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BART Publications

2017

Johnson, D.B., Hedrich, S. and Pakostova, E. (2017) Indirect redox transformations of iron, copper and chromium catalyzed by extremely acidophilic bacteria. Frontiers in Microbiology 8: article 211. doi: 10.3389/fmicb.2017.00211.

Santos, A.L. and Johnson, D.B. (2017) The effects of temperature and pH on the kinetics of an acidophilic sulfidogenic bioreactor and indigenous microbial communities.  Hydrometallurgy. doi.org/10.1016/j.hydromet.2016.07.018

Pakostova, E., Grail, B.M. and Johnson, D.B. (2017) Indirect oxidative bioleaching of a polymetallic black schist sulfide ore. Minerals Engineering. doi.org/10.1016/j.mineng.2016.08.028

Smith, S.L., Grail, B.M. and Johnson, D.B. (2017) Reductive bioprocessing of cobalt-bearing limonitic laterites. Minerals Engineering. doi.org/10.1016/j.mineng.2016.09.009

Falagán, C., Yusta, I., Sánchez-España, J. and Johnson, D.B. (2017) Biologically-induced precipitation of aluminium in synthetic acid mine water. Minerals Engineering. doi.org/10.1016/j.mineng.2016.09.028

Falagán, C., Grail., B.M. and Johnson, D.B. (2017) New approaches for extracting and recovering metals from mine tailings. Minerals Engineering. doi.org/10.1016/j.mineng.2016.10.008

Johnson DB and Schippers A (2017) Editorial: Recent Advances in Acidophile Microbiology: Fundamentals and Applications. Front. Microbiol. 8:428. doi: 10.3389/fmicb.2017.00428

Falagán, C., Foesel, B. and Johnson, D.B. (2017) Acidicapsa ferrireducens sp. nov., Acidicapsa acidiphila sp. nov., and Granulicella acidiphila sp. nov.; novel acidobacteria isolated from metal-rich acidic waters. Extremophiles. doi: 10.1007/s00792-017-0916-4

Nuñez, H., Moya-Beltrán, A., Covarrubias, P.C., Issotta, F., Cardenas, J.P., Gonzalez, M., Atavales, J., Acuña, L.G., Johnson, D.B. and Quatrini, R. (2017) Molecular systematics of the genus Acidithiobacillus: insights into the phylogenetic structure and diversification of the taxon. Frontiers in Microbiology 8: article 30. doi 10.3389/fmicb.2017.00030

2016

Holanda, R., Hedrich, S., Ňancucheo, I., Oliveira, G., Grail, B.M. and Johnson, D.B. (2016) Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations. Research in Microbiology 167:613-623. doi org/10.1016/j.resmic.2016.04.008

Nuňez, H., Covarrubias, P.C., Moya-Beltrán, A., Issotta, F., Atavales, J., Acuňa, L.G., Johnson, D.B. and Quatrini, R. (2016) Detection, identification and typing of Acidithiobacillus species and strains: a review. Research in Microbiology 167:555-567. doi org/ 10.1016/j.resmic.2016.05.006

Ňancucheo, I., Rowe, O.F., Hedrich, S., and Johnson, D.B. (2016) Solid and liquid media for isolating and cultivating acidophilic and acid-tolerant sulfate-reducing bacteria. FEMS Microbiology Letters 363, fnw083. doi: 10.1093/femsle/fnw083

Sánchez-Andrea, I, Stams, A.J.M., Weijma, J., Gonzalez Contreras, P., Dijkman, H., Rozendal, R.A. and Johnson, D.B. (2016) A case in support of implementing innovative bio-processes in the metal mining industry. FEMS Microbiology Letters 363, 2016, fnw106. doi: 10.1093/femsle/fnw106

Falagán, C. and Johnson, D.B. (2016) Acidithiobacillus ferriphilus sp. nov.: a facultatively anaerobic iron- and sulfur-metabolising extreme acidophile. International Journal of Systematic and Evolutionary Microbiology.66:206-211.

Ñancucheo, I., Oliveira, R., Dall'Agnol, H., Johnson, D.B., Grail, B.M., Holanda, R., Nunes, G., Orellana, S. and Oliveira, G. (2016) Draft Genome Sequence of a Novel Species of Acidophilic Iron-oxidizing Firmicute, "Acidibacillus ferrooxidans" (SLC66T). Genome Announcements 4: e00383-16. doi:10.1128/genomeA.00383-16.

Dall'Agnol, H., Ñancucheo, I., Johnson, D.B., Oliveira, R., Leite, L., Pylro, V.,  Carvalho, N., Nunes, G., Tzotzos, G., Fernandes, G., Dutra, J., Orellana, S. and Oliveira, G. (2016). Draft genome sequence of "Acidibacillus ferrooxidans" ITV01, a novel acidophilic Firmicute isolated from a chalcopyrite mine drainage site in Brazil. Genome Announcements 4: e01748-15. doi 10.1128/genomeA.01748-15

Florence, K., Sapsford, D.J., Kay, C.M., Johnson, D.B. and Wolkersdorfer, C. (2016) Iron mineral accretion from acid mine drainage and its application in passive treatment. Environmental Technology 37:1428-1440, DOI: 10.1080/09593330.2015.1118558

Matthies, R., Henjy, H., Hirsch, K., Kahnt, R., Marten, H. and Johnson, D.B. (2016) Biobasierte in-situ-gewinnung und industriemetallen aus unzuganglichen lagerstatten zur EU-rohstoffsicherung. Georesources Zeitschrift 3:34-38 (in German; title translates as “Bio-based in situ-recovery of industrial metals from inaccessible deposits to secure the supply of raw materials for the EU”)

 

2015

Johnson, DB (2015) Biomining goes underground. Nature Geoscience 8:165-166, doi:10.1038/ngeo2384

Johnson, DB and du Plessis, C. (2015) Biomining in reverse gear: using bacteria to extract metals from oxidized ores. Minerals Engineering. 75: 2–5 http://dx.doi.org/10.1016/j.mineng.2014.09.024

Jones, RM and Johnson, DB. (2015) Acidithrix ferrooxidans gen. nov., sp. nov.; a  filamentous and obligately  heterotrophic, acidophilic member of the Actinobacteria that catalyzes the dissimilatory oxido-reduction of iron. Research in Microbiology 166:111-120; doi 10.1016/j.resmic.2015.01.003

Sánchez-Andrea I, Stams AJM, Hedrich S, Ňancucheo I, Johnson DB (2015) Desulfosporosinus acididurans sp. nov., an acidophilic sulfate-reducing bacterium isolated from acidic sediments. Extremophiles 19:39-47.

Aytar, P, Kay, CM, Mutlu, MB, Cabuk, A and Johson, DB (2014). Diversity of acidophilic prokaryotes at two acid mine drainage sites in Turkey. Environmental Science and Pollution Research. DOI 10.1007/s11356-014-3789-4.

Holanda, R., Hedrich, S. Falagán, C., Ňancucheo, I., Dall`Agnol, H., Grail, B.M. and Johnson, D.B. (2015) Characteristics of Acidibacillus spp.: a novel genus of acidophilic iron-oxidising Firmicutes. . Advanced Materials Research 1130: 36-39. Trans Tech Publications, Switzerland

Santos, A.L. and Johnson, D.B. (2015) Combined recovery of copper and mitigation of pollution potential of a synthetic metal-rich stream draining a copper mine in Brazil. Advanced Materials Research 1130: 606-609. Trans Tech Publications, Switzerland

Johnson, D.B., Grail, B.M. and Bonnefoy, V (2015) New insights into salt-tolerance in acidophilic

iron-oxidising bacteria. Advanced Materials Research 1130: 3-6. Trans Tech Publications, Switzerland

Falagán, C., Sánchez-España, F.J., Yusta, I. and Johnson, D.B. (2015) Microbial communities in sediments in acidic, metal-rich mine lakes: results from a study in south-west Spain. Advanced Materials Research 1130: 7-10. Trans Tech Publications, Switzerland

Roussel, J., Murray, A.J., Rolley, J., Johnson, D.B. and Macaskie, L.E. (2015) Biosynthesis of zinc sulfide quantum dots using waste off-gas from metal bioremediation process. Advanced Materials Research 1130: 555-559. Trans Tech Publications, Switzerland

Hedrich, S., Schippers, A. and Johnson, D.B. (2015) Development of a strategy for selective metal recovery from pregnant leach solutions of Kupferschiefer bioleaching. Advanced Materials Research 1130: 255-258. Trans Tech Publications, Switzerland.

Eisen, S., Poehlein, A., Johnson, D.B., Daniel, R., Schloemann, M. and Muhling, M. (2015) Genome of the acidophilic ferrous iron oxidizing isolate Acidithrix ferrooxidans strain Py-F3, the proposed type strain of the novel actinobacterial genus Acidithrix. Genome Announcements 3 e00382-15. doi:10.1128/genomeA.00382-15 

Eisen, S., Poehlein, A., Johnson, D.B., Daniel, R., Schloemann, M. and Muhling, M. (2015) Genome of the acidophilic iron oxidizer Ferrimicrobium acidiphilum strain T23T. Genome Announcements 3 e00382-15. doi:10.1128/genomeA.00383-15 

Petzsch, P., Poehlein, A., Johnson, D.B., Daniel, R., Schloemann, M. and Muhling, M. (2015) Genome of the acidophilic sulfate reducing Peptococcaceae bacterium strain CEB3.Genome Announcements 3: e00886-15. doi:10.1128/genomeA.00886-15

Petzsch, P., Poehlein, A., Johnson, D.B., Daniel, R., Schloemann, M. and Muhling, M. (2015) Genome of the moderately acidophilic sulfate-reducing Firmicute Desulfosporosinus acididuransT (strain M1). Genome Announcements 3: doi:10.1128/genomeA.00881-15

 

2014.

Irene Sánchez-Andrea, Alfons J. M. Stams, Sabrina Hedrich, Ivan Ňancucheo, D. Barrie Johnson (2014) Desulfosporosinus acididurans sp. nov.: an acidophilic
sulfate-reducing bacterium isolated from acidic sediments. Extremophiles doi 10.1007/s00792-014-0701-6

Hedrich, S. & Johnson, D. B. (2014) Remediation and Selective Recovery of Metals from Acidic Mine Waters Using Novel Modular Bioreactors Environ. Sci. Technol. 48, 12206−12212 doi: 10.1021/es5030367

Moya-Beltrán, A., Cárdenas, J-P., Covarrubias, P., Issotta, F., Ossandon, F., Grail, B.M.,  Holmes, D.S., Quatrini, R. and Johnson, D.B.  (2014)  Draft genome sequence of the nominated type strain of "Ferrovum myxofaciens": an acidophilic, iron-oxidizing Betaproteobacterium. Genome Annoncements. doi:10.1128/genomeA.00834-14

Hedrich, S., Schippers, A. and Johnson, D.B. (2014) Selective metal recovery within the frame of the project EcoMetals - Innovative eco-efficient biohydrometallurgy process for the recovery of strategic and rare metals. ProcessNet Symposium, Aachen, Germany

Harold Nuñez, Juan Pablo Cardenas, David Loyola, Ana Moya, Francisco Issotta,  Mónica Gonzales, D. Barrie Johnson, Raquel Quatrini1 (2014). A Next Generation Multilocus Sequence Typing Scheme for Acidithiobacillus species. ISME, Seoul, South Korea

Stankovic, S., Moric, I., Pavic, A., Vasiljevic, B., Johnson, D.B. and Cvetkovic, V. (2014) Investigation of the microbial diversity of an extremely acidic, metal-rich water body (lake Robule, Bor, Serbia). Journal of the Serbian Chemical Society 79:729-741. doi: 10.2298/JSC130605071S

Johnson, D.B. (2014) Recent developments in microbiological approaches for securing mine wastes and for recovering metals from mine waters. Minerals 4:279-292. DOI:10.3390/min4020279 (Publication reproduced: Chemical Technology Sept 2014)

Nuñez, H., Loyola, D., Cárdenas, J.P., Holmes, D. S., Johnson, D.B. and  Quatrini, R. (2014) Multilocus sequence typing scheme for Acidithiobacillus caldus strain differentiation. Research  in Microbiology 165:735-742. DOI: 10.1016/j.resmic.2014.07.014

Talla, E., Hedrich, S., Mangenot, S., Ji, B., Johnson, D.B., Barbe, V. and Bonnefoy, V. (2014) Initial genome analysis of the chemolithotrophic acidophile Acidithiobacillus ferrivorans CF27: insights into pathways of iron- and sulfur-oxidation, and biofilm formation. Research in Microbiology. DOI: 10.1016/j.resmic.2014.08.002

Kay, C.M., Haanela, A. and Johnson, D.B.(2014) Microorganisms in subterranean acidic waters within Europe’s deepest metal mine. Research in Microbiology DOI: 10.1016/j.resmic.2014.07.007

Ňancucheo, I., Grail, B.M., Hilario, F. du Plessis, C. and Johnson, D.B. (2014) Extraction of copper from an oxidized (lateritic) ore using bacterially-catalysed reductive dissolution. Applied Microbiology and Biotechnology 98:6297-6305. DOI 10.1007/s00253-014-5687-6

Johnson, DB. (2014) Biomining – biotechnologies for extracting and recovering metals from ores and waste materials. Current Opinion in Biotechnology 30:24-31 DOI:10.1016/jcopbio.2014.04.008

Ňancucheo, I., Johnson, D.B. (2014) Removal of sulfate from extremely acidic mine waters using low pH sulfidogenic bioreactors. Hydrometallurgy DOI:10.1016/j.hydromet.2014.04.025

Falagan, C. and Johnson DB. (2014) Acidibacter ferrireducens gen. nov., sp. nov.: an acidophilic ferric iron-reducing gammaproteobacterium. Extremophiles DOI 10.1007/s00792-014-0684-3

D. Barrie Johnson, Kevin B. Hallberg and Sabrina Hedrich (2014) Uncovering a Microbial Enigma: Isolation and Characterization of the
Streamer-Generating, Iron-Oxidizing, Acidophilic Bacterium “Ferrovum myxofaciens” Appl. Environ. Microbiol., 80(2):672 DOI:10.1128/AEM.03230-13

Blowes D.W., Ptacek C.J., Jambor J.L., Weisener C.G., Paktunc D., Gould W.D. and Johnson D.B. (2014) The Geochemistry of Acid Mine Drainage. In: Holland H.D. and Turekian K.K. (eds.) Treatise on Geochemistry, Second Edition, vol. 11, pp. 131-190. Oxford: Elsevier.

Falagan, C., Sanchez-Espana, J. and Johnson D. B. (2014) New insights into the biogeochemistry of extremely acidic environments revealed by a combined cultivation-based and culture-independent study of two stratified pit lakes. FEMS Microbiology Ecology 87: 231-243 DOI: 10.1111/1574-6941.12218

2013.

Hedrich, S. and Johnson, D. B. Aerobic and anaerobic oxidation of hydrogen by acidophilic bacteria. FEMS Microbiology Letters DOI:10.1111/1574-6968.12290

Hedrich, S. and Johnson, D. B. Acidithiobacillus ferridurans, sp. nov.; an acidophilic iron- , sulfur- and hydrogen-metabolizing chemolithotrophic Gammaproteobacterium. International Journal of Systematic and Evolutionary Microbiology 63:4018-4025. DOI: 10.1099/ijs.0.049759-0

Jones, R. M., Hedrich, S. and Johnson, D. B. Acidocella aromatica sp. nov.: an acidophilic heterotrophic alphaproteobacterium with unusual phenotypic traits. Extremophiles 17:841-850. DOI: 10.1007/s00792-013-0566-0

Osorio, H., Mangold, S., Denis, Y., Ňancucheo, I., Esparza, M., Johnson, D. B., Bonnefoy, V., Dopson, M., and Holmes, D. S. (2013) Anaerobic sulfur metabolism coupled to dissimilatory iron reduction in the extremophile Acidithiobacillus ferrooxidans. Applied and Environmental Microbiology 79:2172-2181. DOI: 10.1128/AEM.03057-12

Stankovic, S., Moric, I., Pavic, A., Vasiljevic, B., Johnson, D. B. and Cvetkovic, V. (2013). Investigation of the microbial diversity of an extremely acidic, metal-rich water body (lake Robule, Bor, Serbia). Journal of the Serbian Chemical Society 78:1-17. doi: 10.2298/JSC130605071S

Johnson, D. B. (2013) Biomining: an established and dynamic biotechnology. Microbiology Indonesia 6:189-193.

Hedrich, S. and Johnson, D. B. (2013) Evidence for widespread dissimilatory hydrogen metabolism among acidophilic bacteria. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:202-205. Trans Tech Publications, Switzerland

Hedrich, S., du Plessis, C., Mora, N. and Johnson, D. B. (2013) Reduction and complexation of copper in a novel bioreduction system developed to recover base metals from mine process waters. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:483-486. Trans Tech Publications, Switzerland

Ňancucheo, I. and Johnson, D. B. (2013) Sulfate removal from extremely acidic wastewaters using consortia of acidophilic sulfate-reducing bacteria. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:487-490. Trans Tech Publications, Switzerland

Kay, C., Hedrich, S. and Johnson, D. B. (2013) Selective metal removal from Scandinavian mine waters using novel biomineralization technologies. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:479-482. Trans Tech Publications, Switzerland

Falagán, C., Sánchez-España, F. J. and Johnson, D. B. (2013) Microbiological communities in two acidic mine pit lakes in the Iberian Pyrite Belt (IPB), Spain. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:19-22. Trans Tech Publications, Switzerland

Talla, E., Hedrich, S., Ji, B., Johnson, D. B. and Bonnefoy, V. (2013) Genome analysis of the psychrotolerant acidophile Acidithiobacillus ferrivorans CF27. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:145-148. Trans Tech Publications, Switzerland

Willis, G., Hedrich, S., Ñancucheo, I., Johnson, D. B. and Donati, E. (2013) Microbial diversity in acidic anaerobic sediments at the geothermal Caviahue-Copahue system, Argentina. In 'Integration of Scientific and Industrial Knowledge on Biohydrometallurgy'. Advanced Materials Research 825:7-10. Trans Tech Publications, Switzerland

Johnson, D. B. (2013) Resource recovery from waste waters: using biomineralisation for the selective recovery of metals from acid rock drainage and mine process waters. World Mining Congress Proceedings. Montreal, Canada (August 2013). Paper 803

Johnson, D. B. (2013) Using bacteria to break and make minerals in acidic liquors: industrial and environmental implications. Proceedings: Minerals for Life: Overcoming Resource Constraints. Edinburgh, June 2013, p.68.

Kay C. M., Rowe O. F., Rocchetti L., Coupland K., Hallberg K. B. and Johnson D. B. (2013) Evolution of Microbial “Streamer” Growths in an Acidic Metal-Contaminated Stream Draining an Abandoned Underground Copper Mine. Life 3, 189-211 [pdf]

Johnson, D. B.; Grail, B. M.; Hallberg, K. B. (2013) A New Direction for Biomining: Extraction of Metals by Reductive Dissolution of Oxidized Ores Minerals 3, 49-58 [pdf]

Johnson, D. B. (2013) Development and application of biotechnologies in the metal mining industry. Environmental Science and Pollution Research. DOI 10.1007/s11356-013-1482-7

2012

Ñancucheo, I. and Johnson, D. B. (2012) Acidophilic algae isolated from mine-impacted environments and their roles in sustaining heterotrophic acidophiles. Frontiers in Microbiology 3:1-8

Johnson, D. B. (2012) Reductive dissolution of minerals and selective recovery of metals using acidophilic iron- and sulfate-reducing acidophiles. Hydrometallurgy 127-128 : 172–177

Rocchetti, L., Beolchini, F., Hallberg, K.B., Johnson, D.B. and Dell’Anno, A. (2012) Effects of prokaryotic diversity changes on hydrocarbon degradation rates and metal partitioning during bioremediation of contaminated anoxic marine sediments. Marine Pollution Bulletins. 64:1688-1698

Dopson, M. and Johnson, D. B. (2012) Biodiversity, metabolism and applications of acidophilic sulfur-metabolizing microorganisms. Environmental Microbiology:Early View.

Ňancucheo, I., Hedrich, S. and Johnson, D.B.

Kermer, R., Hedrich, S., Taubert, M., Baumann, S., Schl�

Johnson, D. B. (2012) Geomicrobiology of extremely acidic subsurface environments. FEMS Microbiology Ecology 81:2-12.

Johnson, D. B., Kanao, T. and Hedrich, S. (2012) Redox transformations of iron at extremely low pH: fundamental and applied aspects
Frontiers in Microbiological Chemistry 3:96.

Hedrich, S. and Johnson, D. B. (2012) A modular continuous flow reactor system for the selective bio-oxidation of iron and precipitation of schwertmannite from mine-impacted waters. Bioresource Technology 106:44-49.

Ñancucheo, I. and Johnson, D. B. (2012) Selective removal of transition metals from acidic mine waters by novel consortia of acidophilic sulfidogenic bacteria. Microbial Biotechnology 5:34-44.

2011

Battaglia-Brunet, F., El Achbouni, H., Quemeneur, M., Hallberg, K. B., Kelly, D. P. and Joulian, C. (2011) Proposal that the arsenite-oxidizing organisms, Thiomonas cuprina and 'Thiomonas arsenivorans' be reclassified as strains of Thiomonas delicata. International Journal of Systematic and Evolutionary Microbiology 61:2816-2821.

Ñancucheo, I. and Johnson, D. B. (2011) Safeguarding reactive mine tailings by ecological engineering: the significance of microbial communities and interactions. Applied and Environmental Microbiology 77:8201-8208.

du Plessis, C. A., Slabbert, W., Hallberg, K. B. and Johnson, D. B. (2011) Ferredox: A biohydrometallurgical processing concept for limonitic nickel laterites. Hydrometallurgy 109:221-229.

** This paper is the winner of the "Hatch Best Paper Award" of 2011 as announced during the Hatch Global Awards by the Chairman and CEO of the Company. **

Kimura, S., Bryan, C. G., Hallberg, K. B. and Johnson, D. B. (2011) Biodiversity and geochemistry of an extremely acidic, low-temperature subterranean environment sustained by chemolithotrophy. Environmental Microbiology 13:2092-2104.

Huang, L.-N., Zhou, W.-H., Hallberg, K. B., Wan, C.-Y. Li, J. and Shu, W.-S. (2011) Spatial and temporal analysis of the microbial community in the tailings of a Pb/Zn mine generating acid drainage. Applied and Environmental Microbiology 77:5540-5544.

Okibe, N. and Johnson, D.B. (2011) A rapid ATP-based method for determining active microbial populations in mineral leach liquors. Hydrometallurgy 108:195-198.

Hedrich, S., Schl�

Slyemi, D., Moinier, D., Brochier-Armanet, C., Bonnefoy, V. and Johnson, D. B. (2011) Characteristics of a phylogenetically ambiguous, arsenic-oxidizing
Thiomonas sp., Thiomonas arsenitoxydans strain 3AsT sp. nov. Archives of Microbiology 193:439-449.

Hallberg, K. B., Grail, B. M., du Plessis, C. A. and Johnson, D. B. (2011) Reductive dissolution of ferric iron minerals: A new approach for bio-processing nickel laterites. Minerals Engineering 24:620-624.

Lindsay, M. B. J., Wakeman, K. D., Rowe, O. F., Grail, B. M., Ptacek, C. J., Blowes, D. W. and Johnson, D. B. (2011) Microbiology and geochemistry of mine tailings amended with organic carbon for passive treatment of pore water. Geomicrobiology Journal 28:229-241.

Hallberg, K. B., Hedrich, S. and Johnson, D. B. (2011) Acidiferrobacter thiooxydans, gen. nov. sp. nov.; an acidophilic, thermo-tolerant, facultatively anaerobic iron- and sulfur-oxidizer of the family Ectothiorhodospiraceae. Extremophiles 15:271-279.

Amouric, A., Brochier-Armanet, C., Johnson, D. B., Bonnefoy, V. and Hallberg, K. B. (2011) Phylogenetic and genetic variation among Fe(II)-oxidizing acidithiobacilli supports the view that these comprise multiple species with different ferrous iron oxidation pathways. Microbiology 157:111-122.

2010

Lu, S., Gischkat, S., Reiche, M., Akob, D. M., Hallberg, K. B. and Küsel, K. (2010) Ecophysiology of Fe-cycling bacteria in acidic sediments. Applied and Environmental Microbiology 76:8174-8183.

Jameson, E., Rowe, O. F., Hallberg, K. B. and Johnson, D. B. (2010) Sulfidogenesis and selective precipitation of metals at low pH mediated by Acidithiobacillus spp. and acidophilic sulfate-reducing bacteria. Hydrometallurgy 104:488-493.

Hallberg, K. B. (2010) New perspectives in acid mine drainage microbiology. Hydrometallurgy 104:448-453.

Ñancucheo, I. and Johnson, D. B. (2010) Production of glycolic acid by chemolithotrophic iron- and sulfur-oxidizing bacteria and its role in delineating and sustaining acidophilic sulfide mineral-oxidizing consortia. Applied and Environmental Microbiology 76:461-467.

Hallberg, K. B., González-Toril, E. and Johnson, D. B. (2010) Acidithiobacillus ferrivorans, sp. nov.; facultatively anaerobic, psychrotolerant iron-, and sulfur-oxidizing acidophiles isolated from metal mine-impacted environments. Extremophiles 14:9-19.

2009

Valdes, J., Quatrini, R., Hallberg, K., Dopson, M., Valenzuela, P. D. T. and Holmes, D. S. (2009) Draft genome sequence of the extremely acidophilic bacterium Acidithiobacillus caldus ATCC 51756 reveals metabolic versatility in the genus Acidithiobacillus. Journal of Bacteriology 191: 5877-5878.

Johnson, D. B., Bacelar-Nicolau, P., Okibe, N., Thomas, A. and Hallberg, K. B. (2009) Characteristics of Ferrimicrobium acidiphilum gen. nov., sp. nov., and Ferrithrix thermotolerans gen. nov., sp. nov., heterotrophic iron-oxidizing, extremely acidophilic actinobacteria. International Journal of Systematic and Evolutionary Microbiology 59:1082-1089.

Galleguillos, P. A., Hallberg, K. B. and Johnson, D. B. (2009) Microbial diversity and genetic response to stress conditions of extremophilic bacteria isolated from the Escondida copper mine. Advanced Materials Research 71-73:55-58.

Dinkla, I. J. T., Gericke, M., Geurkink, B. K. and Hallberg, K. B. (2009) Acidianus brierleyi is the dominant thermoacidophile in a bioleaching community processing chalcopyrite containing concentrates at 70

Hallberg, K. B., Amouric, A., Brochier-Armanet, C., Bonnefoy, V. and Johnson, D.B. ( 2009) Physiological and phylogenetic heterogeneity among iron-oxidizing Acidithiobacillus spp., and characteristics of the novel species Acidithiobacillus ferrivorans. Advanced Materials Research 71-73:167-170.

Johnson, D. B., Jameson, E., Rowe, O. F., Wakeman, K. and Hallberg, K. B. (2009) Sulfidogenesis at low pH by acidophilic bacteria and its potential for the selective recovery of transition metals from mine waters. Advanced Materials Research 71-73:693-696.

2008

Johnson, D. B., Joulian, C., d'Hugues, P. and Hallberg, K. B. (2008) Sulfobacillus benefaciens sp. nov., an acidophilic facultative anaerobic Firmicute

isolated from mineral bioleaching operations. Extremophiles 12:789-798.

Johnson, D. B. and Hallberg, K. B. (2008) Carbon, iron and sulfur metabolism in acidophilic micro-organisms. Advances in Microbial Physiology 54:201-255.

Johnson, D. B., Okibe, N., Wakeman, K. and Yajie, L. (2008) Effect of temperature on the bioleaching of chalcopyrite concentrates containing different concentrations of silver. Hydrometallurgy 94:42-47.

Mariner, R., Johnson, D. B. and Hallberg, K. B. (2008) Characterisation of an attenuation system for the remediation of Mn(II) contaminated waters. Hydrometallurgy 94:100-104.

Tan, G.-L., Shu, W.-S., Hallberg, K. B., Li, F., Lan, C.-Y. and Huang, L.-N. (2008) Culturable and molecular phylogenetic diversity of microorganisms in an open-dumped, extremely acidic Pb/Zn mine tailings. Extremophiles 12:657-664.

Wakeman, K., Auvinen, H. and Johnson, D. B. (2008) Microbiological and geochemical dynamics in simulated-heap leaching of a polymetallic sulfide ore. Biotechnology and Bioengineering 101:739-750.

Yahya, A., Hallberg, K. B. and Johnson, D. B. (2008) Iron and carbon metabolism by a mineral-oxidizing Alicyclobacillus-like bacterium. Archives of Microbiology 189:305-312.

Rowe, O. F. and Johnson, D. B. (2008) Comparison of ferric iron generation by different species of acidophilic bacteria immobilized in packed-bed reactors. Systematic and Applied Microbiology 31:68-77.

Johnson, D. B., Yajie, L. and Okibe, N. (2008) "Bioshrouding" - a novel approach for securing reactive mineral tailings. Biotechnology Letters 30:445-449.

Coupland, K. and Johnson, D. B. (2008) Evidence that the potential for dissimilatory ferric iron reduction is widespread among acidophilic heterotrophic bacteria. FEMS Microbiology Letters 279:30–35.

d'Hugues, P., Norris, P. R., Hallberg, K. B., Sánchez, F., Langwaldt, J., Grotowski, A., Chmielewski, T. and Groudev, S. (2008) Bioshale FP6 European project: exploiting black shale ores using biotechnologies. Minerals Engineering 21:111-120.

2007

Rowe, O. F., Sánchez-España, J., Hallberg, K. B. and Johnson, D. B. (2007) Microbial communities and geochemical dynamics in an extremely acidic, metal-rich stream at an abandoned massive sulfide mine (Huelva, Spain) underpinned by two primary production systems. Environmental Microbiology 9:1761-1771.

Hallberg, K. B. and Johnson, D. B. (2007) Isolation, enumeration, growth, and preservation of acidophilic prokaryotes.

Rawlings, D. E. and Johnson, D. B. (editors) (2007) Biomining. Springer-Verlag, Berlin, 341 pp.

Johnson, D. B. and Hallberg, K. B. (2007) Techniques for detecting and identifying acidophilic mineral-oxidizing microorganisms. pp. 237-261. In Biomining (Rawlings, D. E. and Johnson, D. B., eds). Springer-Verlag, Berlin.

Rawlings, D. E. and Johnson, D. B. (2007) The microbiology of biomining: development and optimization of mineral-oxidizing microbial consortia. Microbiology 153:315-324.

Johnson, D. B. (2007) Physiology and ecology of acidophilic microorganisms. pp. 257-270. In Physiology and Biochemistry of Extremophiles (Gerday, C. and Glansdorff, N., eds). ASM press, Washington, D.C.

Ghauri, M. A., Okibe, N. and Johnson, D. B. (2007) Attachment of acidophilic bacteria to solid surfaces: The significance of species and strain variations. Hydrometallurgy 85:72-80.

Tan, G.-L., Shu, W.-S., Hallberg, K. B., Li, F., Lan, C.-Y. and Huang, L.-N. (2007) Cultivation-dependent and cultivation-independent characterization of the microbial community in acid mine drainage associated with acidic Pb/Zn mine tailings at Lechang, Guangdong, China. FEMS Microbiology Ecology 59:118-126.

Diaby, N., Dold, B., Pfeifer, H.-R., Holliger, C., Johnson, D. B. and Hallberg, K. B. (2007) Microbial communities in a porphyry copper tailings impoundment and their impact on the geochemical dynamics of the mine waste. Environmental Microbiology 9:298-307.

Yajie, L., Okibe, N. and Johnson, D. B. (2007)  Effect of temperature on bioleaching of chalcopyrite concentrates containing high concentrations of silver: opposite rules apply. Advanced Materials Research 20-21:168-169.

Hallberg, K. B., Johnson, D. B., Langwaldt, J. and Joulian, C. (2007) Microbial populations in a 110 ton-scale column for the recovery of metals from black schist ores. Advanced Materials Research 20-21:170.

Mariner, R., Johnson, D. B. and Hallberg, K. B. (2007) Development of a novel biological system for removing manganese from contaminated waters. Advanced Materials Research 20-21:267-270.

Johnson, D. B., Yajie, L., Okibe, N., Coupland, K. and Hallberg, K. B. (2007) Concentrate mineralogy dictates the composition of bioleaching microbial consortia. Advanced Materials Research 20-21:403-404.

Valdés, J.,Pedroso, I., Qautrini, R., Hallberg, K. B., Valenzuela, P. D. T. and Holmes, D. S. (2007) Insights into the metabolism and ecophysiology of three acidithiobacilli by comparative genome analysis. Advanced Materials Research 20-21:439-442.

Matlakowska, R., Hallberg, K. B. and Sklodowska. A. (2007) Isolation and characterisation of microorganisms from copper bearing black shale of Lubin mine (Poland). Advanced Materials Research 20-21:580.

Hedrich, S., Heinzel, E., Seifert, J., Hallberg, K. B., Johnson, D. B. and Schl�

Bryan, C. G., Hallberg, K. B. and Johnson, D. B. (2007) Comparison of microbiological populations of mineral heaps and mine wastes of differing ages in active and abandoned copper mines. Advanced Materials Research 20-21:585.

2006

Johnson D. B. (2006) Biohydrometallurgy and the environment: Intimate and important interplay. Hydrometallurgy 83:153-166.

Bryan, C. G., Hallberg, K. B. and Johnson, D. B. (2006) Mobilisation of metals in mineral tailings at the abandoned São Domingos copper mine (Portugal) by indigenous acidophilic bacteria. Hydrometallurgy 83:184-194.

Hallberg, K. B., Coupland K. and Johnson D. B. (2006) Bioutlenianie minerałów siarczkowych w celu odzysku metali – zastosowanie do rud czarnych łupków (Biooxidation of mineral sulfides for metal recovery: application to black shale ores).  pp. 169-181.  In: Antoniuk, A. (ed.) Perspektywy zastosowania technologii bioługowania do przerobu rud miedzi zawierających łupki (Perspectives for applying bioleaching technology to process shale-bearing copper ores). KGHM Cuprum, Wroclaw, Poland. Conference proceedings of BIOPROCOP ’06, held on 19 June, 2006 in Lubin, Poland.

Bouchal, P., Zdráhal, Z., Helánová, S., Janiczek, O., Hallberg, K. B. and Mandl, M. (2006) Proteomic and bioinformatic analysis of iron- and sulfur-oxidizing Acidithiobacillus ferrooxidans using immobilized pH gradients and mass spectrometry. Proteomics 6:4278-4285.

Battaglia-Brunet, F., Joulian, C., Garrido, F., Dictor, M. C., Morin, D., Coupland, K., Johnson, D. B., Hallberg, K. B. and Baranger, P. (2006) Oxidation of arsenite by Thiomonas strains and characterization of Thiomonas arsenivorans sp. nov. Antonie van Leeuwenhoek International Journal of General and Molecular Microbiology 89:99-108.

Kimura, S., Hallberg, K. B. and Johnson, D. B. (2006) Sulfidogenesis in low pH (3.8 – 4.2) media by a mixed population of acidophilic bacteria. Biodegradation 17:57-65.

Johnson, D. B., Sen, A. M., Kimura, S., Rowe, O. and Hallberg, K. B. (2006) A novel biosulfidogenic system for the selective recovery of metals from acidic leach liquors and waste streams. Mineral Processing and Extractive Metallurgy 115:19-24.

Johnson, D. B., Stallwood, B., Kimura, S. and Hallberg, K. B. (2006) Characteristics of Acidicaldus organivorus, gen. nov., sp. nov.; a novel thermo-acidophilic heterotrophic Proteobacterium. Archives of Microbiology 185:212-221.

Hallberg, K. B., Coupland, K., Kimura, S. and Johnson, D. B. (2006) Macroscopic streamer growths in acidic, metal-rich mine waters in north Wales consist of novel and remarkably simple bacterial communities. Applied and Environmental Microbiology 72:2022-2030.

2005

Hallberg, K. B. and Johnson, D. B. (2005) Mine water microbiology. Mine Water and the Environment 24:28-32.

Johnson, D. B. and Hallberg, K. B. (2005) Acid mine drainage: remediation options. Science of the Total Environment 338:3-14.

** This paper is one of the 25 Most Downloaded Science of the Total Environment articles.

Johnson, D. B. and Hallberg, K. B. (2005) Biogeochemistry of the compost bioreactor component of a composite acid mine water treatment system. Science of the Total Environment 338:81-93.

Hallberg, K. B. and Johnson, D. B. (2005) Microbiology of a wetland ecosystem constructed to remediate mine drainage from a heavy metal mine. Science of the Total Environment 338:53-66.

Hallberg, K. B. and Johnson, D. B. (2005) Biological manganese removal from acid mine drainage: wetland treatment vs bioreactors. Science of the Total Environment 338:115-124.

Johnson, D. B., Okibe, N., and Hallberg, K. B. (2005) Differentiation and identification of iron-oxidizing acidophilic bacteria using cultivation techniques and amplified ribosomal DNA restriction enzyme analysis (ARDREA). Journal of Microbiological Methods 60:299-313.

Johnson, D. B. (2005) Biohydrometallurgy and the environment: intimate and important associations. pp.liii-lxvii. In: Proceedings of the 16th International Biohydrometallurgy Symposium (Harrison, S. T. L., Rawlings, D. E., and Petersen, J., eds.). 16th International Biohydrometallurgy Symposium, Cape Town, South Africa.

Bryan, C. G., Hallberg, K. B. and Johnson, D. B. (2005) Microbial populations of tailings spoil at the São Domingos former copper mine. pp. 677-686. In: Proceedings of the 16th International Biohydrometallurgy Symposium (Harrison, S. T. L., Rawlings, D. E., and Petersen, J., eds.). 16th International Biohydrometallurgy Symposium, Cape Town, South Africa.

Kimura, S., Hallberg, K. B. and Johnson, D. B. (2005) Biodiversity of microbial populations in macroscopic “acid streamer” growths at an abandoned pyrite mine, elucidated using a combined cultivation-based and cultivation-independent approaches. pp. 687-696. In: Proceedings of the 16th International Biohydrometallurgy Symposium (Harrison, S. T. L., Rawlings, D. E., and Petersen, J., eds.). 16th International Biohydrometallurgy Symposium, Cape Town, South Africa.

Hallberg, K. B. and Johnson, D. B. (2005) Microbial populations of compost wetlands constructed to remediate acidic coal spoil drainage. pp. 713-722. In: Proceedings of the 16th International Biohydrometallurgy Symposium (Harrison, S. T. L., Rawlings, D. E., and Petersen, J., eds.). 16th International Biohydrometallurgy Symposium, Cape Town, South Africa.

Rowe, O. F., Kimura, S., Hallberg, K. B. and Johnson, D. B. (2005) Demonstration of sulfide production by mixed populations of bacteria in low pH bioreactors. pp. 257-259. In: The 16th International Biohydrometallurgy Symposium: Book of Abstracts (Harrison, S. T. L., Rawlings, D. E., and Petersen, J., eds.). 16th International Biohydrometallurgy Symposium, Cape Town, South Africa.

Coupland, K., Hallberg, K. B. and Johnson, D. B. (2005) Passive remediation of acid mine drainage: microbiology and geochemistry of experimental wetland ecosystems. pp. 254-256. In: The 16th International Biohydrometallurgy Symposium: Book of Abstracts (Harrison, S. T. L., Rawlings, D. E., and Petersen, J., eds.). 16th International Biohydrometallurgy Symposium, Cape Town, South Africa.

2004

Okibe, N. and Johnson, D. B. (2004) Biooxidation of pyrite by defined mixed cultures of moderately thermophilic acidophiles in pH-controlled bioreactors: the significance of microbial interactions. Biotechnology and Bioengineering 87:574-583.

Coupland, K. and Johnson, D. B. (2004) Geochemistry and microbiology of an impounded subterranean acidic water body at Mynydd Parys, Anglesey, Wales. Geobiology 2:77-86.

Bryan, C. G., Hallberg, K. B. and Johnson, D. B. (2004) Microbial populations in surface spoil at the abandoned Mynydd Parys copper mines. pp. 107-112. In: Mine Water 2004 - Process, Policy and Progress, vol. 1 (Jarvis A. P., Dudgeon, B. A. and Younger, P. L., eds.). University of Newcastle upon Tyne, Newcastle upon Tyne, U.K.

Coupland, K., Rowe, O., Hallberg, K. B. and Johnson, D. B. (2004) Biogeochemistry of a subterranean acidic mine water body at an abandoned copper mine. pp. 113-119. In: Mine Water 2004 - Process, Policy and Progress, vol. 1 (Jarvis A. P., Dudgeon, B. A. and Younger, P. L., eds.). University of Newcastle upon Tyne, Newcastle upon Tyne, U.K.

Hallberg, K. B., Rolfe, S. and Johnson, D. B. (2004) The microbiology of passive remediation technologies for mine drainage treatment. pp. 227-233. In: Mine Water 2004 - Process, Policy and Progress, vol. 1 (Jarvis A. P., Dudgeon, B. A. and Younger, P. L., eds.). University of Newcastle upon Tyne, Newcastle upon Tyne, U.K.

Johnson, D. B., Rowe, O., Kimura, S. and Hallberg, K. B. (2004) Development of an integrated microbiological approach for remediation of acid mine drainage and recovery of heavy metals. pp. 151-157. In: Mine Water 2004 - Process, Policy and Progress, vol. 2 (Jarvis A. P., Dudgeon, B. A. and Younger, P. L., eds.). University of Newcastle upon Tyne, Newcastle upon Tyne, U.K.

Okibe, N. and Johnson, D. B. (2004) Bioleaching of pyrite by defined mixed populations of moderately thermophilic acidophiles in pH-controlled bioreactors. pp. 165-173. In: Biohydrometallurgy; a sustainable technology in evolution (Tsezos, M., Hatzikioseyian, A. and Remoudaki, E., eds.). National Technical University of Athens, Zografou, Greece.

Coupland, K., Battaglia-Brunet, F., Hallberg, K. B., Dictor, M.-C., Garrido, F. and Johnson, D. B. (2004) Oxidation of iron, sulfur and arsenic in mine waters and mine wastes: an important role for novel Thiomonas spp. pp. 639-646. In: Biohydrometallurgy; a sustainable technology in evolution (Tsezos, M., Hatzikioseyian, A. and Remoudaki, E., eds.). National Technical University of Athens, Zografou, Greece.

Kimura, S., Coupland, K., Hallberg, K. B. and Johnson, D. B. (2004) Composition of biofilm communities in acidic mine waters as revealed by combined cultivation and biomolecular approaches. pp. 1057-1065. In: Biohydrometallurgy; a sustainable technology in evolution (Tsezos, M., Hatzikioseyian, A. and Remoudaki, E., eds.). National Technical University of Athens, Zografou, Greece.

Johnson, D. B., Miller, H., Ukermann, S. and Hallberg, K. B. (2004) Removal of soluble manganese from mine waters using a fixed bed column bioreactor. pp. 1163-1170. In: Biohydrometallurgy; a sustainable technology in evolution (Tsezos, M., Hatzikioseyian, A. and Remoudaki, E., eds.). National Technical University of Athens, Zografou, Greece.

Sen, A. M., Kimura, S., Hallberg, K. B. and Johnson, D. B. (2004) Sulfate reduction at low pH by mixed cultures of acidophilic bacteria. pp. 1179-1186. In: Biohydrometallurgy; a sustainable technology in evolution (Tsezos, M., Hatzikioseyian, A. and Remoudaki, E., eds.). National Technical University of Athens, Zografou, Greece.

Johnson, D.B., Bruhn, D.F. and Roberto, F.F. (2004) Survival of acidophilic bacteria under conditions of substrate depletion that occur during culture storage. pp. 1195-1203. In: Biohydrometallurgy; a sustainable technology in evolution (Tsezos, M., Hatzikioseyian, A. and Remoudaki, E., eds.). National Technical University of Athens, Zografou, Greece.

2003

Hallberg, K. B. and Johnson, D. B. (2003) Novel acidophiles isolated from moderately acidic mine drainage waters. Hydrometallurgy 71:139-148.

Johnson, D. B. and Hallberg, K. B. (2003) The microbiology of acidic mine waters. Research in Microbiology 154:466-473.

Hallberg, K. B. and Johnson, D. B. (2003) Passive mine water treatment at the former Wheal Jane tin mine, Cornwall: important biogeochemical and microbiological lessons. Land Contamination & Reclamation 11:213-220.

Johnson, D. B., Okibe, N. and Roberto, F. F. (2003) Novel thermo-acidophilic bacteria isolated from geothermal sites in Yellowstone National Park: physiological and phylogenetic characteristics.  Archives of Microbiology 180:60-68.

Okibe, N., Gericke, M., Hallberg, K. B. and Johnson, D. B. (2003) Enumeration and characterization of acidophilic microorganisms isolated from a pilot plant stirred tank bioleaching operation. Applied and Environmental Microbiology 69:1936-1943.

Johnson, D. B. (2003) Chemical and microbiological characteristics of mineral spoils and drainage waters at abandoned coal and metal mines. Water, Air, & Soil Pollution: Focus 3:47-66.

2002

Johnson, D. B. and Hallberg, K. B. (2002) Pitfalls of passive mine water treatment. Re/Views in Environmental Science and Bio/Technology 1:335-343.

Okibe, N. and Johnson, D. B. (2002) Toxicity of flotation reagents to moderately thermophilic bioleaching microorganisms. Biotechnology Letters 24:2011-2016.

Johnson, D. B., Dziurla, M.-A., Kolmert, Å. and Hallberg, K. B. (2002) The microbiology of acid mine drainage genesis and biotreatment. South African Journal of Science 98:249-255.

Ceskova, P., Zak, Z., Johnson, D. B., Janiczek, O. and Mandl, M. (2002) Formation of iodinin by a strain of Acidithiobacillus ferrooxidans grown on elemental sulfur. Folia Microbiologica 47:78-80.

Yahya, A. and Johnson, D. B. (2002) Bioleaching of pyrite at low pH and low redox potentials by novel mesophilic Gram-positive bacteria. Hydrometallurgy 63:181-188.

Dopson, M., Lindström, E. B. and Hallberg, K. B. (2002) ATP generation during reduced inorganic sulfur compound oxidation by Acidithiobacillus caldus is exclusively due to electron transport phosphorylation. Extremophiles 6:123-129.

Johnson, D. B. and Bridge, T. A. M. (2002) Reduction of ferric iron by acidophilic heterotrophic bacteria: evidence for constitutive and inducible enzyme systems in Acidiphilium spp. Journal of Applied Microbiology 92:315-321.

Rawlings, D. E. and Johnson, D. B. (2002) Ecology and biodiversity of extremely acidophilic microorganisms. In: Extremophiles (Gerday, C. ed.). In: Encyclopedia of Life Support Systems (EOLSS), developed under the auspices of the UNESCO. EOLSS Publishers, Oxford, U.K. (http://www.eolss.net).

2001

Johnson, D. B., Rolfe, S., Hallberg, K. B. and Iversen, E. (2001) Isolation and phylogenetic characterization of acidophilic microorganisms indigenous to acidic drainage waters at an abandoned Norwegian copper mine. Environmental Microbiology 3:630-637.

Kolmert, Å. and Johnson, D. B. (2001) Remediation of acidic waste waters using immobilised, acidophilic sulfate-reducing bacteria. Journal of Chemical Technology and Biotechnology 76:836-843.

Dopson, M., Lindström, E. B. and Hallberg, K. B. (2001) Chromosomally encoded arsenical resistance of the moderately thermophilic acidophile Acidithiobacillus caldus. Extremophiles 5:247-255.

Johnson, D. B. (2001) Importance of microbial ecology in the development of new mineral technologies. Hydrometallurgy 59:147-157.

Hallberg, K. B. and Johnson, D. B. (2001) Biodiversity of acidophilic prokaryotes. Advances in Applied Microbiology 49:37-84.

Hallberg, K. B., Thomson, H. E. C., Boeselt, I. and Johnson, D. B. (2001) Aerobic and anaerobic sulfur metabolism by acidophilic bacteria. pp. 423-431. In: Biohydrometallurgy: Fundamentals, Technology and Sustainable Development (Ciminelli, V. S. T. and Garcia Jr., O., eds.). Process Metallurgy 11A.  Elsevier, Amsterdam.

Hallberg, K. B. and Johnson, D. B. (2001) Novel acidophiles isolated from a constructed wetland receiving acid mine drainage. pp. 433-441. In: Biohydrometallurgy: Fundamentals, Technology and Sustainable Development (Ciminelli, V. S. T. and Garcia Jr., O., eds.). Process Metallurgy 11A.  Elsevier, Amsterdam.

Dennison, F., Johnson, D. B., Sen, A. M. and Hallberg, K. B. (2001) Biological versus abiotic oxidation of iron in acid mine drainage waters: an important role for moderately acidophilic, iron-oxidising bacteria. pp. 493-501. In: Biohydrometallurgy: Fundamentals, Technology and Sustainable Development (Ciminelli, V. S. T. and Garcia Jr., O., eds.). Process Metallurgy 11B.  Elsevier, Amsterdam.

Johnson, D. B., Bacelar-Nicolau, P., Okibe, N., Yahya, A. and Hallberg, K. B. (2001) Role of pure and mixed cultures of gram-positive eubacteria in mineral leaching. pp. 461-470. In: Biohydrometallurgy: Fundamentals, Technology and Sustainable Development (Ciminelli, V. S. T. and Garcia Jr., O., eds.). Process Metallurgy 11A.  Elsevier, Amsterdam.

Okibe, N. and Johnson, D. B. (2001) Bioleaching of pyrite by defined mixed cultures of moderately thermophilic acidophiles. pp. 443-451. In: Biohydrometallurgy: Fundamentals, Technology and Sustainable Development (Ciminelli, V. S. T. and Garcia Jr., O., eds.). Process Metallurgy 11A.  Elsevier, Amsterdam.

Ceskova P., Zak Z., Havlis J., Johnson D. B., Janiczek O. and Mandl M. (2001) Partial characterisation of a colored organic metabolite isolated from cultures of Acidithiobacillus ferrooxidans grown on elemental sulfur. pp. 363-367. In: Biohydrometallurgy: Fundamentals, Technology and Sustainable Development (Ciminelli, V. S. T. and Garcia Jr., O., eds.). Process Metallurgy 11A.  Elsevier, Amsterdam.

Johnson, D. B. (2001) Genus II. Leptospirillum. pp. 453-457. In: Bergey's Manual of Systematic Bacteriology, 2nd Edition, Volume 1 (Boone, D. R. and Castenholtz, R. W., eds). Springer, New York.

Johnson, D. B., Body, D. A., Bridge, T. A. M., Bruhn, D. F. and Roberto, F. F. (2001) Biodiversity of acidophilic moderate thermophiles isolated from two sites in Yellowstone National Park, and their roles in the dissimilatory oxido-reduction of iron. pp. 23-39. In: Thermophiles: Biodiversity, Ecology and Evolution (Reysenbach, A. L., Voytek, M. and Mancinelli, R., eds.). Kluwer Academic/Plenum Publishers, New York.

2000

Bridge, T. A. M. and Johnson, D. B. (2000) Reductive dissolution of ferric iron minerals by Acidiphilium SJH. Geomicrobiology Journal 17:193-206.

Kolmert, Å., Wikström, P. and Hallberg, K. B. (2000) A fast and simple turbidimetric method for the determination of sulfate in sulfate-reducing bacterial cultures. Journal of Microbiological Methods 41:179-184.

Atkinson, T., Cairns, S., Cowan, D. A., Danson, M. J., Hough, D. W., Johnson, D. B., Norris, P. R., Raven, N., Robson, R., Robinson, C. and Sharp, R. J. (2000) A microbiological survey of Montserrat island hydrothermal biotopes. Extremophiles 4:305-313.

Jenkins, D. A., Johnson, D. B. and Freeman, C. (2000) Mynydd Parys Cu-Pb-Zn mines: mineralogy, microbiology and acid mine drainage. pp. 161-179.  In: Environmental Mineralogy: Microbial Interactions, Anthropogenic Influences, Contaminated Land and Waste Management (Cotter-Howells, J. D., Campbell, L. S., Valasami-Jones, E. and Batchelder, M., eds.). The Mineralogical Society of Great Britain & Ireland, London.

Blake, R. and Johnson, D. B. (2000) Phylogenetic and biochemical diversity among acidophilic bacteria that respire on iron. pp. 53-78. In: Environmental Microbe-Metal Interactions (Lovley, D., ed.). American Society of Microbiology Press, Washington D.C.

Johnson, D. B., Dziurla, M-A. and Kolmert, Å. (2000) Novel approaches for bioremediation of acidic, metal-rich effluents using indigenous bacteria. pp. 1209-1220. In: Proceedings from the Fifth International Conference on Acid Rock Drainage. Denver, Co.

Johnson, D. B. (2000) Biological removal of sulfurous compounds from inorganic wastewaters. pp. 175-206. In: Environmental technologies to treat sulfur pollution: principles and engineering (Lens, P. and Hulshoff Pol, L., eds.). International Association on Water Quality, London.

1999

Bacelar-Nicolau, P. and Johnson, D. B. (1999) Leaching of pyrite by acidophilic heterotrophic iron-oxidizing bacteria in pure and mixed cultures. Applied and Environmental Microbiology 65:585-590.

Hallberg, K. B., Johnson, D. B. and Williams, P. A. (1999) A novel metabolic phenotype among acidophilic bacteria: aromatic degradation and the potential use of these microorganisms for the treatment of wastewater containing organic and inorganic pollutants. pp. 719-728. In: Biohydrometallurgy and the Environment Toward the Mining of the 21st Century (Amils, R. and Ballester, A., eds.). Process Metallurgy 9A. Elsevier, Amsterdam.

Sen, A. M. and Johnson, D. B. (1999) Acidophilic sulphate-reducing bacteria: candidates for bioremediation of acid mine drainage. pp. 709-718, In: Biohydrometallurgy and the Environment Toward the Mining of the 21st Century (Amils, R. and Ballester, A., eds.). Process Metallurgy 9A. Elsevier, Amsterdam.

Yahya, A., Roberto, F. F. and Johnson, D. B. (1999) Novel mineral-oxidising bacteria from Montserrat (W. I.): physiological and phylogenetic characteristics. pp. 729-740. In: Biohydrometallurgy and the Environment Toward the Mining of the 21st Century (Amils, R. and Ballester, A., eds.). Process Metallurgy 9A. Elsevier, Amsterdam.

Gomez, J. M., Cantero, M. and Johnson, D. B. (1999) Comparison of the effects of temperature and pH on iron oxidation and survival of Thiobacillus ferrooxidans and a 'Leptospirillum ferrooxidans'-like isolate. pp. 673-681. In: Biohydrometallurgy and the Environment Toward the Mining of the 21st Century (Amils, R. and Ballester, A., eds.). Process Metallurgy 9A. Elsevier, Amsterdam.

Johnson, D. B. (1999) Importance of microbial ecology in the development of new mineral technologies. pp. 645-656. In: Biohydrometallurgy and the Environment Toward the Mining of the 21st Century (Amils, R. and Ballester, A., eds.). Process Metallurgy 9A. Elsevier, Amsterdam.

Kolmert, Å., Hallberg, K. B. and Johnson, D. B. (1999) Bioremediation of acid mine drainage by sulfate reducing bacteria in biofilm reactors. pp. 225-230. In: Phytoremediation and Innovative Strategies for Specialized Remedial Applications: Proceedings of the 5th International Symposium on In Situ and On-Site Bioremediation Volume 5 (Leeson A. and Alleman, B. C., eds). Battelle Press, Columbus, Ohio.

1998

Johnson, D. B. (1998) Biodiversity and ecology of acidophilic microorganisms. FEMS Microbiology Ecology 27:307-317.

Bridge, T. A. M. and Johnson, D. B. (1998) Reduction of soluble iron and reductive dissolution of ferric iron-containing minerals by moderately thermophilic iron-oxidizing bacteria. Applied and Environmental Microbiology 64:2181-2186.

Johnson, D. B. (1998) Biological abatement of acid mine drainage: the role of acidophilic protozoa and other indigenous microflora. pp. 285-302. In: Acidic Mining Lakes: Acid Mine Drainage, Limnology and Reclamation (Geller, W., Klapper, H. and Salomons, W., eds.).  Springer-Verlag, Berlin.

Johnson, D. B. (1998) Microorganisms and biogeochemical cycling of metals in aquatic environments. pp. 31-58. In: Metal Metabolism in Aquatic Environments (Langston, W. J. and Bebianno, M. J., eds.). Chapman and Hall, London.

Norris, P. R. and Johnson, D. B. (1998) Acidophilic Microorganisms. pp. 133-154. In: Extremophiles: Microbial Life in Extreme Environments (Horikoshi, K. and Grant, W. D., eds.). John Wiley, New York.

Johnson, D. B. (1998) Biodiversity of acidophiles: novel prokaryotes from 'old' environments. Abstracts of the 10th Biennial Congress of the South African Society for Microbiology, Durban, South Africa (July, 1998).

Williamson, J. C. and Johnson, D. B. (1998) Key microbial interactions affecting restoration success of opencast coal mine sites in the U.K.: a review. pp. 35-46. In: Problems of Wasteland Development and Role of Microbes (Misra, A. K., ed.). Amifem Publications, Bhubaneswar, India.

1997

Johnson, D. B. and Roberto, F. F. (1997) Heterotrophic acidophiles and their roles in the bioleaching of sulfide minerals. pp. 259-280.  In: Biomining: theory, microbes and industrial processes (Rawlings, D. E., ed.). Springer-Verlag/Landes Bioscience, Georgetown, Texas.

Johnson, D. B. and Roberto, F. F. (1997) Biodiversity of acidophilic bacteria in mineral leaching and related environments. IBS Biomine '97 Conference Proceedings, P3.1-10. Australian Mineral Foundation, Glenside, Australia.

Johnson, D. B. and Bridge, T. A. M. (1997) The role of microbial dissimilatory reduction processes in the bioremediation of metal-rich, acidic drainage waters. In: Environmental Biotechnology: Part 1. Proceedings if the International Symposium, Oostende, Belgium (Verachtert, H. & Verstraete, W., eds.). Technologisch Instituut, Belgium.

1996

Beech, I. B., Sunny Cheung, C. W., Johnson, D. B. and Smith, J. R. (1996) Comparative studies of bacterial biofilms on steel surfaces using atomic force microscopy and environmental scanning electron microscopy. Biofouling 10:65-77.

1995

Johnson, D. B. (1995) Selective solid media for isolating and enumerating acidophilic bacteria. Journal of Microbiological Methods 23:205-218.

Johnson, D. B. (1995) Acidophilic microbial communities: candidates for bioremediation of acidic mine effluents. International Biodeterioration & Biodegradation 35:41-58.

Johnson, D. B., Bacelar-Nicolau, P., Bruhn, D. F. and Roberto, F. F. (1995) Iron-oxidising heterotrophic acidophiles: ubiquitous novel bacteria in leaching environments. pp. 47-56. In: Biohydrometallurgical Processing I (Vargas, T., Jerez, C. A., Wiertz, J. V. and Toledo, H., eds.). University of Chile.

Johnson, D. B. (1995) The role of 'iron bacteria' in the biodegradation of minerals. Biodeterioration Abstracts 9:1-7.

Johnson, D. B. (1995) Mineral cycling by microorganisms: iron bacteria. pp. 137-160. In: Microbial Diversity and Ecosystem Function (Allsop, D., Hawksworth, D. L. and Colonel, R. R., eds.). CAB International, Wallingford, U.K.

1994

Johnson, D. B., Nicolau, P., Bruhn, D. and Roberto, F. F. (1994) Novel iron-oxidising, heterotrophic, acidophilic bacteria: physiological and phylogenetic characteristics. IUMS Congresses, Prague 1994: 7th International Congress of Bacteriology and Applied Microbiology Division. Abstract Book. BS-10/43

1993

McGinness, S. and Johnson, D. B. (1993) Seasonal variations in the microbiology and chemistry of an acid mine drainage stream. Science of the Total Environment 132:27-41.

Johnson, D. B., McGinness, S. and Ghauri, M. A. (1993) Biogeochemical cycling of iron and sulfur in leaching environments. FEMS Microbiology Reviews 11:63-70.

Jenkins, D. A. and Johnson, D. B. (1993) Abandoned metal mines: a unique mineralogical and microbiological resource. Journal of the Russell Society 5:40-44.

Johnson, D. B. and Rang, L. (1993) Effects of acidophilic protozoa on populations of metal-mobilising bacteria during the leaching of pyritic coal. Journal of General Microbiology 139:1417-1423.

Johnson, D. B., Bacelar-Nicolau, P. and Bridge, T. A. M. (1993) Manipulation and monitoring of acidophilic bacterial populations. pp. 673-684. In: Biohydrometallurgical Technologies,vol. 1 (Torma, A. E., Wey, J. E. and Lakshmanan, V. I., eds.). TMS, Warrendale, Pa.

Johnson, D. B., Bridge, T. A. M. and Bacelar-Nicolau, P. (1993) Role of acidophilic microorganisms in the genesis and treatment of acidic effluents draining mines and mine spoils. 1st SETAC World Congress; Ecotoxicology and Environmental Chemistry - a Global Perspective: Abstracts, P-217.

Johnson, D. B., Bridge, T. A. M. and Bacelar-Nicolau, P. (1993) Diversity and interactions of microorganisms indigenous to extremely acidic environments. Abstracts of the 1st Meeting of the UK Extremophile Network (University of Leicester).

Bridge, T. A. M. and Johnson, D. B. (1993) Isolation and characterisation of ferric iron-reducing acidophilic bacteria from sub-surface environments. Subsurface Microbiology International Symposium 1993; Abstract D-21. Bath, U.K.

1992

Walton, K. C. and Johnson, D. B. (1992) Microbiological and chemical characteristics of an acidic stream draining a disused copper mine. Environmental Pollution 76:169-175.

Johnson, D. B., Ghauri, M. A. and Said, M. F. (1992) Isolation and characterisation of an acidophilic heterotrophic bacterium capable of oxidizing ferrous iron. Applied and Environmental Microbiology 58:1423-1428.

Pronk, J. T. and Johnson, D. B. (1992) Oxidation and reduction of iron by acidophilic bacteria. Geomicrobiology Journal 10:153-171.

McGinness, S. and Johnson, D. B. (1992) Grazing of acidophilic bacteria by a flagellate protozoan. Microbial Ecology 23:75-86.

Johnson, D. B. (1992) Food chains in extremely acidic environments: the significance of bacterial associations and grazing by acidophilic protozoa. Sixth International Symposium on Microbial Ecology, Abstracts, Barcelona, Spain. C5-1-4.Johnson, D. B. (1992) Oxido-reduction of iron by acidophilic bacteria. American Chemical Society Abstracts 203:125.

1991

Johnson, D. B. and McGinness, S. (1991) Ferric iron reduction by acidophilic heterotrophic bacteria. Applied and Environmental Microbiology 57:207-211.

Johnson, D. B. and McGinness, S. (1991) A highly efficient and universal solid medium for growing mesophilic and moderately thermophilic iron oxidizing, acidophilic bacteria. Journal of Microbiological Methods 13:113-122.

Ghauri, M. A. and Johnson, D. B. (1991) Physiological diversity amongst some moderately thermophilic iron-oxidising bacteria. FEMS Microbiology Letters 85:327-334.

Johnson, D. B. (1991) Biological desulfurization of coal using mixed populations of mesophilic and moderately thermophilic acidophilic bacteria. pp. 567-580. In: Processing and Utilization of High-Sulfur Coals (Dugan, P. R., Quigley and Attia, Y. A., eds.). Elsevier, Amsterdam.

1990

Johnson, D. B., Said, M. F., Ghauri, M. A. and McGinness, S. (1990) Isolation of novel acidophiles and their potential use in bioleaching operations. pp. 403-414. In: Biohydrometallurgy 1989 (Salley, J., McCready, R. G. L. and Wichlacz, P. L., eds.). Canmet, Canada.

1989

Johnson, D. B. (1989) The leaching of mineral ores using bacteria. pp. 91-99. In: Resources and Applications of Biotechnology (Greenshields, R., ed.). Macmillan, U.K.

1988

Said, M. F. and Johnson, D. B. (1988) Copper tolerance in acidophilic microbial populations. pp. 561-562. In Biohydrometallurgy; Proceedings of the International Symposium (Norris, P. R. and Kelly, D. P., eds.). S.T.L., U.K.

1987

Johnson, D. B., Macvicar, J. H. M. and Rolfe, S. (1987) A new solid medium for the isolation and enumeration of Thiobacillus ferrooxidans and acidophilic heterotrophic bacteria. Journal of Microbiological Methods 7:9-18.

1986

Johnson, D. B. (1986) The leaching of mineral ores, using bacteria. Industrial Biotechnology 5:60-62.

1983

Johnson, D. B. and Kelso, W. I. (1983) Detection of heterotrophic contaminants in cultures of Thiobacillus ferrooxidans and their elimination by subculturing in media containing copper sulphate. Journal of General Microbiology 129:2969-2972.

1981

Johnson, D. B. and Kelso, W. I. (1981) Extracellular polymers of acid streamers from pyritic mines. Environmental Pollution 24:291-301.

1979

Johnson, D. B., Kelso, W. I. and Jenkins, D. A. (1979) Bacterial streamer growth in a disused pyrite mine. Environmental Pollution 18:107-118.

 

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