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CME Publications

References are listed chronologically by year 
and then alphabetically by author. 
   
   
   2000   
   
   Bills, G.F., M. Christensen, M. Powell and G. Thorn.  2000.  Saprobic soil fungi, In:    
   Measuring and monitoring biodiversity: standard methods for fungi, G.M. Mueller, G.F.    
   Bills and M. Foster, eds. Smithsonian Institution Press, Washington (In press).   
   
   Evtushenko, L.I., V.V. Taran, V.N. Akimov, R.M. Kroppenstedt, J.M. Tiedje, and E.    
   Stackebrandt.  2000.  Nocardiopsis tropica sp. nov., Nocardiopsis trehalosi sp. nov.,    
   nom. rev., and Nocardiopsis dassonvillei subsp. albirubida subsp. nov., comb. nov.  Int.    
   J. Syst. Evol. Microbiol. (In press).   
   
   Evtushenko, L.I., L.V. Dorofeeva, S.A. Subbotin, J.R. Cole, and J.M. Tiedje.  2000.     
   Leifsonia poae gen. nov., sp. nov., isolated from nematode galls on Poa annua, and    
   reclassification of 'Corynebacterium aquaticum' Leifson 1962 as Leifsonia aquatica (ex    
   Leifson 1962) gen. nov., nom. rev., comb. nov. and Clavibacter xyli Davis et al. 1984    
   with two subspecies as Leifsonia xyli (Davis et al. 1984) gen. nov., comb. nov.  Int. J.    
   Syst. Evol. Microbiol. (In press).   
   
   Flynn, S. J., Löffler, F. E., and J. M. Tiedje. 2000. Microbial community changes   
   associated with a shift from reductive dechlorination of PCE to   
   reductive dechlorination of cis-DCE and VC. Environ. Sci. Technol. 34:1056-1061.    
   
   Hibbett, D.S. and R.G. Thorn.  2000.  Homobasidiomycetes.  In: The Mycota, vol. VII,    
   D.J. McLaughlin, ed. Springer-Verlag, New York (In press).     
   
   Löffler, F. E., Q. Sun, J. Li, and J. M. Tiedje. 2000. 16S rRNA Gene-based detection of    
   tetrachloroethene (PCE)-dechlorinating Desulfuromonas and   
   Dehalococcoides species. Appl. Environ. Microbiol. 66: Appl. Environ. Microbiol. 66:1369-1374.    
   
   
   1999   
   
   Adriaens, P.  1999.  Kritische analyse von natural (bio)attenuation raten und modellen:    
   Anwendung auf aerobe und anaerobe prozessen (in German).  Dechema Symposium on    
   Natural Attenuation, Frankfurt a.M., Germany.   
   
   Adriaens, P., A.L. Barkovskii, and I.D. Albrecht.  1999.  Fate of chlorinated aromatic    
   compounds in soils and sediments.  In: D.C. Adriano, J.-M. Bollag, W.T. Frankenberger,    
   and R. Sims (Eds), Bioremediation of contaminated soils, Soil Science Society of    
   America/American Society of Agronomy Monograph, Soil Science Society of America    
   Press, Madison WI. In Press.   
   
   Adriaens, P., Q.S. Fu, I.D. Albrecht, and A.L Barkovskii.  1999.  Effects of sediment    
   biogeochemistry on dioxin dechlorination patterns: The New York-New Jersey Estuary.     
   Short Paper Dioxin '99, Venice Italy.   
   
   Albrecht, I.D., A.L. Barkovskii, and P. Adriaens.  1999.  Production and dechlorination    
   of 2,3,7,8-tetrachloro-dibenzo-p-dioxin (TCDD) in historically-contaminated estuarine    
   sediments.  Environ. Sci. Technol. 33: 737-744.   
   
   Bennett, A.F., and R.E. Lenski.  1999.  Experimental evolution and its role in    
   evolutionary physiology.  American Zoologist 39:346-362.   
   
   Bohannan, B.J.M., and R.E. Lenski.  1999.  Effect of prey heterogeneity on the response    
   of a model food chain to resource enrichment.  The American Naturalist 153:73-82.   
   
   Bruns, M.A., J.R. Stephen, G.A. Kowalchuk, J.I. Prosser and E.A. Paul.  1999.     
   Comparative diversity of ammonia oxidizer 16S rRNA gene sequences in native, tilled, and    
   successional soils.  Appl. Environ. Microbiol. 65:2994-3000.   
   
   Cavigelli, M.A. and G.P. Robertson.  1999.  The functional significance of denitrifier    
   community composition in a terrestrial ecosystem.  Ecology (In press).   
   
   Cavigelli, M.A. and G.P. Robertson.  1999.  The role of denitrifier diversity in rates of    
   nitrous oxide consumption in a terrestrial ecosystem.  Soil Biology and Biochemistry    
   (Submitted).   
   
   Cosper, N.J., C.V.M. Stalhanske, R.E. Saari, R.P. Hausinger, and R.A. Scott.  1999.     
   X-ray absorption spectroscopic analysis of Fe(II) and Cu(II) forms of an herbicide-   
   degrading a-ketoglutarate dioxygenase.  J. Biol. Inorg. Chem. 4:122-129.   
   
   Dazzo, F.B., Y.G. Yanni, R.Rizk, F. de Bruijn, V. Corich, A. Squartini, P. Mateos, E.    
   Martinez-Molina, J. Biswas, J.K. Ladha, J. Weinman, B. Rolfe, A. Hartmann, O.    
   Glagoleva, M. Vega-Hernandez, R.I. Hollingsworth, M. Leon-Barrios, and R. Perez-   
   Galdona.  1999.  Ecology and plant growth-promoting activities of the natural association    
   between Rhizobium leguminosarum bv. trifolii and rice roots.  In: E. Martinez-Romero and    
   G. Hernandez, eds., Highlights in Nitrogen Fixation Research, pp. 101-104,    
   Kluwer/Plenum Publishers, NY.   
   
   Dazzo, F., and J. Wopereis.  1999.  Unraveling the infection process in the Rhizobium-   
   legume symbiosis.  In: E. Triplett (ed.), Prokaryotic nitrogen fixation: a model system for    
   the analysis of a biological process.  Horizon Scientific Press, (In press).    
   
   Dazzo, F.B., Y.G. Yanni, R. Rizk, F. de Bruijn, J. Rademaker, A. Squartini, V. Corich,    
   P. Mateos, E. Martinez-Molina, E. Velazquez, J. Biswas, R. Hernandez, J.K. Ladha, J.    
   Hill, J. Weinman, B. Rolfe, M. Vega-Hernandez, J.J. Bradford, R.I. Hollingsworth, P.    
   Ostrom, E. Marshall, T. Jain, G. Orgambide, S. Philip-Hollingsworth, E. Triplett, K.    
   Malik, J. Maya-Flores, A. Hartmann, M. Umali-Garcia, and M.L. Izaguirre-Mayoral.     
   1999.  Progress in multi-national collaborative studies on the beneficial association between    
   Rhizobium leguminosarum bv. trifolii and rice.  In: J.K. Ladha and M. Peters (eds.),    
   Assessing opportunities for nitrogen fixation in rice. International Rice Research Institute,    
   Manila, The Phillipines, (In press).   
   
   De Visser, J.A.G.M., C.W. Zeyl, P.J. Gerrish, J.L. Blanchard, and R.E. Lenski.  1999.     
   Diminishing returns from mutation supply rate in asexual populations.  Science 283:404-   
   406.   
   
   Dean, S.M., J.M. Lendvay, M. Barcelona, P. Adriaens, and N.D. Katopodes.  1999.  The    
   use of multilevel sampling wells to monitor groundwater and contaminant discharge in a    
   surface water.  Groundwater Monitoring and Remediation (GWMR).  (In press).   
   
   Dedysh, S.N., W. Liesack, V.N. Khmelenina, N.E. Suzina, Y.A. Trotsenko, J.D.    
   Semrau, A.M. Abing, N.S. Panikov and J.M. Tiedje.  1999.  Methylocella palustris gen.    
   nov., sp. nov., a new methane-oxidizing acidophilic bacterium from peat bogs,    
   representing a novel subtype of serine pathway methanotrophs.  Int'l. J. Syst. Bacteriol.    
   (In press).   
   
   Fernandez, A., S. Huang, S. Seston, J. Xing, R. Hickey, C. Criddle and J. Tiedje.  1999.     
   How stable is stable? Function versus community composition.  Appl. Environ. Microbiol.    
   65:3697-3704.   
   
   Fu, Q., A.L Barkovskii, and P. Adriaens.  1999.  Reductive transformation of dioxins: an    
   assessment of the contribution of dissolved organic matter to dechlorination reactions.     
   Environ. Sci. Technol.  (In press).   
   
   Garrity, G.M. and J.C. Hunter-Cevera.  1999.  Bioprospecting in the developing world.     
   Current Opinions in Microbiology.  Current Opinion in Microbiology, 2:236-240   
   
   Hausinger, R.P., and P.A. Karplus.  1999.  Use of urea-based fertilizers to stimulate plant    
   growth.  NRI Research Highlights. U. S. Dept. Agric. (In press).   
   
   Hogan, D.A., T.A. Auchtung, and R.P. Hausinger.  1999.  Cloning and characterization    
   of a sulfonate/a-ketoglutarate dioxygenase from Saccharomyces cerevisiae.  J. Bacteriol.    
   (In press).   
   
   Hrywna, Y., T.V. Tsoi, O.V. Maltseva, J.F. Quensen III and J.M. Tiedje.  1999.     
   Construction and characterization of two recombinant bacteria that grow on ortho- and    
   para-substituted chlorobiphenyls.  Appl. Environ. Microbiol. 65:2163-2169.   
   
   Leadbetter, J.R., T.M. Schmidt, J.R. Graber, and J.A. Breznak.  1999.  Acetogenesis    
   from H2 plus CO2 by spirochetes from termite guts.  Science 283:686-689.   
   
   Lendvay, J.M., and P. Adriaens.  1999.  Laboratory evaluation of temporal trends in    
   biogeochemical conditions at a groundwater-surface water interface.  Phys. Chem. Earth,    
   24(6):511-516.   
   
   Lenski, R.E.  1999.  Schools, society need evolutionary science (Op-ed).  The Detroit    
   News, Sunday, March 21.   
   
   Lenski, R.E.  1999.  Evolution, theory and experiments.  In: J. Lederberg, editor.     
   Encyclopedia of Microbiology, 2nd edition.  Academic Press, San Diego.  (In press).   
   
   Lenski, R.E., and J.A. Mongold.  1999.  Cell size, shape, and fitness in evolving    
   populations of bacteria.  In: J.H. Brown and G.B. West, eds.  Scaling in Biology.  Oxford    
   University Press.   
   
   Lenski, R.E., C. Ofria, T.C. Collier, and C. Adami.  1999.  Genome complexity,    
   robustness and genetic interactions in digital organisms.  Nature 400:661-664.   
   
   Lilburn, T.G., T.M. Schmidt and J.A. Breznak.  1999.  Phylogenetic diversity of termit    
   gut spirochetes. Environ. Microbiol. 1:331-346.   
   
   Löffler, F.E., J.M. Tiedje and R.A. Sanford.  1999.  Fraction of electrons    
   consumed in electron acceptor reduction and hydrogen thresholds as indicators of    
   halorespiratory physiology.  Appl. Environ. Microbiol. 65:4049-4056.   
   
   Lopez, F.A., J. Manglicmot, T.M. Schmidt, C. Yeh, H.V. Smith, D.A. Relman.  1999.     
   Molecular characterization of Cyclospora-like organisms from baboons. J. Infec. Dis.    
   179:670-676.   
   
   Maidak, B.L., J.R. Cole, C.T. Parker, Jr., G.M. Garrity, N. Larsen, B. Li, T.G.    
   Lilburn, M.J. McCaughey, G.J. Olsen, R. Overbeek, S. Pramanik, T.M. Schmidt, J.M.    
   Tiedje and C.R. Woese.  1999.  A new version of the RDP (Ribosomal Database Project).    
   Nucl. Acids Res., 27:171-173.   
   
   Maltseva, O.V., T.V. Tsoi, J.F. Quensen III, M. Fukuda and J.M. Tiedje.  1999.     
   Degradation of anaerobic reductive dechlorination products of Aroclor 1242 by four aerobic    
   bacteria.  Biodegradation (In press).   
   
   Marsh, T.L.  1999.  Terminal restriction fragment length polymorphism (T-RFLP): an    
   emerging method for characterizing diversity among homologous populations of    
   amplification products. Curr. Opin. Microbiol. 2:323-327.   
   
   Mongold, J.A., A.F. Bennett, and R.E. Lenski.  1999.  Evolutionary adaptation to    
   temperature. VII. Extension of the upper thermal limit of Escherichia coli.  Evolution    
   53:386-394.   
   
   Nüsslein, K. and J.M. Tiedje.  1999.  Soil bacterial community shift correlated with    
   change from forest to pasture vegetation in a tropical soil.  Appl. Environ. Microbiol.    
   65:3622-3626.   
   
   Papadopoulos, D., D. Schneider, J. Meier-Eiss, W. Arber, R.E. Lenski, and M. Blot.     
   1999.  Genomic evolution during a 10,000-generation experiment with bacteria.     
   Proceedings of the National Academy of Sciences, USA 96:3807-3812.   
   
   Paul, E.A., D. Harris, M. Klug, and R. Ruess.  1999.  The determination of microbial    
   biomass.  Pages 291-317 in G.P. Robertson, C.S. Bledsoe, D.C. Coleman, and P.    
   Sollins, eds.  Standard Soil Methods for Long-Term Ecological Research.  Oxford    
   University Press, New York (In press).   
   
   Prayitno, J., J. Stefaniak, J. McIver, J.J. Weinman, F.B. Dazzo, J.K. Ladha, W.    
   Baraquio, Y.G. Yanni, and B.G. Rolfe.  1999.  Interactions of rice seedlings with    
   nitrogen-fixing bacterial isolated from rice roots. Austr. J. Plant Physiol. 26, (In press).   
   
   Romanov, V., M.T. Merski, and R.P. Hausinger.  1999.  Assays for allantoinase. Anal.    
   Biochem. 268:49-53.   
   
   Rozen, D.E., and R.E. Lenski.  1999.  Long-term experimental evolution in Escherichia    
   coli. VIII.  Dynamics of a balanced polymorphism.  The American Naturalist (In press).   
   
   Saari, R.E., D.A. Hogan, and R.P. Hausinger.  1999.  Stereospecific degradation of the    
   phenoxypropionate herbicide dichlroprop. J. Molec. Catalysis 6:421-428.   
   
   Selig, H., K.F. Hayes, and P. Adriaens.  1999.  The Role of Silica Dissolution on the    
   Biodegradation of Octylamine.  Environ. Sci. Technol., (In Press).   
   
   Sepulveda-Torres, L. del C., N. Rajendran, M.J. Dybas and C.S. Criddle.  1999.    
   Generation and initial characterization of Pseudomonas stutzeri KC mutants with impaired    
   ability to degrade cahrbon tetrachloride. Arch. Microbiol. 171:424-429.   
   
   Sinsabaugh, R.L., M.J. Klug, H.P. Collins, P.E. Yeager, and S.O. Peterson.  1999.     
   Characterizing soil microbial communities. Pages 318-348 in G.P. Robertson, C.S.    
   Bledsoe, D.C. Coleman, and P. Sollins, eds. Standard Soil Methods for Long-Term    
   Ecological Research.  Oxford University Press, New York (In press).   
   
   Skubal, K.L., S.K. Haack, L.J. Forney, and P. Adriaens.  1999.  Effects of Dynamic    
   Redox Zonation on the Potential for Natural Attenuation of Trichloroethylene at a Fire-   
   Training Impacted Aquifer.  Phys. Chem. Earth, 24(6):517-527.   
   
   Song, B., M.M. Haggblom, J. Zhou, J.M. Tiedje and N.J. Palleroni.  1999.  Taxonomic    
   characterization of denitrifying bacteria that degrade aromatic compounds and description of    
   Azoarcus toluvorans sp. nov. and Azoarcus toluclasticus sp. nov.  Int'l. J. Syst. Bacteriol.    
   49:1129-1140.   
   
   Tiedje, J.M.  1999.  20 years since Dunedin:  The past and future of microbial ecology.     
   pp.    In: C.R. Bell, M. Brylinsky, P. Johnson-Green (eds.).  Microbial Biosystems: New    
   Frontiers.  (In press).   
   
   Tiedje, J.M. and J.L. Stein.  1999.  Microbial Biodiversity:  Strategies for its recovery.    
   pp.682-692.  In: A.L. Demain and J. Davies (eds.).  Manual of Industrial Microbiology    
   and Biotechnology.  Amer. Soc. Microbiol., Washington, DC.   
   
   Tiedje, J.M., S. Asuming-Brempong, K. Nusslein, T.L. Marsh and S.J. Flynn.  1999.     
   Opening the black box of soil microbial diversity.  Appl. Soil Ecol. 386:1-14.   
   
   Thorn, R.G., J.-M. Moncalvo, R. Vigalys and C.A. Reddy.  1999.  Phylogenetic analyses    
   and the distribution of nematophagy support a monophyletic Pleurotaceae within the    
   polyphyletic pleurotoid-lentinoid fungi. Mycologia (In press).   
   
   Thorn, R.G.  1999.  Soil fungi. In: Handbook of Soil Science, M.E. Sumner, ed. CRC    
   Press, Boca Raton, FL, pp. C22-C37 (In press).    
   
   Tsoi, T.V., E.G. Plotnikova, J.R. Cole, W.F. Guerin, M. Bagdasarian and J.M. Tiedje.     
   1999.  Cloning, expression, and nucleotide sequence of the Pseudomonas aeruginosa 142    
   ohb genes coding for oxygenolytic ortho dehalogenation of halobenzoates.  Appl. Environ.    
   Microbiol. 65:2151-2162.   
   
   Vasi, F.K., and R.E. Lenski.  1999.  Ecological strategies and fitness tradeoffs in    
   Escherichia coli mutants adapted to prolonged starvation.  J. Genetics (In press).    
   
   Velicer, G.J.  1999.  Pleiotropic effects of bacterial adaptation to a single carbon source for    
   growth on alternative substrates.  Appl. Environ. Microbiol. 65:264-269.   
   
   Velicer, G.J., and R.E. Lenski.  1999.  Evolutionary tradeoffs under conditions of    
   resource abundance and scarcity: experiments with bacteria. Ecology 80:1168-1179.   
   
   Velicer, G., T.M. Schmidt and R.E. Lenski.  1999.  Application of traditional and    
   phylogenetic comparative methods to test for a tradeoff in bacterial growth rates at low    
   versus high substrate concentration. Microbial Ecology (In Press).    
   
   Vulic, M., R.E. Lenski, and M. Radman.  1999.  Mutation, recombination and incipient    
   speciation of bacteria in the laboratory.  Proceedings of the National Academy of Sciences,    
   USA 96:7348-7351.   
   
   Wall, D.B., D.M. Lubman and S.J. Flynn.  1999.  Rapid profiling of induced proteins in    
   bacteria using MALDI-TOF mass spectrometric detection of non-porous RP HPLC    
   separated whole cell lysates.  (Submitted).   
   
   Witt, M.E., M.J. Dybas, R.M. Worden and C.S. Criddle.  1999.  Motility-enhanced    
   bioremediation of carbon tetrachloride-contaminated aquifer sediments.  Environ. Sci.    
   Tech. 33:2958-2964.   
   
   Ye, D., J.F. Quensen, III, J.M. Tiedje and S.A. Boyd.  1999.  2-Bromoethanesulfonate,    
   sulfate, molybdate, and ethanesulfonate inhibit anaerobic dechlorination of    
   polychlorobiphenyls by pasteurized microorganisms.  Appl. Environ. Microbiol.  65:327-   
   329.   
   
   Zhao, X., M.J. Szafranski, M.A. Maraqa, and T.C. Voice.  1999.  Sorption and    
   bioavailability of carbon tetrachloride in a low organic content sandy soil. Environ. Tox.    
   Chem. 18(8).
   
   
   1998   
   
   Albrecht, I.D., A.L. Barkovskii, and P. Adriaens.  1998.  Stimulation of PCDD    
   dechlorination in historically-contaminated sediments.  In Johanson, N., A. Bergman, D.    
   Broman, H. Hakanson, B. Janson, E.K. Wehler, L. Poellinger, and B. Wahlstron (Eds.),    
   Organohalogen compounds 36, pp. 437-441.  Swedish Environmental Protection Agency,    
   Stockholm Sweden.   
   
   Bratina, B.J., B. Stevenson, W. J.  Green and T.M. Schmidt.  1998.   
   Manganese reduction by microbes from oxic regions of the Lake Vanda   
   (Antarctica) water column. Applied and Environmental Microbiology   
   64: 3791-3797.   
   
   Bruns, M.A., M.A. Fries, J.M. Tiedje and E.A. Paul.  1998.  Functional gene    
   hybridization patterns of terrestrial ammonia-oxidizing bacteria.  Microbial Ecology 36:293-   
   302.   
   
   Buckley, D.H., J.R. Graber and T.M. Schmidt.  1998.  Phylogenetic analysis   
   of nonthermophilic Crenarchaeota and their diversity and abundance in   
   soils.  Applied and Environmental  Microbiology 64: 3781-3787.   
   
   Button, D.K., B.R. Robertson, L. Pinto, P.W. Lepp and T.M. Schmidt.   
   1998.  A high affinity, small, dilute, extinction-culture isolate   
   having kinetic constants compatible with growth at ambient   
   concentrations of dissolved nutrients in seawater. Applied and   
   Environmental Microbiology 64:4467-4476.   
   
   Dazzo, F.B., Y.G. Yanni, A. Squartini, P. Mateos, F. de Bruijn, T. Schmidt, J.K. Ladha,    
   B. Rolfe, and A. Hartmann.  1998.  Natural beneficial association of Rhizobium    
   leguminosarum bv. trifolii and rice roots and its relevance to sustainable agriculture. In: C.    
   Elmerich, A. Kondorosi, and W. Newton (eds), Biological Nitrogen Fixation for the 21st    
   Century. pp. 627-628, Kluwer Academic Publishers, Dordrecht.   
   
   Dedysh, S.N., N.S. Panikov, W. Liesack, R. Grobkopf, J. Zhou and J.M. Tiedje.  1998.     
   Isolation of acidophilic methane-oxidizing bacteria from Northern peat wetlands.  Science    
   282:281-284.   
   
   Dedysh, S.N., N.S. Panikov and J.M. Tiedje.  1998.  Acidophilic    
   methanotrophic communities from Sphagnum peat bogs.   
   Appl. Environ. Microbiol. 64:922-929.   
   
   Dybas, M.J., M. Barcelona, S. Bezborodnikov, S. Davies, L. Forney, H. Heuer, O.    
   Kawka, T. Mayotte, L. Sepulveda-Torres, K. Smalla, M. Sneathen, J. Tiedje, T. Voice,    
   D.C. Wiggert, M.E. Witt and C.S. Criddle.  1998.  Pilot-scale evaluation of    
   bioaugmentation for in-situ remediation of a carbon tetrachloride-contaminated aquifer.     
   Environ. Sci. Technol. 32:3598-3611.   
   
   Fulthorpe, R.R., A.N. Rhodes and J.M. Tiedje. 1998.  High levels of    
   endemicity apparent in 3-chlorobenzoate degrading soil bacteria.  Appl.    
   Environ. Microbiol. (IN Press).   
   
   Huberty, L.E., K.L. Gross, and C.J. Miller.  1998.  Effects of nitrogen addition on    
   successional dynamics and diversity in Michigan old-fields.  J. Ecol. 86:794-803.   
   
   Jackson, J.H., R. George, H.O. Adeyemi, M.A. Winrow, P.A. Herring, J.J.   
   Caguiat, C.F. Mulks, R.Srikanth, S.H. Harrison and R.E. Mickens.  1998.   
   Characterization of base periodicities in protein-coding genes.     
   J. Biol. Systems (In Press).   
   
   Kim, K. S., T. G. Lilburn, M. J. Renner and J. A. Breznak.  1998.  arfI and   
   arfII:  two genes encoding a-L-arabinofuranosidases in Cytophaga   
   xylanolytica.   Appl. Environ. Microbiol.  64:1919-1923.   
   
   Leadbetter, J. R., L. D. Crosby and J. A. Breznak.  1998.   
    Methanobrevibacter filiformis sp. nov., a filamentous methanogen from   
   termite hindguts. Arch. Microbiol.  169:287-292.   
   
   Lendvay, J.M., S.M. Dean and P. Adriaens.  1998.  Temporal and spatial trends in    
   biogeochemical conditions at a groundwater-surface water interface: implications for natural    
   bioattenuation.  Environ. Sci. Technol. 32:3472-3478.   
   
   Lendvay, J.M., W.A. Sauck, M.L. McCormick, M.J. Barcelona, D.H. Kampbell, J.T.    
   Wilson, and P. Adriaens.  1998.  Geophysical characterization, redox zonation, and    
   contaminant distribution at a groundwater-surface water interface.  Wat. Resour. Res.    
   34:3545-3559.   
   
   Lenski, R.E.  1998.  Bacterial evolution and the cost of antibiotic resistance.  International    
   Microbiology 1:265-270.   
   
   Lenski, R.E., J.A. Mongold, P.D. Sniegowski, M. Travisano, F. Vasi, P.J.   
   Gerrish, and T.M. Schmidt.  1998.  Evolution of competitive fitness in   
   experimental populations of E. coli: What makes one genotype a better   
   competitor than another?  Antonie van Leeuwenhoek 73:35-47.   
   
   Lepp, P.W. and T.M. Schmidt.  1998.  Nucleic acid content of   
   Synechococcus spp. during growth in continuous light and light:dark   
   cycles. Archives of Microbiology 170:201-207.   
   
   Liu, W-T, T.L. Marsh, and L.J. Forney.  1998.  Determination of microbial diversity of    
   anaerobic-aerobic activated sludge by a novel molecular biological technique.  Proceedings    
   Second International Conference on Microorganisms in Activated Sludge and Biofilm    
   Processes. Wat. Sci. Tech. 37.   
   
   Lopez, F.A. J. Manglicmot, T.M. Schmidt, C. Yeh, H.V. Smith, D.A. Relman.   
   1998.  Molecular characterization of Cyclospora-like organisms   
   from baboons. Journal of Infectious Diseases. In Press.   
   
   Lynam, M., J. Damborsky, M. Kuty, and P. Adriaens.  1998.  Molecular orbital    
   calculations to probe mechanism of reductive dechlorination of polychlorinated dioxins.     
   Environ. Toxicol. Chem.  17(6):998-1005.   
   
   McGowan, C., R. Fulthorpe, A. Wright and J.M. Tiedje.  1998.  Evidence for interspecies    
   gene transfer in the evolution of 2,4-dichlorophenoxyacetic acid degraders.  Appl. Environ.    
   Microbiol. 64:4089-4092.   
   
   Moyer, C.L., J.M. Tiedje, F.C. Dobbs and D.M. Karl.  1998.  Diversity of   
   deep-sea hydrothermal vent Archaea at Loihi Seamount, Hawaii.     
   Deep Sea Research (In Press).   
   
   Nuesslein, K. and J.M. Tiedje. 1998.  Characterization of the dominant    
   and rare members of a young soil bacterial community with small-subunit    
   ribosomal DNA amplified from DNA fractionated on the basis of its    
   guanine and cytosine composition.  Appl. Environ. Microbiol. (In Press).   
   
   Princic, A., I. Mahne, F. Megusar, E.A. Paul and J.M. Tiedje.  1998.  Effects of pH and    
   oxygen and ammonium concentrations on the community structure of nitrifying bacteria    
   from wastewater.  Appl. Environ. Microbiol.  64:3584-3590.   
   
   Renner, M. J. and J. A. Breznak.  1998.  Purification and properties of   
   ArfI, an a-L-arabinofuranosidase from Cytophaga xylanolytica.  Appl.   
   Environ. Microbiol. 64:43-52.   
   
   Santo Domingo, J.W., M.G. Kaufman, M.J. Klug, W.E. Holben, D. Harris   
   and J. M. Tiedje.  1998.  Influence of diet on the structure and function   
   of the bacterial hindgut community of crickets.  Molec. Ecol. (In Press)   
   
   Santo Domingo, J.W., M.G. Kaufman, M.J. Klug and J. M. Tiedje.  1998.     
   Characterization of the cricket hindgut microbiota using rRNA-targeting probes.   
   Appl. Environ. Microbiol. (In Press).   
   
   Stevenson, B. and T.M. Schmidt. 1998.  Growth rate dependent   
   accumulation of RNA from plasmid-borne ribosomal RNA operons. Journal of    
   Bacteriology 180:1970-1972.    
   
   van Elsas, J.D., B.B. McSpadden Gardner, A.C. Wolters and E. Smit.  1998.   
   Isolation, characterization, and transfer of cryptic gene-mobilizing palsmids   
   in the wheat rhizoshere.  Appl. Environ. Microbiol. 64:880-889.   
   
   Velicer, G.J., L. Kroos, and R.E. Lenski.  1998.  Loss of social behaviors by    
   Myxococcus xanthus during evolution in an unstructured habitat. Proceedings of the    
   National Academy of Sciences, USA 95:12376-12380.   
   
   Wischnak, C., F. E. Löffler, J. Li, J. W. Urbance, and R. Müller. 1998. Isolation and    
   characterization of a Pseudomonas species that degrades   
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   1997   
   
   Bratina, B.J., M. Viebahn, and T.M. Schmidt. 1997.  Achieving   
   specificity in nucleic acid hybridizations using nuclease S1. Methods in   
   Molecular and Cellular Biology  6:107-115.   
   
   Brussaard, L., V.M. Behan-Pelletier, D.E. Bignell, V.K. Brown, W.A.M.    
   Didden, P.I. Folgarait, C. Fragoso, D.W. Freckman, V.V.S.R. Gupta,    
   T. Hattori, D. Hawksworth, C. Klopatek, P. Lavelle, D. Malloch, J. Rusek,    
   B. Soderstrom, J.M. Tiedje and R.A. Virginia. 1997.  Biodiversity and    
   ecosystem functioning in soil.  AMBIO 26:563-570.   
   
   Chong, B.E., D.B. Wall, S.J. Flynn and D.M. Lubman.  1997.  Rapid profiling of E. coli    
   proteins up to 500 kDa from whole cell lysates using matrix-assisted laser    
   desorption/ionization time-of-flight mass spectrometry.  Rapid Communications in Mass    
   Spectrometry.  11:1900-1908.   
   
   Emerson, D. and J. A. Breznak.  1997.  The response of microbial   
   populations from oil-brine contaminated soil to gradients of NaCl and   
   sodium p-toluate in a diffusion gradient chamber. FEMS Microbiol. Ecol. 23:285-300.   
   
   Emerson, D. and C. Moyer.  1997.  Isolation and characterization of novel    
   iron-oxidizing bacteria that grow at circumneutral pH.  Appl. Environ.    
   Microbiol. 63:4784-4792.   
   
   Hogan, D.A., D.H. Buckley, C. Nakatsu, T.M. Schmidt and R.P. Hausinger.   
   1997.  Distribution of tfdA in soil isolates that do not degrade   
   2,4-dichlorophenoxyacetic acid (2,4-D). Microbial Ecology 34:90-96.   
   
   Larsen, N., R. Overbeek, S. Pramanik, T.M. Schmidt, E.E. Selkov, O.   
   Strunk, J.M. Tiedje, and J.W. Urbance.  1997.  Towards microbial data   
   integration.  Journal of Industrial Microbiology and Biotechnology   
   18:68-72.   
   
   Löffler, F. E., J. E. Champine, K. M. Ritalahti, S. J. Sprague, and J. M. Tiedje. 1997.    
   Complete reductive dechlorination of 1,2-dichloropropane by   
   anaerobic bacteria. Appl. Environ. Microbiol. 63:2870-2875.    
   
   Löffler, F. E., K. M. Ritalahti, and J. M. Tiedje. 1997. Dechlorination of chloroethenes is    
   inhibited by 2-bromoethanesulfonate in the absence of   
   methanogens. Appl. Environ. Microbiol. 63:4982-4985.    
   
   Maltseva, O. and P. Oriel.  1997.  Monitoring of an Alkaline 2,4,6-trichlorophenol-   
   degrading enrichment culture by DNA fingerprinting methods and isolation of the    
   responsible organism, haloalkaliphilic Nocardioides sp. strain M6.  Appl. Environ.    
   Microbiol. 63:4145-4149.   
   
   McSpadden Gardner, B.B. and A.K. Lilley.  1997.  Application of common   
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   Rossman, A.Y., R.E. Tuloss, T.E. O'Dell and R.G. Thorn, eds.  1997.  Protocols for an    
   All Taxa Biodiversity Inventory of Fungi in a Costa Rican Conservation Area. Parkway    
   Publishers, Boone, NC.    
   
   Thorn, R.G.  1997.  The fungi in soil.  In: Modern Soil Microbiology, J.D. van Elsas,    
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   Adriaens, P., A.L. Barkovskii, and I.D. Albrecht.  1996.  Fate of    
   chlorinated aromatic compounds in soils and sediments  In D.C. Adriano,    
   J.-M. Bollag, W.T. Frankenburger, and R. Sims (Eds), Bioremediation of    
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   Adriaens, P., A.L. Barkovskii and M. Lynam.  1996.  Polychlorinated    
   dibenzo-p-dioxins in anaerobic soils and sediments: A quest for    
   dechlorination pattern-microbial activity relationships.  In J. Damborsky, I.    
   Holoubek, and W. Peijnenburg, QSAR Biodegradation II.  Kluwer    
   Academic Publishers, The Netherlands.  Accepted.   
   
   Bennett, A.F. and R.E. Lenski. 1996.  Evolutionary adaptation to    
   temperature. V. Adaptive mechanisms and correlated responses in    
   experimental lines of Escherichia coli.  Evolution.  50:493-503.   
   
   Bonhoeffer, S., R.E. Lenski and D. Ebert. 1996.  The curse of the    
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   propagules.  Proceedings of the Royal Society, London B 263: 715-721.   
   
   Bratina, B.J., M. Viebahn and T.M. Schmidt. 1996  Achieving specificity    
   in nucleic acid hybridizations using nuclease S1.  Methods in Molecular and    
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   Bratina, B.J., W. Green and T.M. Schmidt. 1996  Microbial interactions    
   with manganese cycling in Lake Vanda.  Antarctic Journal of the U.S. 31.     
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   Chapelle, F.H., S.K. Haack, P. Adriaens, M.A. Henry, and P.M.    
   Bradley. 1996.  Comparison of Eh and H2 measurements for delineating    
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   Chatterjee, S., A.J. Grethlein, R.M. Worden, and M.K. Jain. 1996.     
   Evaluation of Support Matrices for an Immobilized Cell Gas Lift Reactor for    
   Fermentation of Coal Derived Synthesis Gas.  J. Fermentation Bioeng.     
   81:158-162.   
   
   Chee-Sanford, J.C., J.W. Frost, M.R. Fries, J. Zhou and J. M. Tiedje.    
   1996.  Evidence for Acetyl Coenzyme A and Cinnamoyl Coenzyme A in the    
   Anaerobic Toluene Mineralization Pathway in Azoarcus tolulyticus Tol-4.     
   Appl. Environ. Microbiol. 62(3): 964-973.   
   
   Collins, H.P., E.A Paul and K.H. Paustian. 1996.  Characterization of soil    
   organic matter relative to its stability and turnover. In E.A. Paul and K.    
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   Dazzo, F., K. Ninke, M. Rarick, H. Corlew, and M. Klug. 1996.     
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   Italy.   
   
   Dazzo, F.B., G.G. Orgambide, S. Philip-Hollingsworth, R.I.    
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   Development, Growth Dynamics, Wall Crystallinity, and Infection Sites in    
   White Clover Root Hairs by Membrane Chitolipooligosaccharides from    
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   Dazzo, F. and S. Wright. 1996.  Production of anti-microbial antibodies    
   and their use in immunofluorescence microscopy. In A. Akkermans, J. van    
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   Dunbar, J., D.C.L. Wong, M.J. Yarus and L.J. Forney. 1996.     
   Autoradiographic method for isolation of diverse microbial species with    
   unique catabolic traits.  Appl. Environ. Microbiol. 62(11).  In press.   
   
   Elena, S.F., V.S. Cooper and R.E. Lenski. 1996.  Punctuated evolution    
   caused by selection of rare beneficial mutations.  Science 272: 1802-1804.   
   
   Elena, S.F., V.S. Cooper and R.E. Lenski. 1996.  Mechanisms of    
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   Fries, M.R., L.J. Forney and J.M. Tiedje. 1996.  Phenol and toluene    
   degrading microbial populations from an aquifer where successful TCE    
   cometabolism occurred.  Appl. Environ. Microbiol.  In press.   
   
   Fries, M.R., G.D. Hopkins, P.L. McCarty, L.J. Forney and J.M. Tiedje.    
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   as the primary substrates for trichloroethene (TCE) cometabolism.  Appl.    
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   Fulthorpe, R.R., A.N. Rhodes, and J.M. Tiedje. 1996.  Pristine soils    
   mineralize 3-chlorobenzoate and 2,4-dichlorophenoxyacetic acid via    
   different microbial populations.  Appl. Environ. Microbiol.  62:1159-1166.    
   
   Garrity, G.M., B.K.Heimbuch and M. Gagliardi.  Isolation of    
   zoosporogenous actinomycetes from desert soils. 1996.  J. Industrial    
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   Hauschild, J.E., E. Masai, K. Sugiyama, T. Hatta, K. Kimbara, M.    
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   2,3-dihydroxybiphenyl 1,2-dioxygenase in the Rhodococcus sp. strain    
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   Hausinger, R. P., F. Fukumori, D. A. Hogan, T. M. Sassanella, Y.    
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   degradation: evolutionary implications. In: Microbial Diversity and Genetics    
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   Scientific Societies Press, Tokyo.  In press.   
   
   Hogan, D.A., D.H. Buckley, C.H. Nakatsu, T.M. Schmidt and R.P.    
   Hausinger.  1996.  The distribution of tfdA gene in soil isolates that do not    
   degrade 2,4-dichlorophenoxyacetic acid (2,4-D).  Microbial Ecology.  In    
   press.   
   
   Horwath, W.R., E.A. Paul, D. Harris, J. Norton, L. Jagger and K.A.    
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   Jimenez-Zurdo, J., P. Mateos, F.B. Dazzo and E. Martinez-Molina. 1996.     
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   Rhizobium leguminosarum bv. trifolii ANU843.  Soil Biology &    
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   Jimenez-Zurdo, J., P. F. Mateos, F. B. Dazzo and E. Martinez-Molina.    
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   Rhizobium and Bradyrhizobium species. Soil Biol. & Biochem.  28: 917-   
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   Johnson, P.A., F.C. Hoppensteadt, J.J. Smith and G.L. Bush.  1996.     
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   fidelity and non-habitat assortative mating.  Evolutionary Ecology.  10:187-   
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   Kim, J., J.R. Cole and S. Pramanik. 1996.  Alignment of possible    
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   Kim, J., J.R. Cole, E. Torng and S. Pramanik.  1996.  Inferring    
   relatedness of a macromolecule to a sequence database without sequencing.     
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   Kucklick, J.R., H.R. Harvey, P.H. Ostrom, N.E. Ostrom and J.E. Baker.    
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   Leadbetter, J.R. and J.A. Breznak. 1996. Physiological ecology of    
   Methanobrevibacter cuticularis sp. nov. and Methanobrevibacter curvatus    
   sp. nov. isolated from the hindgut of the termite Reticulitermes flavipes.     
   Appl. Environ. Microbiol.  62: 3620-3631.   
   
   Lenski, R.E., G.J. Velicer and R. Korona.  1996.  Experimental studies on    
   the evolution of bacteria that degrade 2,4-dichlorophenoxyacetic acid.  In K.    
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   Lepp, P.W. and T.M. Schmidt. 1996  Assessing the influence of predation    
   and resource limitation on microbial populations.  In Biotechnology Risk    
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   Löffler, F.E., R.A. Sanford and J.M. Tiedje.  1996.  Initial characterization    
   of a reductive dehalogenase from Desulfitobacterium chlororespirans strain    
   Co23.  Appl.  Environ. Microbiol.  62(10): 3809-3813.   
   
   Lonergan, D.J., H.L. Jenter, J.D. Coates, E.J.P. Phillips, T.M. Schmidt    
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   Maltseva O., C. McGowan, R. Fulthorpe and P. Oriel.  1996.  Degradation    
   of 2,4-dichlorophenoxyacetic acid by haloalkaliphilic bacteria.     
   Microbiology.  142:1115-1122.   
   
   Masten, S.J., M-M. Shu, M. Galbraith and S.H.R. Davies. 1996.     
   Oxidation of chlorinated benzenes using advanced oxidation processes.     
   Haz. Waste and Haz. Materials.  13(2):265-271.   
   
   Masten, S.J., M.J. Galbraith, and S.H.R. Davies. 1996.  Oxidation Of    
   Trichlorobenzene Using Advanced Oxidation Processes.  Ozone: Science    
   and Engineering.  Accepted for publication.   
   
   Matheson, V.G., L.J. Forney, Y. Suwa, C.H. Nakatsu, A.J. Sexstone,    
   and W.E. Holben. 1996.  Evidence for acquisition in nature of a    
   chromosomal 2,4-Dichlorophenoxyacetic acid/(-ketoglutarate dioxygenase    
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   Matheson, V. G., J. Munakata-Marr, P. L. McCarty, J. M. Tiedje, and L.    
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   remediation of an aquifer contaminated with trichloroethylene by    
   bioaugmentation with Burkholderia cepacia G4.  Proc. 10th Forum for    
   Appl. Biotechnol., Gent, Belgium.   
   
   Mayotte, T., M. Dybas and C.S. Criddle.  1996.  Bench-scale evaluation of    
   bioaugmentation to remediate carbon tetrachloride-contaminated aquifer    
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   Michel Jr. and C.A. Reddy.  1996.  Analzing key factors in yard trimmings    
   composting.  Biocycle 37(1):77-82.   
   
   Migaud, M.E., J.C. Chee-Sanford, J.M. Tiedje, and J.W. Frost.  1996.     
   Benzylfumaric, benzylmaleic, Z-, and E-phenylitaconic acids: synthesis,    
   characterization and correlation with a metabolite generated by Azoarcus    
   tolulyticus strain Tol-4 during anaerobic toluene degradation.  Appl.    
   Environ. Microbiol.  62:974-978.   
   
   Millcamps, A., A. Van Dommelen, J. Stigter, J. Vanderleyden and F.J. de    
   Bruijn. 1996.  The Azospirillum brasilense rpoN gene is involved in    
   nitrogen fixation, nitrate assimilation, ammonium uptake, and flagellar    
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   Mongold, J.A., A.F. Bennett, R.E. Lenski.  1996.  Evolutionary    
   adaptation to temperature.  IV. adaptation of Escherichia coli at a niche    
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   Mongold, J.A., A.F. Bennett, R.E. Lenski. 1996.  Experimental    
   investigations of evolutionary adaptation to temperature.  In I.A. Johnston    
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   Mongold, J.A.  Experimental approaches to studying the population    
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   Mongold, J.A., and R.E. Lenski.  1996.  Experimental rejection of a    
   nonadaptive explanation for increased cell size in Escherichia coli.  Journal    
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   Moyer, C.L., J.M. Tiedje, F.C. Dobbs and D.M. Karl. 1996.  A computer-   
   simulated restriction fragment length polymorphism analysis of bacterial    
   small-subunit rRNA genes: efficacy of selected tetrameric restriction    
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   Munakata-Marr, J., V. G. Matheson, L. J. Forney, J. M. Tiedje and P. L.    
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   by bioaugmentation and dissolved oxygen in aquifer microcosms.  Appl.    
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   Glycoconjugate and lipid components of Rhizobium 'hedysari' IS123, a    
   root nodule symbiont of the stress-tolerant legume, Hedysarium    
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   Ostrom, P.H., M. Colunga-Garcia and S.H. Gage. 1996.  Establishing    
   pathways of energy flow for insect predators using stable isotope ratios:    
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   Ostrom, P.H., N.E. Ostrom, J. Henry, B. Eadie, P.A. Meyers and J.A.    
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   variations in trophic state of Lake Erie.  Chemical Geology.  In press.   
   
   Paster, B.J., F.E. Dewhirst, S.M. Cooke, V. Fussing, L.K. Poulsen, and    
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   Pellizari, V.H., S. Bezborodnikov, J.F. Quensen III and J.M. Tiedje.    
   1996.  Evaluation of Strains Isolated by Growth on Naphthalene and    
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   Peteu, S.F., D. Emerson, and R.M. Worden. 1996.  A catalase    
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   Peteu, S.F., D. Emerson, and R.M. Worden. 1996.  A clark-type oxidase-   
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   Roberts, M. S., L. K. Nakamura, and F. M. Cohan. 1996. Bacillus    
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   Rolfe, B., R. Carlson, R. Ridge, F. Dazzo, P. Mateos and C. Pankhurst.    
   1996.  Defective infection and nodulation of clovers by exopolysaccharide    
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