI. Functional potential of soil microbial communities in the maize rhizosphere. Plos One. 9: e112609. PMID 25383887 DOI: 10.1371/Journal.Pone.0112609  0.545
2014 Hillesland KL, Lim S, Flowers JJ, Turkarslan S, Pinel N, Zane GM, Elliott N, Qin Y, Wu L, Baliga NS, Zhou J, Wall JD, Stahl DA. Erosion of functional independence early in the evolution of a microbial mutualism. Proceedings of the National Academy of Sciences of the United States of America. 111: 14822-7. PMID 25267659 DOI: 10.1073/Pnas.1407986111  0.326
2014 Wang C, Wang X, Liu D, Wu H, Lü X, Fang Y, Cheng W, Luo W, Jiang P, Shi J, Yin H, Zhou J, Han X, Bai E. Aridity threshold in controlling ecosystem nitrogen cycling in arid and semi-arid grasslands. Nature Communications. 5: 4799. PMID 25185641 DOI: 10.1038/Ncomms5799  0.35
2014 Chen Y, Qin N, Guo J, Qian G, Fang D, Shi D, Xu M, Yang F, He Z, Van Nostrand JD, Yuan T, Deng Y, Zhou J, Li L. Functional gene arrays-based analysis of fecal microbiomes in patients with liver cirrhosis. Bmc Genomics. 15: 753. PMID 25179593 DOI: 10.1186/1471-2164-15-753  0.351
2014 Kuramae EE, Zhou JZ, Kowalchuk GA, Van Veen JA. Soil-borne microbial functional structure across different land uses Scientific World Journal. 2014. PMID 25177716 DOI: 10.1155/2014/216071  0.425
2014 Zhang Y, Cong J, Lu H, Li G, Qu Y, Su X, Zhou J, Li D. Community structure and elevational diversity patterns of soil Acidobacteria. Journal of Environmental Sciences (China). 26: 1717-24. PMID 25108728 DOI: 10.1016/J.Jes.2014.06.012  0.477
2014 Vigneron A, Cruaud P, Roussel EG, Pignet P, Caprais JC, Callac N, Ciobanu MC, Godfroy A, Cragg BA, Parkes JR, Van Nostrand JD, He Z, Zhou J, Toffin L. Phylogenetic and functional diversity of microbial communities associated with subsurface sediments of the Sonora Margin, Guaymas Basin. Plos One. 9: e104427. PMID 25099369 DOI: 10.1371/Journal.Pone.0104427  0.445
2014 Yu H, Chen C, Ma J, Liu W, Zhou J, Lee DJ, Ren N, Wang A. GeoChip-based analysis of the microbial community functional structures in simultaneous desulfurization and denitrification process. Journal of Environmental Sciences (China). 26: 1375-82. PMID 25079984 DOI: 10.1016/J.Jes.2014.05.001  0.402
2014 Chu H, Wang S, Yue H, Lin Q, Hu Y, Li X, Zhou J, Yang Y. Contrasting soil microbial community functional structures in two major landscapes of the Tibetan alpine meadow. Microbiologyopen. 3: 585-94. PMID 25044404 DOI: 10.1002/mbo3.190  0.431
2014 Xu XJ, Chen C, Wang AJ, Yu H, Zhou X, Guo HL, Yuan Y, Lee DJ, Zhou J, Ren NQ. Bioreactor performance and functional gene analysis of microbial community in a limited-oxygen fed bioreactor for co-reduction of sulfate and nitrate with high organic input. Journal of Hazardous Materials. 278: 250-7. PMID 24981676 DOI: 10.1016/J.Jhazmat.2014.06.006  0.383
2014 Kappell AD, Wei Y, Newton RJ, Van Nostrand JD, Zhou J, McLellan SL, Hristova KR. The polycyclic aromatic hydrocarbon degradation potential of Gulf of Mexico native coastal microbial communities after the Deepwater Horizon oil spill. Frontiers in Microbiology. 5: 205. PMID 24847320 DOI: 10.3389/Fmicb.2014.00205  0.378
2014 Xia Y, Wang X, Wen X, Ding K, Zhou J, Yang Y, Zhang Y. Overall functional gene diversity of microbial communities in three full-scale activated sludge bioreactors. Applied Microbiology and Biotechnology. 98: 7233-42. PMID 24816624 DOI: 10.1007/S00253-014-5791-7  0.456
2014 Paula FS, Rodrigues JL, Zhou J, Wu L, Mueller RC, Mirza BS, Bohannan BJ, Nüsslein K, Deng Y, Tiedje JM, Pellizari VH. Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities. Molecular Ecology. 23: 2988-99. PMID 24806276 DOI: 10.1111/Mec.12786  0.717
2014 Liang Y, Zhao H, Zhang X, Zhou J, Li G. Contrasting microbial functional genes in two distinct saline-alkali and slightly acidic oil-contaminated sites. The Science of the Total Environment. 487: 272-8. PMID 24784752 DOI: 10.1016/J.Scitotenv.2014.04.032  0.475
2014 Zhang Y, Cong J, Lu H, Yang C, Yang Y, Zhou J, Li D. An integrated study to analyze soil microbial community structure and metabolic potential in two forest types. Plos One. 9: e93773. PMID 24743581 DOI: 10.1371/Journal.Pone.0093773  0.53
2014 Zhao M, Xue K, Wang F, Liu S, Bai S, Sun B, Zhou J, Yang Y. Microbial mediation of biogeochemical cycles revealed by simulation of global changes with soil transplant and cropping. The Isme Journal. 8: 2045-55. PMID 24694714 DOI: 10.1038/Ismej.2014.46  0.472
2014 Wakelin S, Gerard E, Black A, Hamonts K, Condron L, Yuan T, van Nostrand J, Zhou J, O'Callaghan M. Mechanisms of pollution induced community tolerance in a soil microbial community exposed to Cu. Environmental Pollution (Barking, Essex : 1987). 190: 1-9. PMID 24686114 DOI: 10.1016/J.Envpol.2014.03.008  0.385
2014 Sun Y, Shen YX, Liang P, Zhou J, Yang Y, Huang X. Linkages between microbial functional potential and wastewater constituents in large-scale membrane bioreactors for municipal wastewater treatment. Water Research. 56: 162-71. PMID 24675272 DOI: 10.1016/J.Watres.2014.03.003  0.454
2014 Wang X, Xia Y, Wen X, Yang Y, Zhou J. Microbial community functional structures in wastewater treatment plants as characterized by GeoChip. Plos One. 9: e93422. PMID 24671164 DOI: 10.1371/Journal.Pone.0093422  0.464
2014 Xu M, Zhang Q, Xia C, Zhong Y, Sun G, Guo J, Yuan T, Zhou J, He Z. Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments. The Isme Journal. 8: 1932-44. PMID 24671084 DOI: 10.1038/Ismej.2014.42  0.442
2014 Li Y, He J, He Z, Zhou Y, Yuan M, Xu X, Sun F, Liu C, Li J, Xie W, Deng Y, Qin Y, VanNostrand JD, Xiao L, Wu L, ... Zhou J, et al. Phylogenetic and functional gene structure shifts of the oral microbiomes in periodontitis patients. The Isme Journal. 8: 1879-91. PMID 24671083 DOI: 10.1038/Ismej.2014.28  0.393
2014 Diaz MR, Van Norstrand JD, Eberli GP, Piggot AM, Zhou J, Klaus JS. Functional gene diversity of oolitic sands from Great Bahama Bank. Geobiology. 12: 231-49. PMID 24612324 DOI: 10.1111/Gbi.12079  0.467
2014 Tu Q, He Z, Li Y, Chen Y, Deng Y, Lin L, Hemme CL, Yuan T, Van Nostrand JD, Wu L, Zhou X, Shi W, Li L, Xu J, Zhou J. Development of HuMiChip for functional profiling of human microbiomes. Plos One. 9: e90546. PMID 24595026 DOI: 10.1371/Journal.Pone.0090546  0.385
2014 Liang B, Cheng H, Van Nostrand JD, Ma J, Yu H, Kong D, Liu W, Ren N, Wu L, Wang A, Lee DJ, Zhou J. Microbial community structure and function of nitrobenzene reduction biocathode in response to carbon source switchover. Water Research. 54: 137-48. PMID 24565804 DOI: 10.1016/J.Watres.2014.01.052  0.414
2014 Li Y, Xu T, Tschaplinski TJ, Engle NL, Yang Y, Graham DE, He Z, Zhou J. Improvement of cellulose catabolism in Clostridium cellulolyticum by sporulation abolishment and carbon alleviation. Biotechnology For Biofuels. 7: 25. PMID 24555718 DOI: 10.1186/1754-6834-7-25  0.308
2014 Zhou J, Deng Y, Zhang P, Xue K, Liang Y, Van Nostrand JD, Yang Y, He Z, Wu L, Stahl DA, Hazen TC, Tiedje JM, Arkin AP. Stochasticity, succession, and environmental perturbations in a fluidic ecosystem. Proceedings of the National Academy of Sciences of the United States of America. 111: E836-45. PMID 24550501 DOI: 10.1073/Pnas.1324044111  0.544
2014 Yang F, Ning K, Chang X, Yuan X, Tu Q, Yuan T, Deng Y, Hemme CL, Van Nostrand J, Cui X, He Z, Chen Z, Guo D, Yu J, Zhang Y, ... Zhou J, et al. Saliva microbiota carry caries-specific functional gene signatures. Plos One. 9: e76458. PMID 24533043 DOI: 10.1371/Journal.Pone.0076458  0.383
2014 Tu Q, He Z, Zhou J. Strain/species identification in metagenomes using genome-specific markers. Nucleic Acids Research. 42: e67. PMID 24523352 DOI: 10.1093/Nar/Gku138  0.317
2014 Tu Q, Yu H, He Z, Deng Y, Wu L, Van Nostrand JD, Zhou A, Voordeckers J, Lee YJ, Qin Y, Hemme CL, Shi Z, Xue K, Yuan T, Wang A, ... Zhou J, et al. GeoChip 4: a functional gene-array-based high-throughput environmental technology for microbial community analysis. Molecular Ecology Resources. 14: 914-28. PMID 24520909 DOI: 10.1111/1755-0998.12239  0.508
2014 Singh BK, Quince C, Macdonald CA, Khachane A, Thomas N, Al-Soud WA, Sørensen SJ, He Z, White D, Sinclair A, Crooks B, Zhou J, Campbell CD. Loss of microbial diversity in soils is coincident with reductions in some specialized functions. Environmental Microbiology. 16: 2408-20. PMID 24422656 DOI: 10.1111/1462-2920.12353  0.446
2014 Luo C, Rodriguez-R LM, Johnston ER, Wu L, Cheng L, Xue K, Tu Q, Deng Y, He Z, Shi JZ, Yuan MM, Sherry RA, Li D, Luo Y, Schuur EA, ... ... Zhou J, et al. Soil microbial community responses to a decade of warming as revealed by comparative metagenomics. Applied and Environmental Microbiology. 80: 1777-86. PMID 24375144 DOI: 10.1128/Aem.03712-13  0.792
2014 Antony-Babu S, Deveau A, Van Nostrand JD, Zhou J, Le Tacon F, Robin C, Frey-Klett P, Uroz S. Black truffle-associated bacterial communities during the development and maturation of Tuber melanosporum ascocarps and putative functional roles. Environmental Microbiology. 16: 2831-47. PMID 24118660 DOI: 10.1111/1462-2920.12294  0.457
2014 He Z, Xiong J, Kent AD, Deng Y, Xue K, Wang G, Wu L, Van Nostrand JD, Zhou J. Distinct responses of soil microbial communities to elevated CO2 and O3 in a soybean agro-ecosystem. The Isme Journal. 8: 714-26. PMID 24108327 DOI: 10.1038/Ismej.2013.177  0.511
2014 Yang Y, Gao Y, Wang S, Xu D, Yu H, Wu L, Lin Q, Hu Y, Li X, He Z, Deng Y, Zhou J. The microbial gene diversity along an elevation gradient of the Tibetan grassland. The Isme Journal. 8: 430-40. PMID 23985745 DOI: 10.1038/Ismej.2013.146  0.541
2014 Zimmerman N, Izard J, Klatt C, Zhou J, Aronson E. The unseen world: Environmental microbial sequencing and identification methods for ecologists Frontiers in Ecology and the Environment. 12: 224-231. DOI: 10.1890/130055  0.372
2014 Wang F, Zhou J, Sun B. Structure of functional ecological networks of soil microbial communities for nitrogen transformations and their response to cropping in major soils in eastern China Chinese Science Bulletin. 59: 387-396. DOI: 10.1360/972013-751  0.497
2014 Varrone C, Nostrand JDV, Liu W, Zhou B, Wang Z, Liu F, He Z, Wu L, Zhou J, Wang A. Metagenomic-based analysis of biofilm communities for electrohydrogenesis: From wastewater to hydrogen International Journal of Hydrogen Energy. 39: 4222-4233. DOI: 10.1016/J.Ijhydene.2014.01.001  0.399
2014 Nostrand JDV, Zhou J. Chapter 1 - Applications of Functional Gene Microarrays for Profiling Microbial Communities Comprehensive Analytical Chemistry. 64. DOI: 10.1016/B978-0-444-62650-9.00001-4  0.42
2014 Leigh MB, Wu WM, Cardenas E, Uhlik O, Carroll S, Gentry T, Marsh TL, Zhou J, Jardine P, Criddle CS, Tiedje JM. Microbial communities biostimulated by ethanol during uranium (VI) bioremediation in contaminated sediment as shown by stable isotope probing Frontiers of Environmental Science & Engineering. DOI: 10.1007/S11783-014-0721-6  0.502
2013 Somenahally AC, Mosher JJ, Yuan T, Podar M, Phelps TJ, Brown SD, Yang ZK, Hazen TC, Arkin AP, Palumbo AV, Van Nostrand JD, Zhou J, Elias DA. Hexavalent chromium reduction under fermentative conditions with lactate stimulated native microbial communities. Plos One. 8: e83909. PMID 24376771 DOI: 10.1371/Journal.Pone.0083909  0.322
2013 Xu M, Fang Y, Liu J, Chen X, Sun G, Guo J, Hua Z, Tu Q, Wu L, Zhou J, Liu X. Draft Genome Sequence of Shewanella decolorationis S12, a Dye-Degrading Bacterium Isolated from a Wastewater Treatment Plant. Genome Announcements. 1. PMID 24309738 DOI: 10.1128/Genomea.00993-13  0.306
2013 Penton CR, St Louis D, Cole JR, Luo Y, Wu L, Schuur EA, Zhou J, Tiedje JM. Fungal diversity in permafrost and tallgrass prairie soils under experimental warming conditions. Applied and Environmental Microbiology. 79: 7063-72. PMID 24014534 DOI: 10.1128/Aem.01702-13  0.788
2013 Zhang Y, Xie J, Liu M, Tian Z, He Z, van Nostrand JD, Ren L, Zhou J, Yang M. Microbial community functional structure in response to antibiotics in pharmaceutical wastewater treatment systems. Water Research. 47: 6298-308. PMID 23981791 DOI: 10.1016/J.Watres.2013.08.003  0.428
2013 Yang Y, Xu M, He Z, Guo J, Sun G, Zhou J. Microbial electricity generation enhances decabromodiphenyl ether (BDE-209) degradation. Plos One. 8: e70686. PMID 23940625 DOI: 10.1371/Journal.Pone.0070686  0.435
2013 Li M, Mathieu J, Yang Y, Fiorenza S, Deng Y, He Z, Zhou J, Alvarez PJ. Widespread distribution of soluble di-iron monooxygenase (SDIMO) genes in Arctic groundwater impacted by 1,4-dioxane. Environmental Science & Technology. 47: 9950-8. PMID 23909410 DOI: 10.1021/Es402228X  0.382
2013 Zhou A, He Z, Qin Y, Lu Z, Deng Y, Tu Q, Hemme CL, Van Nostrand JD, Wu L, Hazen TC, Arkin AP, Zhou J. StressChip as a high-throughput tool for assessing microbial community responses to environmental stresses. Environmental Science & Technology. 47: 9841-9. PMID 23889170 DOI: 10.1021/Es4018656  0.432
2013 Qiu D, Wei H, Tu Q, Yang Y, Xie M, Chen J, Pinkerton MH, Liang Y, He Z, Zhou J. Combined genomics and experimental analyses of respiratory characteristics of Shewanella putrefaciens W3-18-1. Applied and Environmental Microbiology. 79: 5250-7. PMID 23811511 DOI: 10.1128/Aem.00619-13  0.362
2013 Lee YJ, van Nostrand JD, Tu Q, Lu Z, Cheng L, Yuan T, Deng Y, Carter MQ, He Z, Wu L, Yang F, Xu J, Zhou J. The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities. The Isme Journal. 7: 1974-84. PMID 23765101 DOI: 10.1038/Ismej.2013.88  0.472
2013 Zhou J, Jiang YH, Deng Y, Shi Z, Zhou BY, Xue K, Wu L, He Z, Yang Y. Random sampling process leads to overestimation of β-diversity of microbial communities. Mbio. 4: e00324-13. PMID 23760464 DOI: 10.1128/Mbio.00324-13  0.379
2013 Zhao FJ, Harris E, Yan J, Ma J, Wu L, Liu W, McGrath SP, Zhou J, Zhu YG. Arsenic methylation in soils and its relationship with microbial arsM abundance and diversity, and as speciation in rice. Environmental Science & Technology. 47: 7147-54. PMID 23750559 DOI: 10.1021/Es304977M  0.431
2013 Xu M, He Z, Deng Y, Wu L, van Nostrand JD, Hobbie SE, Reich PB, Zhou J. Elevated CO₂ influences microbial carbon and nitrogen cycling. Bmc Microbiology. 13: 124. PMID 23718284 DOI: 10.1186/1471-2180-13-124  0.495
2013 Kang S, Van Nostrand JD, Gough HL, He Z, Hazen TC, Stahl DA, Zhou J. Functional gene array-based analysis of microbial communities in heavy metals-contaminated lake sediments. Fems Microbiology Ecology. 86: 200-14. PMID 23710534 DOI: 10.1111/1574-6941.12152  0.405
2013 Siering PL, Wolfe GV, Wilson MS, Yip AN, Carey CM, Wardman CD, Shapiro RS, Stedman KM, Kyle J, Yuan T, Van Nostrand JD, He Z, Zhou J. Microbial biogeochemistry of Boiling Springs Lake: a physically dynamic, oligotrophic, low-pH geothermal ecosystem. Geobiology. 11: 356-76. PMID 23679065 DOI: 10.1111/Gbi.12041  0.437
2013 Chan Y, Van Nostrand JD, Zhou J, Pointing SB, Farrell RL. Functional ecology of an Antarctic Dry Valley. Proceedings of the National Academy of Sciences of the United States of America. 110: 8990-5. PMID 23671121 DOI: 10.1073/Pnas.1300643110  0.52
2013 Zhang Y, Lu Z, Liu S, Yang Y, He Z, Ren Z, Zhou J, Li D. Geochip-based analysis of microbial communities in alpine meadow soils in the Qinghai-Tibetan plateau. Bmc Microbiology. 13: 72. PMID 23537200 DOI: 10.1186/1471-2180-13-72  0.557
2013 Yang Y, Wu L, Lin Q, Yuan M, Xu D, Yu H, Hu Y, Duan J, Li X, He Z, Xue K, van Nostrand J, Wang S, Zhou J. Responses of the functional structure of soil microbial community to livestock grazing in the Tibetan alpine grassland. Global Change Biology. 19: 637-48. PMID 23504798 DOI: 10.1111/Gcb.12065  0.532
2013 Zhou J, Liu W, Deng Y, Jiang YH, Xue K, He Z, Van Nostrand JD, Wu L, Yang Y, Wang A. Stochastic assembly leads to alternative communities with distinct functions in a bioreactor microbial community. Mbio. 4. PMID 23462114 DOI: 10.1128/Mbio.00584-12  0.417
2013 Xue K, Wu L, Deng Y, He Z, Van Nostrand J, Robertson PG, Schmidt TM, Zhou J. Functional gene differences in soil microbial communities from conventional, low-input, and organic farmlands. Applied and Environmental Microbiology. 79: 1284-92. PMID 23241975 DOI: 10.1128/Aem.03393-12  0.517
2013 Eisenlord SD, Freedman Z, Zak DR, Xue K, He Z, Zhou J. Microbial mechanisms mediating increased soil C storage under elevated atmospheric N deposition. Applied and Environmental Microbiology. 79: 1191-9. PMID 23220961 DOI: 10.1128/Aem.03156-12  0.482
2013 Li X, Deng Y, Li Q, Lu C, Wang J, Zhang H, Zhu J, Zhou J, He Z. Shifts of functional gene representation in wheat rhizosphere microbial communities under elevated ozone Isme Journal. 7: 660-671. PMID 23151639 DOI: 10.1038/Ismej.2012.120  0.501
2013 Bai S, Li J, He Z, Van Nostrand JD, Tian Y, Lin G, Zhou J, Zheng T. GeoChip-based analysis of the functional gene diversity and metabolic potential of soil microbial communities of mangroves. Applied Microbiology and Biotechnology. 97: 7035-48. PMID 23135227 DOI: 10.1007/S00253-012-4496-Z  0.518
2013 Lu Z, He Z, Parisi VA, Kang S, Deng Y, Van Nostrand JD, Masoner JR, Cozzarelli IM, Suflita JM, Zhou J. Correction to GeoChip-Based Analysis of Microbial Functional Gene Diversity in a Landfill Leachate-Contaminated Aquifer Environmental Science & Technology. 47: 2142-2142. DOI: 10.1021/Es400403E  0.433
2013 Freedman Z, Eisenlord SD, Zak DR, Xue K, He Z, Zhou J. Towards a molecular understanding of N cycling in northern hardwood forests under future rates of N deposition Soil Biology and Biochemistry. 66: 130-138. DOI: 10.1016/J.Soilbio.2013.07.010  0.438
2013 Li D, Schädel C, Haddix ML, Paul EA, Conant R, Li J, Zhou J, Luo Y. Differential responses of soil organic carbon fractions to warming: Results from an analysis with data assimilation Soil Biology and Biochemistry. 67: 24-30. DOI: 10.1016/J.Soilbio.2013.07.008  0.374
2013 Sul WJ, Asuming-Brempong S, Wang Q, Tourlousse DM, Penton CR, Deng Y, Rodrigues JLM, Adiku SGK, Jones JW, Zhou J, Cole JR, Tiedje JM. Tropical agricultural land management influences on soil microbial communities through its effect on soil organic carbon Soil Biology and Biochemistry. 65: 33-38. DOI: 10.1016/J.Soilbio.2013.05.007  0.83
2013 Wakelin SA, Barratt BIP, Gerard E, Gregg AL, Brodie EL, Andersen GL, DeSantis TZ, Zhou J, He Z, Kowalchuk GA, O'Callaghan M. Shifts in the phylogenetic structure and functional capacity of soil microbial communities follow alteration of native tussock grassland ecosystems Soil Biology & Biochemistry. 57: 675-682. DOI: 10.1016/J.Soilbio.2012.07.003  0.505
2012 Xiong J, He Z, Van Nostrand JD, Luo G, Tu S, Zhou J, Wang G. Assessing the microbial community and functional genes in a vertical soil profile with long-term arsenic contamination. Plos One. 7: e50507. PMID 23226297 DOI: 10.1371/Journal.Pone.0050507  0.528
2012 Nostrand JDV, He Z, Zhou J. Use of functional gene arrays for elucidating in situ biodegradation. Frontiers in Microbiology. 3: 339-339. PMID 23049526 DOI: 10.3389/Fmicb.2012.00339  0.449
2012 Carter MQ, Xue K, Brandl MT, Liu F, Wu L, Louie JW, Mandrell RE, Zhou J. Functional Metagenomics of Escherichia coli O157:H7 Interactions with Spinach Indigenous Microorganisms during Biofilm Formation Plos One. 7. PMID 22957052 DOI: 10.1371/Journal.Pone.0044186  0.377
2012 Wang H, He Z, Lu Z, Zhou J, Van Nostrand JD, Xu X, Zhang Z. Genetic linkage of soil carbon pools and microbial functions in subtropical freshwater wetlands in response to experimental warming. Applied and Environmental Microbiology. 78: 7652-61. PMID 22923398 DOI: 10.1128/Aem.01602-12  0.473
2012 Rajeev L, Hillesland KL, Zane GM, Zhou A, Joachimiak MP, He Z, Zhou J, Arkin AP, Wall JD, Stahl DA. Deletion of the Desulfovibrio vulgaris carbon monoxide sensor invokes global changes in transcription. Journal of Bacteriology. 194: 5783-93. PMID 22904289 DOI: 10.1128/Jb.00749-12  0.319
2012 Beazley MJ, Martinez RJ, Rajan S, Powell J, Piceno YM, Tom LM, Andersen GL, Hazen TC, Van Nostrand JD, Zhou J, Mortazavi B, Sobecky PA. Microbial community analysis of a coastal salt marsh affected by the Deepwater Horizon oil spill. Plos One. 7: e41305. PMID 22815990 DOI: 10.1371/Journal.Pone.0041305  0.417
2012 Walker CB, Redding-Johanson AM, Baidoo EE, Rajeev L, He Z, Hendrickson EL, Joachimiak MP, Stolyar S, Arkin AP, Leigh JA, Zhou J, Keasling JD, Mukhopadhyay A, Stahl DA. Functional responses of methanogenic archaea to syntrophic growth. The Isme Journal. 6: 2045-55. PMID 22739494 DOI: 10.1038/Ismej.2012.60  0.334
2012 Mason OU, Hazen TC, Borglin S, Chain PS, Dubinsky EA, Fortney JL, Han J, Holman HY, Hultman J, Lamendella R, Mackelprang R, Malfatti S, Tom LM, Tringe SG, Woyke T, ... Zhou J, et al. Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill. The Isme Journal. 6: 1715-27. PMID 22717885 DOI: 10.1038/Ismej.2012.59  0.715
2012 Reith F, Brugger J, Zammit CM, Gregg AL, Goldfarb KC, Andersen GL, DeSantis TZ, Piceno YM, Brodie EL, Lu Z, He Z, Zhou J, Wakelin SA. Influence of geogenic factors on microbial communities in metallogenic Australian soils. The Isme Journal. 6: 2107-2118. PMID 22673626 DOI: 10.1038/Ismej.2012.48  0.491
2012 Deng Y, Jiang YH, Yang Y, He Z, Luo F, Zhou J. Molecular ecological network analyses. Bmc Bioinformatics. 13: 113. PMID 22646978 DOI: 10.1186/1471-2105-13-113  0.41
2012 Dassa B, Borovok I, Lamed R, Henrissat B, Coutinho P, Hemme CL, Huang Y, Zhou J, Bayer EA. Genome-wide analysis of acetivibrio cellulolyticus provides a blueprint of an elaborate cellulosome system Bmc Genomics. 13. PMID 22646801 DOI: 10.1186/1471-2164-13-210  0.335
2012 Ding GC, Heuer H, He Z, Xie J, Zhou J, Smalla K. More functional genes and convergent overall functional patterns detected by geochip in phenanthrene-spiked soils Fems Microbiology Ecology. 82: 148-156. PMID 22587620 DOI: 10.1111/J.1574-6941.2012.01413.X  0.502
2012 Lu Z, He Z, Parisi VA, Kang S, Deng Y, Van Nostrand JD, Masoner JR, Cozzarelli IM, Suflita JM, Zhou J. GeoChip-based analysis of microbial functional gene diversity in a landfill leachate-contaminated aquifer. Environmental Science & Technology. 46: 5824-33. PMID 22533634 DOI: 10.1021/Es300478J  0.472
2012 Liang Y, Van Nostrand JD, N'guessan LA, Peacock AD, Deng Y, Long PE, Resch CT, Wu L, He Z, Li G, Hazen TC, Lovley DR, Zhou J. Microbial functional gene diversity with a shift of subsurface redox conditions during In Situ uranium reduction. Applied and Environmental Microbiology. 78: 2966-72. PMID 22327592 DOI: 10.1128/Aem.06528-11  0.445
2012 Deng Y, He Z, Xu M, Qin Y, Van Nostrand JD, Wu L, Roe BA, Wiley G, Hobbie SE, Reich PB, Zhou J. Elevated carbon dioxide alters the structure of soil microbial communities. Applied and Environmental Microbiology. 78: 2991-5. PMID 22307288 DOI: 10.1128/Aem.06924-11  0.507
2012 He Z, Van Nostrand JD, Zhou J. Applications of functional gene microarrays for profiling microbial communities. Current Opinion in Biotechnology. 23: 460-6. PMID 22226464 DOI: 10.1016/J.Copbio.2011.12.021  0.483
2012 Wawrik B, Mendivelso M, Parisi VA, Suflita JM, Davidova IA, Marks CR, Van Nostrand JD, Liang Y, Zhou J, Huizinga BJ, StrÄ…poć D, Callaghan AV. Field and laboratory studies on the bioconversion of coal to methane in the San Juan Basin. Fems Microbiology Ecology. 81: 26-42. PMID 22146015 DOI: 10.1111/J.1574-6941.2011.01272.X  0.341
2012 He Z, Deng Y, Zhou J. Development of functional gene microarrays for microbial community analysis. Current Opinion in Biotechnology. 23: 49-55. PMID 22100036 DOI: 10.1016/J.Copbio.2011.11.001  0.487
2012 Lomax C, Liu WJ, Wu L, Xue K, Xiong J, Zhou J, McGrath SP, Meharg AA, Miller AJ, Zhao FJ. Methylated arsenic species in plants originate from soil microorganisms. The New Phytologist. 193: 665-72. PMID 22098145 DOI: 10.1111/J.1469-8137.2011.03956.X  0.357
2012 Wawrik B, Boling WB, Van Nostrand JD, Xie J, Zhou J, Bronk DA. Assimilatory nitrate utilization by bacteria on the West Florida Shelf as determined by stable isotope probing and functional microarray analysis. Fems Microbiology Ecology. 79: 400-11. PMID 22092701 DOI: 10.1111/J.1574-6941.2011.01226.X  0.384
2012 Liu W, Wang A, Sun D, Ren N, Zhang Y, Zhou J. Characterization of microbial communities during anode biofilm reformation in a two-chambered microbial electrolysis cell (MEC). Journal of Biotechnology. 157: 628-32. PMID 21939699 DOI: 10.1016/J.Jbiotec.2011.09.010  0.334
2012 Yergeau E, Bokhorst S, Kang S, Zhou J, Greer CW, Aerts R, Kowalchuk GA. Shifts in soil microorganisms in response to warming are consistent across a range of Antarctic environments Isme Journal. 6: 692-702. PMID 21938020 DOI: 10.1038/Ismej.2011.124  0.521
2012 Lu Z, Deng Y, Van Nostrand JD, He Z, Voordeckers J, Zhou A, Lee YJ, Mason OU, Dubinsky EA, Chavarria KL, Tom LM, Fortney JL, Lamendella R, Jansson JK, D'haeseleer P, ... ... Zhou J, et al. Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume. The Isme Journal. 6: 451-60. PMID 21814288 DOI: 10.1038/Ismej.2011.91  0.605
2012 Trivedi P, He Z, Van Nostrand JD, Albrigo G, Zhou J, Wang N. Huanglongbing alters the structure and functional diversity of microbial communities associated with citrus rhizosphere. The Isme Journal. 6: 363-83. PMID 21796220 DOI: 10.1038/Ismej.2011.100  0.43
2012 He Z, Piceno Y, Deng Y, Xu M, Lu Z, Desantis T, Andersen G, Hobbie SE, Reich PB, Zhou J. The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide. The Isme Journal. 6: 259-72. PMID 21796217 DOI: 10.1038/Ismej.2011.99  0.506
2012 Xu X, Niu S, Sherry RA, Zhou X, Zhou J, Luo Y. Interannual variability in responses of belowground net primary productivity (NPP) and NPP partitioning to long-term warming and clipping in a tallgrass prairie Global Change Biology. 18: 1648-1656. DOI: 10.1111/J.1365-2486.2012.02651.X  0.377
2012 Xu X, Luo Y, Zhou J. Carbon quality and the temperature sensitivity of soil organic carbon decomposition in a tallgrass prairie Soil Biology & Biochemistry. 50: 142-148. DOI: 10.1016/J.Soilbio.2012.03.007  0.403
2012 Xie J, Wu L, Nostrand JDv, He Z, Lü Z, Yu H, Xiong J, Liu X, Zhou J. Improvements on environmental DNA extraction and purification procedures for matagenomic analysis Journal of Central South University. 19: 3055-3063. DOI: 10.1007/S11771-012-1378-6  0.33
2012 Xu X, Sherry RA, Niu S, Zhou J, Luo Y. Long-term experimental warming decreased labile soil organic carbon in a tallgrass prairie Plant and Soil. 361: 307-315. DOI: 10.1007/S11104-012-1265-9  0.399
2012 Zhang Z, Zhao X, Liang Y, Li G, Zhou J. Microbial functional genes reveal selection of microbial community by PAHs in polluted soils Environmental Chemistry Letters. 11: 11-17. DOI: 10.1007/S10311-012-0370-6  0.504
2011 Zhou J, Deng Y, Luo F, He Z, Yang Y. Phylogenetic molecular ecological network of soil microbial communities in response to elevated CO2. Mbio. 2. PMID 21791581 DOI: 10.1128/Mbio.00122-11  0.42
2011 Zhou J, He Q, Hemme CL, Mukhopadhyay A, Hillesland K, Zhou A, He Z, Van Nostrand JD, Hazen TC, Stahl DA, Wall JD, Arkin AP. How sulphate-reducing microorganisms cope with stress: lessons from systems biology. Nature Reviews. Microbiology. 9: 452-66. PMID 21572460 DOI: 10.1038/Nrmicro2575  0.346
2011 Van Nostrand JD, Wu L, Wu WM, Huang Z, Gentry TJ, Deng Y, Carley J, Carroll S, He Z, Gu B, Luo J, Criddle CS, Watson DB, Jardine PM, Marsh TL, ... ... Zhou J, et al. Dynamics of microbial community composition and function during in situ bioremediation of a uranium-contaminated aquifer. Applied and Environmental Microbiology. 77: 3860-9. PMID 21498771 DOI: 10.1128/Aem.01981-10  0.523
2011 Wang J, Van Nostrand JD, Wu L, He Z, Li G, Zhou J. Microarray-based evaluation of whole-community genome DNA amplification methods. Applied and Environmental Microbiology. 77: 4241-5. PMID 21498751 DOI: 10.1128/Aem.01834-10  0.334
2011 Zhou J, Wu L, Deng Y, Zhi X, Jiang YH, Tu Q, Xie J, Van Nostrand JD, He Z, Yang Y. Reproducibility and quantitation of amplicon sequencing-based detection. The Isme Journal. 5: 1303-13. PMID 21346791 DOI: 10.1038/Ismej.2011.11  0.407
2011 Xie J, He Z, Liu X, Liu X, Van Nostrand JD, Deng Y, Wu L, Zhou J, Qiu G. GeoChip-based analysis of the functional gene diversity and metabolic potential of microbial communities in acid mine drainage. Applied and Environmental Microbiology. 77: 991-9. PMID 21097602 DOI: 10.1128/Aem.01798-10  0.48
2011 Liang Y, Van Nostrand JD, Deng Y, He Z, Wu L, Zhang X, Li G, Zhou J. Functional gene diversity of soil microbial communities from five oil-contaminated fields in China. The Isme Journal. 5: 403-13. PMID 20861922 DOI: 10.1038/Ismej.2010.142  0.399
2011 Zhou J, Xue K, Xie J, Deng Y, Wu L, Cheng X, Fei S, Deng S, He Z, Van Nostrand JD, Luo Y. Microbial mediation of carbon-cycle feedbacks to climate warming Nature Climate Change. 2: 106-110. DOI: 10.1038/Nclimate1331  0.348
2011 He Z, Nostrand JDV, Deng Y, Zhou J. Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities Frontiers of Environmental Science & Engineering in China. 5: 1-20. DOI: 10.1007/S11783-011-0301-Y  0.489
2011 Xie JP, Jiang HC, Liu XX, Liu XD, Zhou JZ, Qiu GZ. 16s rDNA based microbial diversity analysis of eleven acid mine drainages obtained from three Chinese copper mines Journal of Central South University of Technology (English Edition). 18: 1930-1939. DOI: 10.1007/S11771-011-0925-X  0.379
2010 Gao H, Barua S, Liang Y, Wu L, Dong Y, Reed S, Chen J, Culley D, Kennedy D, Yang Y, He Z, Nealson KH, Fredrickson JK, Tiedje JM, Romine M, ... Zhou J, et al. Impacts of Shewanella oneidensis c-type cytochromes on aerobic and anaerobic respiration. Microbial Biotechnology. 3: 455-66. PMID 21255343 DOI: 10.1111/J.1751-7915.2010.00181.X  0.465
2010 Mason OU, Nakagawa T, Rosner M, Van Nostrand JD, Zhou J, Maruyama A, Fisk MR, Giovannoni SJ. First investigation of the microbiology of the deepest layer of ocean crust. Plos One. 5: e15399. PMID 21079766 DOI: 10.1371/Journal.Pone.0015399  0.466
2010 Parnell JJ, Rompato G, Latta LC, Pfrender ME, Van Nostrand JD, He Z, Zhou J, Andersen G, Champine P, Ganesan B, Weimer BC. Functional biogeography as evidence of gene transfer in hypersaline microbial communities. Plos One. 5: e12919. PMID 20957119 DOI: 10.1371/Journal.Pone.0012919  0.673
2010 Zhou J, Deng Y, Luo F, He Z, Tu Q, Zhi X. Functional Molecular Ecological Networks Mbio. 1. PMID 20941329 DOI: 10.1128/Mbio.00169-10  0.437
2010 Epelde L, Becerril JM, Kowalchuk GA, Deng Y, Zhou J, Garbisu C. Impact of metal pollution and Thlaspi caerulescens growth on soil microbial communities. Applied and Environmental Microbiology. 76: 7843-53. PMID 20935131 DOI: 10.1128/Aem.01045-10  0.484
2010 Hemme CL, Mouttaki H, Lee YJ, Zhang G, Goodwin L, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Tice H, Saunders E, Brettin T, Detter JC, Han CS, Pitluck S, ... ... Zhou J, et al. Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production. Journal of Bacteriology. 192: 6494-6. PMID 20889752 DOI: 10.1128/Jb.01064-10  0.308
2010 Xiong J, Wu L, Tu S, Van Nostrand JD, He Z, Zhou J, Wang G. Microbial communities and functional genes associated with soil arsenic contamination and the rhizosphere of the arsenic-hyperaccumulating plant Pteris vittata L. Applied and Environmental Microbiology. 76: 7277-84. PMID 20833780 DOI: 10.1128/Aem.00500-10  0.511
2010 Liu W, Wang A, Cheng S, Logan BE, Yu H, Deng Y, Nostrand JD, Wu L, He Z, Zhou J. Geochip-based functional gene analysis of anodophilic communities in microbial electrolysis cells under different operational modes. Environmental Science & Technology. 44: 7729-35. PMID 20831218 DOI: 10.1021/Es100608A  0.402
2010 Reganold JP, Andrews PK, Reeve JR, Carpenter-Boggs L, Schadt CW, Alldredge JR, Ross CF, Davies NM, Zhou J. Fruit and soil quality of organic and conventional strawberry agroecosystems. Plos One. 5. PMID 20824185 DOI: 10.1371/Journal.Pone.0012346  0.429
2010 Hazen TC, Dubinsky EA, DeSantis TZ, Andersen GL, Piceno YM, Singh N, Jansson JK, Probst A, Borglin SE, Fortney JL, Stringfellow WT, Bill M, Conrad ME, Tom LM, Chavarria KL, ... ... Zhou J, et al. Deep-sea oil plume enriches indigenous oil-degrading bacteria. Science (New York, N.Y.). 330: 204-8. PMID 20736401 DOI: 10.1126/Science.1195979  0.524
2010 Cardenas E, Wu WM, Leigh MB, Carley J, Carroll S, Gentry T, Luo J, Watson D, Gu B, Ginder-Vogel M, Kitanidis PK, Jardine PM, Zhou J, Criddle CS, Marsh TL, et al. Significant association between sulfate-reducing bacteria and uranium-reducing microbial communities as revealed by a combined massively parallel sequencing-indicator species approach. Applied and Environmental Microbiology. 76: 6778-86. PMID 20729318 DOI: 10.1128/Aem.01097-10  0.508
2010 He Q, He Z, Joyner DC, Joachimiak M, Price MN, Yang ZK, Yen HC, Hemme CL, Chen W, Fields MM, Stahl DA, Keasling JD, Keller M, Arkin AP, Hazen TC, ... ... Zhou J, et al. Impact of elevated nitrate on sulfate-reducing bacteria: a comparative study of Desulfovibrio vulgaris. The Isme Journal. 4: 1386-97. PMID 20445634 DOI: 10.1038/Ismej.2010.59  0.301
2010 He Z, Deng Y, Van Nostrand JD, Tu Q, Xu M, Hemme CL, Li X, Wu L, Gentry TJ, Yin Y, Liebich J, Hazen TC, Zhou J. GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity. The Isme Journal. 4: 1167-79. PMID 20428223 DOI: 10.1038/Ismej.2010.46  0.519
2010 Reeve JR, Schadt CW, Carpenter-Boggs L, Kang S, Zhou J, Reganold JP. Effects of soil type and farm management on soil ecological functional genes and microbial activities. The Isme Journal. 4: 1099-107. PMID 20376100 DOI: 10.1038/Ismej.2010.42  0.468
2010 He Z, Xu M, Deng Y, Kang S, Kellogg L, Wu L, Van Nostrand JD, Hobbie SE, Reich PB, Zhou J. Metagenomic analysis reveals a marked divergence in the structure of belowground microbial communities at elevated CO2. Ecology Letters. 13: 564-75. PMID 20337697 DOI: 10.1111/J.1461-0248.2010.01453.X  0.509
2010 Huang Y, Zong W, Yan X, Wang R, Hemme CL, Zhou J, Zhou Z. Succession of the bacterial community and dynamics of hydrogen producers in a hydrogen-producing bioreactor. Applied and Environmental Microbiology. 76: 3387-90. PMID 20305018 DOI: 10.1128/Aem.02444-09  0.332
2010 Xu M, Wu WM, Wu L, He Z, Van Nostrand JD, Deng Y, Luo J, Carley J, Ginder-Vogel M, Gentry TJ, Gu B, Watson D, Jardine PM, Marsh TL, Tiedje JM, ... ... Zhou J, et al. Responses of microbial community functional structures to pilot-scale uranium in situ bioremediation. The Isme Journal. 4: 1060-70. PMID 20237512 DOI: 10.1038/Ismej.2010.31  0.573
2010 Hemme CL, Deng Y, Gentry TJ, Fields MW, Wu L, Barua S, Barry K, Tringe SG, Watson DB, He Z, Hazen TC, Tiedje JM, Rubin EM, Zhou J. Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community. The Isme Journal. 4: 660-72. PMID 20182523 DOI: 10.1038/Ismej.2009.154  0.572
2010 Liang Y, He Z, Wu L, Deng Y, Li G, Zhou J. Development of a common oligonucleotide reference standard for microarray data normalization and comparison across different microbial communities. Applied and Environmental Microbiology. 76: 1088-94. PMID 20038701 DOI: 10.1128/Aem.02749-09  0.406
2010 Kimes NE, Van Nostrand JD, Weil E, Zhou J, Morris PJ. Microbial functional structure of Montastraea faveolata, an important Caribbean reef-building coral, differs between healthy and yellow-band diseased colonies Environmental Microbiology. 12: 541-556. PMID 19958382 DOI: 10.1111/J.1462-2920.2009.02113.X  0.438
2010 Lu Z, He Z, Parisi V, Kang S, Deng Y, Nostrand JV, Masoner J, Cozzarelli I, Suflita J, Zhou J. GeoChip-based Analysis of Groundwater Microbial Diversity in Norman Landfill Lawrence Berkeley National Laboratory. DOI: 10.2172/986222  0.487
2010 He Z, Deng Y, Nostrand JDV, Tu Q, Xu M, Hemme CL, Li X, Wu L, Gentry TJ, Yin Y, Liebich J, Hazen TC, Zhou J. GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity Lawrence Berkeley National Laboratory. DOI: 10.2172/986221  0.519
2010 Liang Y, Wu L, Clark I, Xue K, Nostrand JDV, Deng Y, He Z, Hirsch P, Mcgrath S, Zhou J. Taxa-area Relationship (TAR) of Microbial Functional Genes with Long-TGerm Fertilization Lawrence Berkeley National Laboratory. DOI: 10.2172/985942  0.469
2010 Nostrand JV, Waldron P, Wu W, Zhou B, Wu L, Deng Y, Carley J, He Z, Gu B, Luo J, Criddle C, Jardine P, Hazen T, Zhou J. Effects of Nitrate Exposure on the Functional Structure of a Microbial Community in a Uranium-contaminated Aquifer Lawrence Berkeley National Laboratory. DOI: 10.2172/985928  0.526
2010 Deng Y, Zhou J, Luo F, He Z, Tu Q, Zhi X. Functional Ecological Gene Networks to Reveal the Changes Among Microbial Interactions Under Elevated Carbon Dioxide Conditions Lawrence Berkeley National Laboratory. DOI: 10.2172/985926  0.437
2010 Zhou J, He Z, Nostrand JDV, Wu L, Deng Y. Applying GeoChip analysis to disparate microbial communities Microbe Magazine. 5: 60-65. DOI: 10.1128/Microbe.5.60.1  0.419
2010 Gao W, Gentry TJ, Mehlhorn TL, Carroll SL, Jardine PM, Zhou J. Characterization of Co(III) EDTA-reducing bacteria in metal- and radionuclide-contaminated groundwater Geomicrobiology Journal. 27: 93-100. DOI: 10.1080/01490450903408112  0.302
2010 Wang A, Liu W, Deng Y, Nostrand JDVNJDV, Zhou J. Multiple community states of planktonic communities on functional gene structure in microbial electrolysis cell (MEC) Journal of Biotechnology. 150: 239-240. DOI: 10.1016/J.Jbiotec.2010.09.097  0.405
2009 Zhou J. Predictive microbial ecology Microbial Biotechnology. 2: 154-156. PMID 21261909 DOI: 10.1111/J.1751-7915.2009.00090_21.X  0.434
2009 Liang Y, Li G, Van Nostrand JD, He Z, Wu L, Deng Y, Zhang X, Zhou J. Microarray-based analysis of microbial functional diversity along an oil contamination gradient in oil field. Fems Microbiology Ecology. 70: 324-33. PMID 19780823 DOI: 10.1111/J.1574-6941.2009.00774.X  0.434
2009 Van Nostrand JD, Wu WM, Wu L, Deng Y, Carley J, Carroll S, He Z, Gu B, Luo J, Criddle CS, Watson DB, Jardine PM, Marsh TL, Tiedje JM, Hazen TC, ... Zhou J, et al. GeoChip-based analysis of functional microbial communities during the reoxidation of a bioreduced uranium-contaminated aquifer. Environmental Microbiology. 11: 2611-26. PMID 19624708 DOI: 10.1111/J.1462-2920.2009.01986.X  0.546
2009 Walker CB, He Z, Yang ZK, Ringbauer JA, He Q, Zhou J, Voordouw G, Wall JD, Arkin AP, Hazen TC, Stolyar S, Stahl DA. The electron transfer system of syntrophically grown Desulfovibrio vulgaris. Journal of Bacteriology. 191: 5793-801. PMID 19581361 DOI: 10.1128/Jb.00356-09  0.343
2009 Waldron PJ, Wu L, Van Nostrand JD, Schadt CW, He Z, Watson DB, Jardine PM, Palumbo AV, Hazen TC, Zhou J. Functional gene array-based analysis of microbial community structure in groundwaters with a gradient of contaminant levels. Environmental Science & Technology. 43: 3529-34. PMID 19544850 DOI: 10.1021/Es803423P  0.455
2009 Feng X, Mouttaki H, Lin L, Huang R, Wu B, Hemme CL, He Z, Zhang B, Hicks LM, Xu J, Zhou J, Tang YJ. Characterization of the central metabolic pathways in Thermoanaerobacter sp. strain X514 via isotopomer-assisted metabolite analysis. Applied and Environmental Microbiology. 75: 5001-8. PMID 19525270 DOI: 10.1128/Aem.00715-09  0.303
2009 Gao H, Yang ZK, Barua S, Reed SB, Romine MF, Nealson KH, Fredrickson JK, Tiedje JM, Zhou J. Reduction of nitrate in Shewanella oneidensis depends on atypical NAP and NRF systems with NapB as a preferred electron transport protein from CymA to NapA. The Isme Journal. 3: 966-76. PMID 19387485 DOI: 10.1038/Ismej.2009.40  0.469
2009 Taş N, Eekert MHAv, Schraa G, Zhou J, Vos WMd, Smidt H. Tracking Functional Guilds: Dehalococcoides spp. in European River Basins Contaminated with Hexachlorobenzene Applied and Environmental Microbiology. 75: 4696-4704. PMID 19376891 DOI: 10.1128/Aem.02829-08  0.452
2009 Wang F, Zhou H, Meng J, Peng X, Jiang L, Sun P, Zhang C, Van Nostrand JD, Deng Y, He Z, Wu L, Zhou J, Xiao X. GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent. Proceedings of the National Academy of Sciences of the United States of America. 106: 4840-5. PMID 19273854 DOI: 10.1073/Pnas.0810418106  0.463
2009 Ning J, Liebich J, Kästner M, Zhou J, Schäffer A, Burauel P. Different influences of DNA purity indices and quantity on PCR-based DGGE and functional gene microarray in soil microbial community study. Applied Microbiology and Biotechnology. 82: 983-93. PMID 19247649 DOI: 10.1007/S00253-009-1912-0  0.353
2009 Liang Y, Nostrand JD, Wang J, Zhang X, Zhou J, Li G. Microarray-based functional gene analysis of soil microbial communities during ozonation and biodegradation of crude oil. Chemosphere. 75: 193-9. PMID 19144375 DOI: 10.1016/J.Chemosphere.2008.12.007  0.447
2009 Mason OU, Di Meo-Savoie CA, Van Nostrand JD, Zhou J, Fisk MR, Giovannoni SJ. Prokaryotic diversity, distribution, and insights into their role in biogeochemical cycling in marine basalts. The Isme Journal. 3: 231-42. PMID 18843298 DOI: 10.1038/Ismej.2008.92  0.407
2009 Hwang C, Wu W, Gentry TJ, Carley J, Corbin GA, Carroll SL, Watson DB, Jardine PM, Zhou J, Criddle CS, Fields MW. Bacterial community succession during in situ uranium bioremediation: spatial similarities along controlled flow paths. The Isme Journal. 3: 47-64. PMID 18769457 DOI: 10.1038/Ismej.2008.77  0.367
2009 Liebich J, Wachtmeister T, Zhou J, Burauel P. Degradation of Diffuse Pesticide Contaminants: Screening for Microbial Potential Using a Functional Gene Microarray Vadose Zone Journal. 8: 703-710. DOI: 10.2136/Vzj2008.0072  0.451
2008 Rodrigues DF, Ivanova N, He Z, Huebner M, Zhou J, Tiedje JM. Architecture of thermal adaptation in an Exiguobacterium sibiricum strain isolated from 3 million year old permafrost: a genome and transcriptome approach. Bmc Genomics. 9: 547. PMID 19019206 DOI: 10.1186/1471-2164-9-547  0.662
2008 Yin H, Cao L, Xie M, Chen Q, Qiu G, Zhou J, Wu L, Wang D, Liu X. Bacterial diversity based on 16S rRNA and gyrB genes at Yinshan mine, China. Systematic and Applied Microbiology. 31: 302-11. PMID 18603397 DOI: 10.1016/J.Syapm.2008.05.003  0.443
2008 Wu L, Kellogg L, Devol AH, Tiedje JM, Zhou J. Microarray-based characterization of microbial community functional structure and heterogeneity in marine sediments from the Gulf of Mexico. Applied and Environmental Microbiology. 74: 4516-29. PMID 18515485 DOI: 10.1128/Aem.02751-07  0.579
2008 Zhou J, Kang S, Schadt CW, Garten CT. Spatial scaling of functional gene diversity across various microbial taxa. Proceedings of the National Academy of Sciences of the United States of America. 105: 7768-73. PMID 18509054 DOI: 10.1073/Pnas.0709016105  0.493
2008 Cardenas E, Wu WM, Leigh MB, Carley J, Carroll S, Gentry T, Luo J, Watson D, Gu B, Ginder-Vogel M, Kitanidis PK, Jardine PM, Zhou J, Criddle CS, Marsh TL, et al. Microbial communities in contaminated sediments, associated with bioremediation of uranium to submicromolar levels. Applied and Environmental Microbiology. 74: 3718-29. PMID 18456853 DOI: 10.1128/Aem.02308-07  0.542
2008 Wu L, Liu X, Fields MW, Thompson DK, Bagwell CE, Tiedje JM, Hazen TC, Zhou J. Microarray-based whole-genome hybridization as a tool for determining procaryotic species relatedness. The Isme Journal. 2: 642-55. PMID 18309358 DOI: 10.1038/Ismej.2008.23  0.472
2008 Gao H, Wang X, Yang ZK, Palzkill T, Zhou J. Probing regulon of ArcA in Shewanella oneidensis MR-1 by integrated genomic analyses. Bmc Genomics. 9: 42. PMID 18221523 DOI: 10.1186/1471-2164-9-42  0.345
2008 Pereira PM, He Q, Xavier AV, Zhou J, Pereira IAC, Louro RO. Transcriptional response of Desulfovibrio vulgaris Hildenborough to oxidative stress mimicking environmental conditions Archives of Microbiology. 189: 451-461. PMID 18060664 DOI: 10.1007/S00203-007-0335-5  0.303
2008 Pereira PM, He Q, Valente FMA, Xavier AV, Zhou J, Pereira IAC, Louro RO. Energy metabolism in Desulfovibrio vulgaris Hildenborough: Insights from transcriptome analysis Antonie Van Leeuwenhoek, International Journal of General and Molecular Microbiology. 93: 347-362. PMID 18060515 DOI: 10.1007/S10482-007-9212-0  0.317
2008 Yin H, Cao L, Qiu G, Wang D, Kellogg L, Zhou J, Liu X, Dai Z, Ding J, Liu X. Molecular diversity of 16S rRNA and gyrB genes in copper mines. Archives of Microbiology. 189: 101-10. PMID 17957354 DOI: 10.1007/S00203-007-0298-6  0.441
2008 Yin H, Qiu G, Wu L, Xie M, Zhou J, Dai Z, Wang D, Kellogg L, Cao L, Liu X. Microbial community diversity and changes associated with a mine drainage gradient at the Dexing copper mine, China Aquatic Microbial Ecology. 51: 67-76. DOI: 10.3354/Ame01172  0.438
2007 Yergeau E, Kang S, He Z, Zhou J, Kowalchuk GA. Functional microarray analysis of nitrogen and carbon cycling genes across an Antarctic latitudinal transect. The Isme Journal. 1: 163-179. PMID 18043626 DOI: 10.1038/Ismej.2007.24  0.517
2007 Leigh MB, Pellizari VH, Uhlík O, Sutka R, Rodrigues J, Ostrom NE, Zhou J, Tiedje JM. Biphenyl-utilizing bacteria and their functional genes in a pine root zone contaminated with polychlorinated biphenyls (PCBs) Isme Journal. 1: 134-148. PMID 18043623 DOI: 10.1038/Ismej.2007.26  0.711
2007 He Z, Gentry TJ, Schadt CW, Wu L, Liebich J, Chong SC, Huang Z, Wu W, Gu B, Jardine P, Criddle C, Zhou J. GeoChip: a comprehensive microarray for investigating biogeochemical, ecological and environmental processes. The Isme Journal. 1: 67-77. PMID 18043615 DOI: 10.1038/Ismej.2007.2  0.456
2007 Stolyar S, He Q, Joachimiak MP, He Z, Yang ZK, Borglin SE, Joyner DC, Huang K, Alm E, Hazen TC, Zhou J, Wall JD, Arkin AP, Stahl DA. Response of Desulfovibrio vulgaris to alkaline stress. Journal of Bacteriology. 189: 8944-52. PMID 17921288 DOI: 10.1128/Jb.00284-07  0.306
2007 Wu WM, Carley J, Luo J, Ginder-Vogel MA, Cardenas E, Leigh MB, Hwang C, Kelly SD, Ruan C, Wu L, Van Nostrand J, Gentry T, Lowe K, Mehlhorn T, Carroll S, ... ... Zhou J, et al. In situ bioreduction of uranium (VI) to submicromolar levels and reoxidation by dissolved oxygen. Environmental Science & Technology. 41: 5716-23. PMID 17874778 DOI: 10.1021/Es062657B  0.461
2007 Luo W, Wu WM, Yan T, Criddle CS, Jardine PM, Zhou J, Gu B. Influence of bicarbonate, sulfate, and electron donors on biological reduction of uranium and microbial community composition. Applied Microbiology and Biotechnology. 77: 713-21. PMID 17874092 DOI: 10.1007/S00253-007-1183-6  0.321
2007 Amos BK, Sung Y, Fletcher KE, Gentry TJ, Wu WM, Criddle CS, Zhou J, Löffler FE. Detection and quantification of Geobacter lovleyi strain SZ: implications for bioremediation at tetrachloroethene- and uranium-impacted sites. Applied and Environmental Microbiology. 73: 6898-904. PMID 17827319 DOI: 10.1128/Aem.01218-07  0.312
2007 Bender KS, Yen HC, Hemme CL, Yang Z, He Z, He Q, Zhou J, Huang KH, Alm EJ, Hazen TC, Arkin AP, Wall JD. Analysis of a ferric uptake regulator (Fur) mutant of Desulfovibrio vulgaris Hildenborough. Applied and Environmental Microbiology. 73: 5389-400. PMID 17630305 DOI: 10.1128/Aem.00276-07  0.312
2007 Yin H, Cao L, Qiu G, Wang D, Kellogg L, Zhou J, Dai Z, Liu X. Development and evaluation of 50-mer oligonucleotide arrays for detecting microbial populations in Acid Mine Drainages and bioleaching systems Journal of Microbiological Methods. 70: 165-178. PMID 17543401 DOI: 10.1016/J.Mimet.2007.04.011  0.401
2007 Wagner M, Smidt H, Loy A, Zhou J. Unravelling Microbial Communities with DNA-Microarrays: Challenges and Future Directions Microbial Ecology. 53: 498-506. PMID 17345135 DOI: 10.1007/S00248-006-9197-7  0.378
2007 Zhang Y, Zhang X, Liu X, Xiao Y, Qu L, Wu L, Zhou J. Microarray-based analysis of changes in diversity of microbial genes involved in organic carbon decomposition following land use/cover changes. Fems Microbiology Letters. 266: 144-151. PMID 17233724 DOI: 10.1111/J.1574-6968.2006.00511.X  0.49
2007 Gao H, Yang ZK, Gentry TJ, Wu L, Schadt CW, Zhou J. Microarray-based analysis of microbial community RNAs by whole-community RNA amplification. Applied and Environmental Microbiology. 73: 563-71. PMID 17098911 DOI: 10.1128/Aem.01771-06  0.369
2007 Yang Y, Wan M, Shi W, Peng H, Qiu G, Zhou J, Liu X. Bacterial diversity and community structure in acid mine drainage from Dabaoshan Mine, China Aquatic Microbial Ecology. 47: 141-151. DOI: 10.3354/Ame047141  0.381
2007 Huang Z, Hedlund BP, Wiegel J, Zhou J, Zhang CL. Molecular phylogeny of uncultivated crenarchaeota in great basin hot springs of moderately elevated temperature Geomicrobiology Journal. 24: 535-542. DOI: 10.1080/01490450701572523  0.365
2007 Garten CT, Kang S, Brice DJ, Schadt CW, Zhou J. Variability in soil properties at different spatial scales (1 m-1 km) in a deciduous forest ecosystem Soil Biology and Biochemistry. 39: 2621-2627. DOI: 10.1016/J.Soilbio.2007.04.033  0.406
2006 Rodríguez-Martínez EM, Pérez EX, Schadt CW, Zhou J, Massol-Deyá AA. Microbial diversity and bioremediation of a hydrocarbon-contaminated aquifer (Vega Baja, Puerto Rico). International Journal of Environmental Research and Public Health. 3: 292-300. PMID 16968977 DOI: 10.3390/Ijerph2006030036  0.471
2006 Chourey K, Thompson MR, Morrell-Falvey J, Verberkmoes NC, Brown SD, Shah M, Zhou J, Doktycz M, Hettich RL, Thompson DK. Global molecular and morphological effects of 24-hour chromium(VI) exposure on Shewanella oneidensis MR-1. Applied and Environmental Microbiology. 72: 6331-44. PMID 16957260 DOI: 10.1128/Aem.00813-06  0.338
2006 Gao H, Obraztova A, Stewart N, Popa R, Fredrickson JK, Tiedje JM, Nealson KH, Zhou J. Shewanella loihica sp. nov., isolated from iron-rich microbial mats in the Pacific Ocean. International Journal of Systematic and Evolutionary Microbiology. 56: 1911-6. PMID 16902030 DOI: 10.1099/Ijs.0.64354-0  0.464
2006 Gentry TJ, Wickham GS, Schadt CW, He Z, Zhou J. Microarray applications in microbial ecology research. Microbial Ecology. 52: 159-75. PMID 16897303 DOI: 10.1007/S00248-006-9072-6  0.41
2006 Clark ME, He Q, He Z, Huang KH, Alm EJ, Wan XF, Hazen TC, Arkin AP, Wall JD, Zhou JZ, Fields MW. Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion. Applied and Environmental Microbiology. 72: 5578-88. PMID 16885312 DOI: 10.1128/Aem.00284-06  0.363
2006 Gentile M, Yan T, Tiquia SM, Fields MW, Nyman J, Zhou J, Criddle CS. Stability in a denitrifying fluidized bed reactor. Microbial Ecology. 52: 311-21. PMID 16874554 DOI: 10.1007/S00248-006-9024-1  0.392
2006 Yan T, Ye Q, Zhou J, Zhang CL. Diversity of functional genes for methanotrophs in sediments associated with gas hydrates and hydrocarbon seeps in the Gulf of Mexico. Fems Microbiology Ecology. 57: 251-9. PMID 16867143 DOI: 10.1111/J.1574-6941.2006.00122.X  0.409
2006 Wu L, Liu X, Schadt CW, Zhou J. Microarray-based analysis of subnanogram quantities of microbial community DNAs by using whole-community genome amplification. Applied and Environmental Microbiology. 72: 4931-41. PMID 16820490 DOI: 10.1128/Aem.02738-05  0.411
2006 Cho CM, Yan T, Liu X, Wu L, Zhou J, Stein LY. Transcriptome of a Nitrosomonas europaea mutant with a disrupted nitrite reductase gene (nirK). Applied and Environmental Microbiology. 72: 4450-4. PMID 16751567 DOI: 10.1128/Aem.02958-05  0.324
2006 He Q, Huang KH, He Z, Alm EJ, Fields MW, Hazen TC, Arkin AP, Wall JD, Zhou J. Energetic consequences of nitrite stress in Desulfovibrio vulgaris Hildenborough, inferred from global transcriptional analysis. Applied and Environmental Microbiology. 72: 4370-81. PMID 16751553 DOI: 10.1128/Aem.02609-05  0.34
2006 Gao H, Yang ZK, Wu L, Thompson DK, Zhou J. Global transcriptome analysis of the cold shock response of Shewanella oneidensis MR-1 and mutational analysis of its classical cold shock proteins. Journal of Bacteriology. 188: 4560-9. PMID 16740962 DOI: 10.1128/Jb.01908-05  0.313
2006 Fields MW, Bagwell CE, Carroll SL, Yan T, Liu X, Watson DB, Jardine PM, Criddle CS, Hazen TC, Zhou J. Phylogenetic and functional biomakers as indicators of bacterial community responses to mixed-waste contamination. Environmental Science & Technology. 40: 2601-7. PMID 16683598 DOI: 10.1021/Es051748Q  0.416
2006 Luo F, Zhong J, Yang Y, Zhou J. Application of random matrix theory to microarray data for discovering functional gene modules. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 73: 031924. PMID 16605575 DOI: 10.1103/Physreve.73.031924  0.301
2006 Gao W, Liu Y, Giometti CS, Tollaksen SL, Khare T, Wu L, Klingeman DM, Fields MW, Zhou J. Knock-out of SO1377 gene, which encodes the member of a conserved hypothetical bacterial protein family COG2268, results in alteration of iron metabolism, increased spontaneous mutation and hydrogen peroxide sensitivity in Shewanella oneidensis MR-1. Bmc Genomics. 7: 76. PMID 16600046 DOI: 10.1186/1471-2164-7-76  0.349
2006 Wei X, Yan T, Hommes NG, Liu X, Wu L, McAlvin C, Klotz MG, Sayavedra-Soto LA, Zhou J, Arp DJ. Transcript profiles of Nitrosomonas europaea during growth and upon deprivation of ammonia and carbonate. Fems Microbiology Letters. 257: 76-83. PMID 16553835 DOI: 10.1111/J.1574-6968.2006.00152.X  0.358
2006 Brown SD, Thompson MR, Verberkmoes NC, Chourey K, Shah M, Zhou J, Hettich RL, Thompson DK. Molecular dynamics of the Shewanella oneidensis response to chromate stress. Molecular & Cellular Proteomics : McP. 5: 1054-71. PMID 16524964 DOI: 10.1074/Mcp.M500394-Mcp200  0.344
2006 Chhabra SR, He Q, Huang KH, Gaucher SP, Alm EJ, He Z, Hadi MZ, Hazen TC, Wall JD, Zhou J, Arkin AP, Singh AK. Global analysis of heat shock response in Desulfovibrio vulgaris Hildenborough. Journal of Bacteriology. 188: 1817-28. PMID 16484192 DOI: 10.1128/Jb.188.5.1817-1828.2006  0.341
2006 Bagwell CE, Liu X, Wu L, Zhou J. Effects of legacy nuclear waste on the compositional diversity and distributions of sulfate-reducing bacteria in a terrestrial subsurface aquifer. Fems Microbiology Ecology. 55: 424-31. PMID 16466381 DOI: 10.1111/J.1574-6941.2005.00039.X  0.418
2006 Liebich J, Schadt CW, Chong SC, He Z, Rhee SK, Zhou J. Improvement of oligonucleotide probe design criteria for functional gene microarrays in environmental applications. Applied and Environmental Microbiology. 72: 1688-91. PMID 16461729 DOI: 10.1128/Aem.72.2.1688-1691.2006  0.316
2006 Leaphart AB, Thompson DK, Huang K, Alm E, Wan XF, Arkin A, Brown SD, Wu L, Yan T, Liu X, Wickham GS, Zhou J. Transcriptome profiling of Shewanella oneidensis gene expression following exposure to acidic and alkaline pH. Journal of Bacteriology. 188: 1633-42. PMID 16452448 DOI: 10.1128/Jb.188.4.1633-1642.2006  0.305
2006 Qiu X, Daly MJ, Vasilenko A, Omelchenko MV, Gaidamakova EK, Wu L, Zhou J, Sundin GW, Tiedje JM. Transcriptome analysis applied to survival of Shewanella oneidensis MR-1 exposed to ionizing radiation. Journal of Bacteriology. 188: 1199-204. PMID 16428429 DOI: 10.1128/Jb.188.3.1199-1204.2006  0.743
2006 Brown SD, Martin M, Deshpande S, Seal S, Huang K, Alm E, Yang Y, Wu L, Yan T, Liu X, Arkin A, Chourey K, Zhou J, Thompson DK. Cellular response of Shewanella oneidensis to strontium stress Applied and Environmental Microbiology. 72: 890-900. PMID 16391131 DOI: 10.1128/Aem.72.1.890-900.2006  0.317
2006 Hwang C, Wu WM, Gentry TJ, Carley J, Carroll SL, Schadt C, Watson D, Jardine PM, Zhou J, Hickey RF, Criddle CS, Fields MW. Changes in bacterial community structure correlate with initial operating conditions of a field-scale denitrifying fluidized bed reactor. Applied Microbiology and Biotechnology. 71: 748-60. PMID 16292532 DOI: 10.1007/S00253-005-0189-1  0.39
2005 Fields MW, Yan T, Rhee SK, Carroll SL, Jardine PM, Watson DB, Criddle CS, Zhou J. Impacts on microbial communities and cultivable isolates from groundwater contaminated with high levels of nitric acid-uranium waste. Fems Microbiology Ecology. 53: 417-28. PMID 16329960 DOI: 10.1016/J.Femsec.2005.01.010  0.402
2005 Bencheikh-Latmani R, Williams SM, Haucke L, Criddle CS, Wu L, Zhou J, Tebo BM. Global transcriptional profiling of Shewanella oneidensis MR-1 during Cr(VI) and U(VI) reduction. Applied and Environmental Microbiology. 71: 7453-60. PMID 16269787 DOI: 10.1128/Aem.71.11.7453-7460.2005  0.306
2005 Oda Y, Samanta SK, Rey FE, Wu L, Liu X, Yan T, Zhou J, Harwood CS. Functional genomic analysis of three nitrogenase isozymes in the photosynthetic bacterium Rhodopseudomonas palustris. Journal of Bacteriology. 187: 7784-94. PMID 16267302 DOI: 10.1128/Jb.187.22.7784-7794.2005  0.364
2005 Beliaev AS, Klingeman DM, Klappenbach JA, Wu L, Romine MF, Tiedje JM, Nealson KH, Fredrickson JK, Zhou J. Global transcriptome analysis of Shewanella oneidensis MR-1 exposed to different terminal electron acceptors. Journal of Bacteriology. 187: 7138-45. PMID 16199584 DOI: 10.1128/Jb.187.20.7138-7145.2005  0.477
2005 He Z, Wu L, Fields MW, Zhou J. Use of microarrays with different probe sizes for monitoring gene expression. Applied and Environmental Microbiology. 71: 5154-62. PMID 16151099 DOI: 10.1128/Aem.71.9.5154-5162.2005  0.322
2005 Gu B, Wu WM, Ginder-Vogel MA, Yan H, Fields MW, Zhou J, Fendorf S, Criddle CS, Jardine PM. Bioreduction of uranium in a contaminated soil column. Environmental Science & Technology. 39: 4841-7. PMID 16053082 DOI: 10.1021/Es050011Y  0.358
2005 Gao W, Liu Y, Zhou J, Pan H. Effects of a strong static magnetic field on bacterium Shewanella oneidensis: an assessment by using whole genome microarray. Bioelectromagnetics. 26: 558-63. PMID 16037957 DOI: 10.1002/Bem.20133  0.302
2005 Qiu X, Sundin GW, Wu L, Zhou J, Tiedje JM. Comparative analysis of differentially expressed genes in Shewanella oneidensis MR-1 following exposure to UVC, UVB, and UVA radiation. Journal of Bacteriology. 187: 3556-64. PMID 15866945 DOI: 10.1128/Jb.187.10.3556-3564.2005  0.732
2005 Liu Y, Gao W, Wang Y, Wu L, Liu X, Yan T, Alm E, Arkin A, Thompson DK, Fields MW, Zhou J. Transcriptome analysis of Shewanella oneidensis MR-1 in response to elevated salt conditions Journal of Bacteriology. 187: 2501-2507. PMID 15774893 DOI: 10.1128/Jb.187.7.2501-2507.2005  0.333
2005 Kolker E, Picone AF, Galperin MY, Romine MF, Higdon R, Makarova KS, Kolker N, Anderson GA, Qiu X, Auberry KJ, Babnigg G, Beliaev AS, Edlefsen P, Elias DA, Gorby YA, ... ... Zhou J, et al. Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations. Proceedings of the National Academy of Sciences of the United States of America. 102: 2099-104. PMID 15684069 DOI: 10.1073/Pnas.0409111102  0.786
2005 Wu WM, Gu B, Fields MW, Gentile M, Ku YK, Yan H, Tiquias S, Yan T, Nyman J, Zhou J, Jardine PM, Criddle CS. Uranium (VI) reduction by denitrifying biomass Bioremediation Journal. 9: 49-61. DOI: 10.1080/10889860590929628  0.359
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