主要论文

2013

1.Bai S, Li J, He Z, Van Nostrand JD, Tian Y, Lin G, Zhou J, Zheng  T. 2013. GeoChip-based analysis of the functional gene diversity and  metabolic potential of soil microbial communities of mangroves. Appl  Microbiol Biotechnol. 2013 Aug;97(15):7035-7048.

2.Bartley, Laura E., Matthew L. Peck, Sung-Ryul Kim, Berit Ebert,  Chithra Manisseri, Dawn M. Chiniquy, Robert Sykes et al. 2013. Overexpression  of a BAHD acyltransferase, OsAt10, alters rice cell wall hydroxycinnamic acid  content and saccharification. Plant physiology, 161(4), 1615-1633.

3.Chan, Yuki; Joy D. Van Nostrand, Jizhong Zhou, Stephen B.  Pointing, and Roberta L. Farrell. 2013. Functional ecology of an Antarctic  Dry Valley. PNAS. 110:8990-8995.

4.Eisenlord, Sarah D., Zachary Freedman, Donald R. Zak, Kai Xue,  Zhili He, and Jizhong Zhou. 2013. Microbial mechanisms mediating increased  soil C storage under elevated atmospheric N deposition. Applied and  environmental microbiology 79, no. 4 (2013): 1191-1199.

5.Eisenlord, Sarah D., Zachary Freedman, Donald R. Zak, Kai Xue,  Zhili He, and Jizhong Zhou. 2013. Microbial mechanisms mediating increased  soil C storage under elevated atmospheric N deposition. Applied and  environmental microbiology, 79(4), 1191-1199.

6.He, Zhili; Jinbo Xiong, Angela D Kent, Ye Deng, Kai Xue, Gejiao  Wang, Liyou Wu, Joy D Van Nostrand, and Jizhong Zhou. 2013. Distinct  responses of soil microbial communities to elevated CO2 and O3 in a soybean  agro-ecosystem. The ISME Journal 1-13.

7.Jiang, He-Long, Qiang He, Zhili He, Christopher L. Hemme, Liyou  Wu, and Jizhong Zhou. 2013. Continuous Cellulosic Bioethanol Fermentation by  Cyclic Fed-Batch Cocultivation. Applied and environmental microbiology,  79(5), 1580-1589.

8.Li, Xinyu, Ye Deng, Qi Li, Caiyan Lu, Jingjing Wang, Huiwen  Zhang, Jianguo Zhu, Jizhong Zhou, and Zhili He. 2013. Shifts of functional  gene representation in wheat rhizosphere microbial communities under elevated  ozone. The ISME journal.

9.Lin, Lu, Yuetong Ji, Qichao Tu, Ranran Huang, Lin Teng, Xiaowei  Zeng, Houhui Song et al. 2013. Microevolution from shock to adaptation  revealed strategies improving ethanol tolerance and production in  Thermoanaerobacter. Biotechnology for biofuels, 6(1), 103.

10.Lu, Zhenmei, Zhili He, Victoria A. Parisi, Sanghoon Kang, Ye  Deng, Joy D. Van Nostrand, Jason R. Masoner, Isabelle M. Cozzarelli, Joseph  M. Suflita, and Jizhong Zhou. 2013. GeoChip-based analysis of microbial  functional gene diversity in a landfill leachate-contaminated aquifer.  Environmental science & technology, 46(11), 5824-5833.

11.Qiu, Dongru, Hehong Wei, Qichao Tu, Yunfeng Yang, Ming Xie,  Jingrong Chen, Mark H. Pinkerton, Yili Liang, Zhili He, and Jizhong Zhou.  2013. Combined genomics and experimental analyses of respiratory  characteristics of Shewanella putrefaciens W3-18-1. Applied and environmental  microbiology, 79(17), 5250-5257.

12.Sul, Woo Jun, Stella Asuming-Brempong, Qiong Wang, Dieter M.  Tourlousse, C. Ryan Penton, Ye Deng, Jorge LM Rodrigues et al. 2013. Tropical  agricultural land management influences on soil microbial communities through  its effect on soil organic carbon. Soil Biology and Biochemistry. 65:33-38.

13.Tu Q, He Z, Deng Y, Zhou J. 2013. Strain/Species-specific probe design for microbial  identification microarrays. Appl Environ Microbiol. 79(16):5085-8. doi:  10.1128/AEM.01124-13.

14.Van Nostrand, J. D, Terry J. Gentry, and J.-Z. Zhou. 2013.  Microarray-Based Microbial Identification and Characterization. In Y.-W. Tang  and C. W. Stratton (eds) Advanced Techniques in Diagnostic Microbiology, 2nd  ed., Springer, New York, NY (Invited).

15.Wakelin, Steven A., Barbara IP Barratt, Emily Gerard, Adrienne  L. Gregg, Eoin L. Brodie, Gary L. Andersen, Todd Z. DeSantis et al. 2013.  Shifts in the phylogenetic structure and functional capacity of soil  microbial communities follow alteration of native tussock grassland  ecosystems. Soil Biology and Biochemistry.

16.Xu, Chenggang, Ranran Huang, Lin Teng, Dongmei Wang, Christopher  L. Hemme, Ilya Borovok, Qiang He et al. 2013. Structure and regulation of the  cellulose degradome in Clostridium cellulolyticum. Biotechnology for  biofuels, 6(1), 73.

17.Xu, Meiying; Zhili He, Ye Deng, Liyou Wu, Joy D van Nostrand,  Sarah E Hobbie, Peter B Reich and Jizhong Zhou. 2013. Elevated CO2 influences  microbial carbon and nitrogen cycling. BMC Microbiology 2013, 13:124.

18.Xue, Kai; Liyou Wu, Ye Deng, Zhili He, Joy Van Nostrand, Philip  G. Robertson, Thomas M. Schmidt and Jizhong Zhou. 2013. Functional Gene  Differences in Soil Microbial Communities from Conventional, Low-Input, and  Organic Farmlands. Appl. Environ. Microbiol. 79(4):1284-1294.

19.Zhang, Yuguang, Zhenmei Lu, Shanshan Liu, Yunfeng Yang, Zhili  He, Zuohua Ren, Jizhong Zhou, and Diqiang Li. 2013. Geochip-based analysis of  microbial communities in alpine meadow soils in the Qinghai-Tibetan plateau.  BMC microbiology, 13(1), 72.

20.Zhang, Zhenyi, Xuan Zhao, Yuting Liang, Guanghe Li, and Jizhong  Zhou. 2013. Microbial functional genes reveal selection of microbial  community by PAHs in polluted soils. Environmental Chemistry Letters, 11(1),  11-17.

21.Zhao, Fang-Jie, Eleanor Harris, Yan Jia, Jincai Ma, Liyou Wu,  Wenju Liu, Steve P. McGrath, Jizhong Zhou, and Yong-Guan Zhu. 2013. Arsenic  Methylation in Soils and Its Relationship with Microbial arsM Abundance and  Diversity, and As Speciation in Rice. Environmental science & technology.

22.Zhou J, Liu W, Deng Y, Jiang Y, Xue K, He, Van Nostrand JD, Wu  L, Yang Y, and Wang A. 2013. Stochastic Assembly Leads to Alternative  Communities with Distinct Functions in a Bioreactor Microbial Community. mBio  4(2):e00584-12.

23.Zhou JZ, Jiang Y, Deng Y, Shi Z, Zhou BY, Xue K, Wu L, He Z,  Yang Y. 2013. Random sampling process leads to overestimation of beta  diversity of microbial communities. mBio 4(3):e00324-13.  doi:10.1128/mBio.00324-13.

24.Zhou, Aifen, Edward Baidoo, Zhili He, Aindrila Mukhopadhyay,  Jason K Baumohl, Peter Benke, Marcin P Joachimiak, Ming Xie, Rong Song, Adam  P Arkin, Terry C Hazen, Jay D Keasling, Judy D Wall, David A Stahl and  Jizhong Zhou. 2013. Characterization of NaCl tolerance in Desulfovibrio  vulgaris Hildenborough through experimental evolution. The ISME Journal.  7:1790-1802.

2012

1.Rajeev, Lara; Kristina L. Hillesland, Grant M. Zane, Aifen Zhou,  Marcin P. Joachimiak, Zhili He, Jizhong Zhou, Adam P. Arkin, Judy D. Wall and  David A. Stahl. 2012. Deletion of the Desulfovibrio vulgaris Carbon Monoxide  Sensor Invokes Global Changes in Transcription. J Bacteriol. 194(21):5783-93.  

2.Van Nostrand, Joy D., Zhili He, Jizhong Zhou. 2012. Use of  functional gene arrays for elucidating in situ biodegradation. Frontiers in  Microbiology. doi: 10.3389/fmicb.2012.00339. 3:339.

3.Beazley MJ, Robert J. Martinez, Suja Rajan, Jessica Powell,  Yvette M. Piceno, Lauren M. Tom, Gary L. Andersen, Terry C. Hazen, Joy D. Van  Nostrand, Jizhong Zhou, Behzad Mortazavi, Patricia A. Sobecky. 2012.  Microbial Community Analysis of a Coastal Salt Marsh Affected by the  Deepwater Horizon Oil Spill. PLoS ONE 7(7): e41305.

4.Carter, Michelle Q; Kai Xue, Maria T. Brandl, Feifei Liu, Liyou  Wu, Jacqueline W. Louie,Robert E. Mandrell, Jizhong Zhou. 2012. Functional  Metagenomics of Escherichia coli O157:H7 Interactions with Spinach Indigenous  Microorganisms during Biofilm Formation. PLoS ONE 7(9): e44186.

5.Clark, M. E., Z. He, A. M. Redding, M.P. Joachimiak, J.D.  Keasling, J.-Z. Zhou, A.P. Arkin, A. Mukhopadhyay, and M. W. Fields. 2012.  Transcriptomic and Proteomic Analyses of Desulfovibrio vulgaris Biofilms:  Carbon and Energy Flow Contribute to the Distinct Biofilm Growth State. BMC  Genomics 13:138.

6.Dassa, B., Ilya Borovok, R. Lamed, B. Henrissat, P. Coutinho, C.  L. Hemme, Y. Huang, J.-Z. Zhou and E. A. Bayer. 2012. Genome-wide analysis of  Acetivibrio cellulolyticus provides a blueprint of an elaborate cellulosome  system. BMC Genomics. 13:210.

7.Deng, Y., Z. He, M. Xu, Y. Qin, J. D. Van Nostrand, L. Wu, B. A.  Roe, G. Wiley, S. E. Hobbie, P. B. Reich, and J.-Z, Zhou. 2012. Elevated  Carbon Dioxide Alters the Structure of Soil Microbial Communities. Appl.  Environ. Microbiol., 78:2991-2995.

8.Deng, Ye, Yi-Huei Jiang, Yunfeng Yang, Zhili He, Feng Luo, and  Jizhong Zhou. 2012. Molecular ecological network analyses. BMC  bioinformatics, 13(1), 113.

9.Ding, Guo-Chun, Holger Heuer, Zhili He, Jianping Xie, Jizhong  Zhou, and Kornelia Smalla. 2012. More functional genes and convergent overall  functional patterns detected by geochip in phenanthrene-spiked soils. FEMS  microbiology ecology 82, no. 1 (2012): 148-156.

10.He, Z., Y. Deng, and J.-Z. Zhou. 2012. Development of functional  gene microarrays for microbial community analysis. Curr.Opin. Microbiol., 23:  49-55.

11.He, Z., Y. Piceno, Y. Deng, M. Xu, Z. Lu, T. DeSantis, G.  Andersen, S. E. Hobbie, P. B. Reich, and J.-Z. Zhou. 2012. The phylogenetic  composition and structure of soil microbial communities shifts in response to  elevated carbon dioxide. ISME J, 6: 259-272.

12.He, Z.L., J. D. Van Nostrand, and J.-Z. Zhou. 2012. Applications  of functional gene microarrays for profiling microbial communities.  Curr.Opin. Microbiol. 23:460-466.(To request article,

13.Huang, W., and J.-Z. Zhou. 2012. When single cell technology  meets omics, the new toolbox of analytical biotechnology is emerging.  Curr.Opin. Microbiol., 23:1.

14.Liang, Y., J. D. Van Nostrand, L. A. N’Guessan, A. D. Peacock,  Y. Deng, P. E. Long, C. T. Resch, L. Wu, Z. He, G. Li, T. C. Hazen, D. R.  Lovley, and J.-Z. Zhou. 2012. Microbial Functional Gene Diversity with a  Shift of Subsurface Redox Condition during in situ Uranium Reduction. Appl.  Environ. Microbiol., 78:2966-2972.

15.Liang, Yili, Haichun Gao, Xue Guo, Jingrong Chen, Guanzhou Qiu,  Zhili He, Jizhong Zhou, and Xueduan Liu. 2012. Transcriptome analysis of  pellicle formation of Shewanella oneidensis. Archives of microbiology,  194(6), 473-482.

16.Liu, W.Z., A. Wang, Aijie, D. Sun, Dan, N. Ren, Nanqi, Y. Zhang,  J.-Z. Zhou. 2012. Characterization of microbial communities during anode  biofilm reformation in a two-chambered microbial electrolysis cell (MEC). J.  Biotechnol. 157: 628-632.

17.Lomax, C., W. Liu, L. Wu, K. Xue, J. Xiong, J.-Z. Zhou, S. P.  McGrath, A. A.Meharg, A. J.Miller, and F-J. Zhao. 2012. Methylated arsenic  species in plants originate from soil microorganisms. New Phytologist,  193:665-672.

18.Lu, Z.-M., Y. Deng, J. D. Van Nostrand, Z. He, J. Voordeckers,  A. Zhou, Y.-J. Lee, O. Mason, E. Dubinsky, K. Chavarria, L. Tom, J. Fortney,  R. Lamendella, J. K. Jansson, P. D’haeseleer, T. C. Hazen, and J.-Z. Zhou.  2012. Microbial gene functions enriched in the Deepwater Horizon deep-sea oil  plume. ISME J., 6: 451-460 doi: 10.1038/ismej.2011.91.

19.Mason, Olivia U., Terry C. Hazen, Sharon Borglin, Patrick SG  Chain, Eric A. Dubinsky, Julian L. Fortney, James Han et al. 2012.  Metagenome, metatranscriptome and single-cell sequencing reveal microbial  response to Deepwater Horizon oil spill. The ISME journal 6, no. 9 (2012):  1715-1727.

20.Reith, Frank, Joel Brugger, Carla M. Zammit, Adrienne L. Gregg,  Katherine C. Goldfarb, Gary L. Andersen, Todd Z. DeSantis et al. 2012.  Influence of geogenic factors on microbial communities in metallogenic  Australian soils. The ISME Journal, 6(11), 2107-2118.

21.Trivedi, P., Z. He, J. D. Van Nostrand, Gene Albrigo, J.-Z.  Zhou, and N. Wang. 2012. Huanglongbing alters the structure and functional  diversity of microbial communities associated with citrus rhizosphere. ISME  J, 6: 363-383.

22.Walker, Christopher B., Alyssa M. Redding-Johanson, Edward E.  Baidoo, Lara Rajeev, Zhili He, Erik L. Hendrickson, Marcin P. Joachimiak et  al. 2012. Functional responses of methanogenic archaea to syntrophic growth.  The ISME journal.

23.Wang, Hang, Zhili He, Zhenmei Lu, Jizhong Zhou, Joy D. Van  Nostrand, Xinhua Xu, and Zhijian Zhang. 2012. Genetic linkage of soil carbon  pools and microbial functions in subtropical freshwater wetlands in response  to experimental warming. Applied and environmental microbiology, 78(21),  7652-7661.

24.Wang, Y., H. Zheng, F. Chen, J. Zeng, S. Chen, J.-Z. Zhou, and  Z. Ouyang. 2012. Methane metabolic microbial community in soils of slash pine  plantation and Masson pine plantation. Acta Ecologica Sinica, 32:2-7.

25.Wawrik, B., M. Mendivelso, V.A. Parisi, J.M. Suflita, I.A.  Davidova, C.R. Marks, J.D. Van Nostrand, Y. Liang, J.-Z. Zhou, B.J. Huizinga,  D. Str?poc, and A.V. Callaghan. 2012. Field and laboratory studies on the  bioconversion of coal to methane in the San Juan Basin. FEMS Microb. Ecol.  81:26-42. DOI: 10.1111/j.1574-6941.2011.01272.x.

26.Wawrik, B., W. Boling, J. Van Nostrand, J.P. Xie, J.-Z. Zhou,D.  A. Bronk. 2012. Assimilatory Nitrate Utilization by Bacteria on the West  Florida Shelf as Determined by Stable Isotope Probing and Functional  Microarray Analysis. FEMS Microbiology Ecology. 79:400-411..

27.Xiong, Jinbo, Zhili He, Joy D. Van Nostrand, Guosheng Luo,  Shuxin Tu, Jizhong Zhou, and Gejiao Wang. 2012. Assessing the Microbial  Community and Functional Genes in a Vertical Soil Profile with Long-Term  Arsenic Contamination. PloS one, 7(11), e50507.

28.Xu, X., S. Niu, R. A. Sherry, X. Zhou, J.-Z. Zhou, Y. Luo. 2012.  Interannual variability in responses of belowground NPP and NPP partitioning  to long-term warming and clipping in a tallgrass prairie. Global Change Biol.  18(5):1648-1656.

29.Xu, Xia, Rebecca A. Sherry, Shuli Niu, Jizhong Zhou, and Yiqi  Luo. 2012. Long-term experimental warming decreased labile soil organic  carbon in a tallgrass prairie. Plant and soil, 361(1-2), 307-315.

30.Xu, Xia, Yiqi Luo, and Jizhong Zhou. 2012. Carbon quality and  the temperature sensitivity of soil organic carbon decomposition in a  tallgrass prairie. Soil Biology and Biochemistry, 50, 142-148.

31.Yergeau, E., S. Bokhorst, S. Kang, J.-Z. Zhou, C. W. Greer, R.  Aerts, G. A. Kowalchuk. 2012. Shifts in soil microorganisms in response to  warming are consistent across a range of Antarctic environments. ISME J, 6:  692-702.

32.Zhou, A.F., Y.I. Chen, G. M. Zane, Z.H. He, C. L. Hemme, M. P.  Joachimiak, J. Baumohl, Q. He, M. W. Fields, A. P. Arkin, J. D. Wall, T. C.  Hazen, and J.-Z. Zhou. 2012. Functional characterization of Crp/Fnr-type  global transcriptional regulators in Desulfovibrio vulgaris Hildenborough.  Appl. Environ. Microbiol, 78(4):1168-1177.

33.Zhou,J.-Z., K. Xue, J.-P. Xie, Y. Deng, L.Y. Wu, X.L. Cheng, S.F  .Fei, S.P. Deng, Z.-H. He, J.D. van Nostrand, and Y.Q. Luo . 2012. Microbial  Mediation of Carbon Cycle Feedbacks to Climate Warming. Nature Climate Change  2 106-110. doi:10.1038/nclimate1331.(To request article,

2011

1.He, Z., D. J. Van Nostrand, Y. Deng, and Z.-J. Zhou. 2011.  Development and applications of functional gene microarrays in the analysis  of the functional diversity, composition, and structure of microbial  communities. Front. Environ. Sci. Engin. China 5: 1-20.

2.He. Q, Christopher L. Hemme, Helong Jiang, Zhili He, Jizhong  Zhou. 2011. Mechanisms of enhanced cellulosic bioethanol fermentation by  co-cultivation of Clostridium and Thermoanaerobacter spp. Bioresource  Technology 102 (2011) 9586–9592.

3.Hemme, CL, Matthew W. Fields, Qiang He, Ye Deng, Lu Lin, Qichao  Tu, Housna Mouttaki, Aifen Zhou, Xueyang Feng, Zheng Zuo, Bradley D. Ramsay,  Zhili He, Liyou Wu, Joy Van Nostrand, Jian Xu, Yinjie J. Tang, Juergen  Wiegel, Tommy J. Phelps, and Jizhong Zhou. 2011. Correlation of Genomic and  Physiological Traits of Thermoanaerobacter Species with Biofuel Yields. Appl.  Environ. Microbiol, 77:7998-8008.

4.Li, B., W.G. Cao, J.-Z. Zhou, and F. Luo. 2011. Understanding  and predicting synthetic lethal genetic interactions in Saccharomyces  cerevisiae using domain genetic interactions. BMC Systems Biology 5:73.

5.Liang, Y.T. J. D. van Nostrand, Y. Deng, Z.H. He, L.Y. Wu, X.  Zhang, G.H. Li and J.-Z. Zhou. 2011. Functional gene diversity of soil  microbial communities from five oil-contaminated fields in China. The ISME J.  5, 403-413.

6.Lin, L., H. Song, Q. Tu, Y. Qin, A. Zhou, W. Liu, Z. He, J.-Z.  Zhou, and J. Xu. 2011. The Thermoanaerobacter Glycobiome Reveals Mechanisms  of Pentose and Hexose Co-Utilization in Bacteria. PLoS Genetics, 7(10):  e1002318.

7.Liu, A.H., L. Wu, Z.L. He, and J.-Z. Zhou. 2011. Development of  highly fluorescent silica nanoparticles chemically doped with organic dye for  sensitive DNA microarray detection. Anal Bioanal Chem, 401:2003–2011.

8.Sundararajan, A., J. Kurowski, T. Yan, D. M. Klingman, M.P.  Joachimiak, J.-Z. Zhou, B. Naranjo, J. A. Gralnick, and M. W. Fields. 2011.  Shewanella oneidensis MR-1 Sensory Box Protein Involved in Aerobic and Anoxic  Growth. Appl. Environ. Microbiol 77: 4647-4656.

9.Van Nostrand, J. D., S. Kang, Y. Deng, Y. Liang, Z. He, and  J.-Z. Zhou. 2011. Monitoring Microbial Activity with GeoChip. In: Microbial  Metal and Metalloid Metabolism: Advances and Applications. In: J.F. Stolz and  R.S. Oremland (eds). Microbial Metal and Metalloid Metabolism: Advances and  Applications.ASM Press, Washington DC, (Invited book chapter).

10.Van Nostrand, J. D., Z. He, and J.-Z. Zhou. 2011. Analysis of  microbial communities by functional gene Arrays. In: L. Barton, M. Mandl and  A. Loy (eds) Geomicrobiology: Molecular and Environmental Perspective.  Springer, New York, Pp 109-126.

11.Van Nostrand, J.D. and J. Zhou. 2011. Application of functional  gene arrays (GeoChips) in monitoring carbon cycling. In: N. Jiao, F. Azam,  and S. Sander (eds) Biological Carbon Pump (booklet). AAAS. pp 64-65.

12.Van Nostrand, J.D., L.Y. Wu*,W.-M. Wu, Z.J. Huang, T. J. Gentry,  Y. Deng, J. Carley, S. Carroll, Z.-H. He, B.H. Gu, J. Luo, C. S. Criddle, D.  B. Watson, P. M. Jardine, T. L. Marsh, J.M. Tiedje, T. C. Hazen, and J.Z.  Zhou. 2011. Dynamics of Microbial Community Composition and Function during  In Situ Bioremediation of a Uranium-Contaminated Aquifer. Appl. Environ.  Microbiol, 77:3860-3869.

13.Van Nostrand, J.D., Z.L. He, and J.Z. Zhou. 2011. Metagenomics  analysis of below-ground microbial communities using microarrays. In: D.  Marco (ed) Metagenomics: Current Innovations and Future Trends, Caister  Academic. pp 265-288..

14.Van Nostrand,J.D., Z. He, and J.-Z. Zhou. 2011. New developments  and applications of microarrays for microbial community analysis in natural  and impacted ecosystems. Pp. 37-45. In: M. Moo-Young (ed) Comprehensive  Biotechnology, 2e. Elsevier, Amsterdam, The Netherlands..

15.Van Nostrand,J.D., Z. He, and J.-Z. Zhou. 2011. GeoChip: A high  throughput metagenomics technology for dissecting microbial community  functional structure. In: F.J. de Bruijn (ed) Handbook of Molecular Microbial  Ecology II: Metagenomics in Different Habitats. John Wiley & Sons, New  Jersey, 509-520.

16.Wang, A.J., L.F. Gao, N.Q. Ren, J.F. Xu, C. Liu, G.-L Cao, H.  Yu, W.Z. Liu, C. L. Hemme, Z.H. He, and J.-Z. Zhou. 2011. Isolation and  Characterization of Shigella flexneri G3, Capable of Effective Cellulosic  Saccharification under Mesophilic Conditions. Appl. Environ. Microbiol, 77:  517-523.

17.Wang. J., J. D. Van Nostrand, L. Wu, Z. He, G. Li, and J.-Z.  Zhou. 2011. Microarray-Based Evaluation of Whole-Community Genome DNA  Amplification Methods. Appl. Environ. Microbiol, 77: 4241-4245.

18.Wu, WM, J. Carley, D. Watson , B.H. Gu, S. Brooks, S. S. Kelly,  K. Kemner, J. D. van Nostrand , L. Wu, M. Xu, J.-Z. Zhou, J. Luo, E.  Cardenas, C. Hwang, M. W. Fields, T. L. Marsh, J. M. Tiedje, S. J. Green, J.  E. Kostka, P. K. Kitanidis, P. M. Jardine, C. S. Criddle. 2011. Bioreduction  and immobilization of uranium in situ: a case study at a USA Department of  Energy radioactive waste site, Oak Ridge, Tennessee. Acta Scientiae  Circumstaniae. 3: 449-459.

19.Xie, J.P. Z.H. He, X.X. Liu, X.D. Liu, J. D. Van Nostrand, Y.  Deng, L.Y. Wu, J.-Z. Zhou, and G.-Z. Qiu. 2011. GeoChip-Based Analysis of the  Functional Gene Diversity and Metabolic Potential of Microbial Communities in  Acid Mine Drainage. Appl. Environ. Microbiol, 77: 991-999.

20.Xie, J.P., H.C., Jiang, X.X. Liu, X.D. Liu, J.-Z. Zhou, and G.Z.  Qiu. 2011. 16s rDNA based microbial diversity analysis of eleven acid mine  drainages obtained from three Chinese copper mines . Journal of Central South  University of Technology, 18: 1930-1939.

21.Zhou, J-.Z. *, L.-Y. Wu*, Y. Deng, X.-Y. Zhi, Y.-H. Jiang, Q.-C.  Tu, J.-P. Xie, J. D. Van Nostrand, Z.-H. He, and Y.-F. Yang. 2011.  Reproducibility and Quantitation of Amplicon Sequencing-Based Detection. The  ISME J. 5: 1303-1313.

22.Zhou, J., Q. He, C. L. Hemme, A. Mukhopadhyay, K. Hillesland, A.  Zhou, Z. He, J. D. Van Nostrand, T. C. Hazen, D. A. Stahl, J. D. Wall, and A.  P. Arkin. 2011. How sulphate-reducing microorganisms cope with stress:  lessons from systems biology. Nature Review in Microbiology. 9:452-466.

23.Zhou. J, Ye Deng, Feng Luo, Zhili He, and Yunfeng Yang. 2011.  Phylogenetic Molecular Ecological Network of Soil Microbial Communities in  Response to Elevated CO2. mBio 2(4):e00122-11.