Mobilization of Metals from Pristine Mineral Soil by Nitrifying and Sulfur-Oxidizing Bacteria – The Leaching Potential of Indigenous Culture Enrichments

REFERENCES

• Allen , S E , Grimshaw , H M , Parkinson , J A and Quarmby , C . 1974 . Chemical Analysis of Ecological Materials , 565 London : Blackwell Scientific Publications .
   Google Scholar
• Berthelin , J , Bonne , M , Belgy , G and Wedraogo , F X . 1985 . A major role for nitrification in the weathering of minerals of brown acid forest soils . Geomicrobiol J , 4 : 175 – 190 .
   Web of Science ®Google Scholar
• Bock , E and Sand , W . 1993 . The microbiology of masonry biodeterioration. A review . J Appl Bacteriol , 74 : 503 – 514 .
   Google Scholar
• Bosecker , K . 1997 . Bioleaching: metal solubilization by microorganisms . FEMS Microbiol Rev , 20 : 591 – 604 .
   Web of Science ®Google Scholar
• DeLong , E F . 1992 . Archaea in coastal marine environments . Proc Natl Acad Sci USA , 89 : 5685 – 5689 .
   PubMed Web of Science ®Google Scholar
• Dentener , F , Stevenson , D , Ellingsen , K , van Noije , T , Schultz , M , Amann , M , Atherton , C , Bell , N , Bergmann , D , Bey , I , Bouwman , L , Butler , T , Cofala , J , Collins , B , Drevet , J , Doherty , R , Eickhout , B , Eskes , H , Fiore , A , Gauss , M , Hauglustaine , D , Horowitz , L , Isaksen , I SA , Josse , B , Lawrence , M , Krol , M , Lamarque , J F , Montanaro , V , Müller , J F , Peuch , V H , Pitari , G , Pyle , J , Rast , S , Rodriguez , J , Sanderson , M , Savage , N H , Shindell , D , Strahan , S , Szopa , S , Sudo , K , van Dingenen , R , Wild , O and Zeng , G . 2006 . The global atmospheric environment for the next generation . Environ Sci Technol , 40 : 3586 – 3594 .
   PubMed Web of Science ®Google Scholar
• DeSantis , T Z , Hugenholtz , P , Larsen , N , Rojas , M , Brodie , E L , Keller , K , Huber , T , Dalevi , D , Hu , P and Andersen , G L . 2006 . Greengenes, a Chimera-checked 16S rRNA gene database and workbench compatible with ARB . Appl Environ Microbiol , 72 : 5069 – 5072 .
   PubMed Web of Science ®Google Scholar
• Drobner , E , Huber , H , Rachel , R and Stetter , K O . 1992 . Thiobacillus plumbophilus spec. nov., a novel galena and hydrogen oxidizer . Arch Microbiol , 157 : 213 – 217 .
   PubMed Web of Science ®Google Scholar
• Ehrlich , H L . 2002 . Geomicrobiology , 768 New York : Marcel Dekker .
   Google Scholar
• Faurie , G . 1977 . Étude in vitro du rôle de la nitrification sur la lixiviation du calcium dans les sols calcaires . Sci Sol , 4 : 207 – 218 .
   Google Scholar
• Felske , A , Engelen , B , Nübel , U and Backhaus , H . 1996 . Direct ribosome isolation from soil to extract bacterial rRNA for community analysis . Appl Environ Microbiol , 62 : 4162 – 4167 .
   PubMed Web of Science ®Google Scholar
• Galloway , J N , Dentener , F J , Capone , D G , Boyer , E W , Howarth , R W , Seitzinger , S , Asner , G P , Cleveland , C C , Green , P A , Holland , E A , Karl , D M , Michaels , A F , Porter , J H , Townsend , A R and Vöösmarty , C J . 2004 . Nitrogen cycles: past, present, and future . Biogeochemistry , 70 : 153 – 226 .
   Web of Science ®Google Scholar
• Gao , Z , Tseng , C , Pie , Z and Blaser , M J . 2007 . Molecular analysis of human forearm superficial skin bacterial biota . Proc Natl Acad Sci USA , 104 : 2927 – 2932 .
   PubMed Web of Science ®Google Scholar
• Gaylarde , C , Ribas Silva , M and Warscheid , T . 2003 . Microbial impact on building materials: an overview . Mater Struct , 36 : 342 – 352 .
   Web of Science ®Google Scholar
• Gomez , C and Bosecker , K . 1999 . Leaching heavy metals from contaminated soil by using Thiobacillus ferrooxidans or Thiobacillus thiooxidans . Geomicrobiol J , 16 : 233 – 244 .
   Web of Science ®Google Scholar
• Heuer , H , Krsek , M , Baker , P , Smalla , K and Wellington , E M . 1997 . Analysis of actinomycete communities by specific amplication of gene encoding 16S rRNA and gel-electrophoretic separation in denaturating gradients . Appl Environ Microbiol , 63 : 3233 – 3241 .
   PubMed Web of Science ®Google Scholar
• Hugenholtz , P , Tyson , G W , Webb , R I , Wagner , A M and Blackall , L L . 2001 . Investigation of candidate division TM7, a recently recognized major lineage of the domain Bacteria with no known pure-culture representatives . Appl Environ Microbiol , 67 : 411 – 419 .
   PubMed Web of Science ®Google Scholar
• International Standardization Organization . 1995a . ISO 11048 Soil quality –Determination of water-soluble and acid-soluble sulfate.
   Google Scholar
• International Standardization Organization . 1995b . ISO 11466 Soil quality –Extraction of trace elements soluble in aqua regia
   Google Scholar
• Jianlong , W and Ning , Y . 2004 . Partial nitrification under limited dissolved oxygen conditions . Proc Biochem , 39 : 1223 – 1229 .
   Web of Science ®Google Scholar
• Johnson , D B and Hallberg , K B . 2005 . Acid mine drainage remediation options: a review . Sci Total Environ , 338 : 3 – 14 .
   PubMed Web of Science ®Google Scholar
• Karavaiko , G I , Rossi , G , Agate , A D , Groudev , S N and Avakyan , Z A . 1988 . Biogeotechnology of Metals , 350 Moscow : Centre for International Projects, USSR State Committee for Science and Technology .
   Google Scholar
• Kelly , D P and Wood , A P . 2000 . Reclassification of some species of Thiobacillus to the newly designated genera Acidithiobacillus gen. nov., Halothiobacillus gen. nov. and Thermithiobacillus gen. nov. . Int J Syst Evol Microbiol , 50 : 511 – 516 .
   PubMed Web of Science ®Google Scholar
• Koops , H P and Möller , U C . 1992 . “ The lithotrophic ammonia-oxidizing bacteria ” . In The Prokaryotes. A Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications , Edited by: Balows , A , Trüper , H G , Dworkin , M , Harder , K and Schleifer , KH . 2625 – 2637 . New York : Springer .
   Google Scholar
• Krumbein , W E . 1968 . Zur Frage der biologischen Verwitterung: Einfluss der Mikroflora auf die Bausteinverwitterung und ihre Abhängigkeit von edaphischen Faktoren . Z Allg Mikrobiol , 8 : 107 – 117 .
   PubMedGoogle Scholar
• Lebedeva , E V , Lyalikova , N N and Bugelsky , Y Y . 1978 . Participation of nitrifying bacteria in weathering of serpentinized ultrabasic rocks . Microbiology , 47 : 898 – 904 .
   Google Scholar
• Mansch , R and Bock , E . 1998 . Biodeterioration of natural stone with special reference to nitrifying bacteria . Biodegradation , 9 : 47 – 64 .
   PubMed Web of Science ®Google Scholar
• Milde , K , Sand , W , Wolff , W and Bock , E . 1983 . Thiobacilli of the corroded concrete walls of the Hamburg sewer system . J Gen Microbiol , 129 : 1327 – 1333 .
   Google Scholar
• Nareshkumar , R , Nagendran , R and Parvathi , K . 2008 . Bioleaching of heavy metals from contaminated soil using Acidithiobacillus thiooxidans: effect of sulfur/soil ratio . World J Microbiol Biotechnol , 24 : 1539 – 1546 .
   Web of Science ®Google Scholar
• Nordstrom , D K and Southam , G . 1997 . “ Geomicrobiology of sulfide mineral oxidation ” . In Reviews in Mineralogy. Geomicrobiology: Interactions between microbes and minerals , Edited by: Banfield , J F and Nealson , K H . 361 – 390 . Washington, DC : Mineralogical Society of America .
   Google Scholar
• Okabe , S , Odagiri , M , Ito , T and Satoh , H . 2007 . Succession of sulfur-oxidizing bacteria in the microbial community on corroding concrete in sewer systems . Appl Environ Microbiol , 73 : 971 – 980 .
   PubMed Web of Science ®Google Scholar
• Papen , H and von Berg , R . 1998 . A most probable number method (MPN) for the estimation of cell numbers of heterotrophic nitrifying bacteria in soil . Plant Soil , 199 : 123 – 130 .
   Web of Science ®Google Scholar
• Rawlings , D E . 2004 . Microbially assisted dissolution of minerals and its use in the mining industry . Pure Appl Chem , 76 : 847 – 859 .
   Web of Science ®Google Scholar
• Sand , W and Bock , E . 1991 . Biodeterioration of mineral materials by microorganisms –Biogenic sulfuric and nitric acid corrosion of concrete and natural stone . Geomicrobiol J , 9 : 129 – 138 .
   Web of Science ®Google Scholar
• Santelli , C M , Welch , S A , Westrich , H R and Banfield , J F . 2001 . The effect of Fe-oxidizing bacteria on Fe-silicate mineral dissolution . Chem Geol , 180 : 99 – 115 .
   Web of Science ®Google Scholar
• Schinner , F , Öhlinger , R , Kandeler , E and Margesin , R . 1996 . Methods in Soil Analysis , 426 New York : Springer .
   Google Scholar
• Silver , M , Ehrlich , H L and Ivarson , K C . 1986 . “ Soil mineral transformation mediated by soil microbes ” . In Interactions of soil minerals with natural organics and microbes , Edited by: Huang , P M and Schnitzer , M . 497 – 519 . Madison, WI : Soil Science Society of America .
   Google Scholar
• Stevenson , F J . 1959 . Presence of fixed ammonium in rocks . Science , 130 : 221 – 222 .
   PubMedGoogle Scholar
• Suzuki , I , Dular , U and Kwok , S C . 1974 . Ammonia or ammonium ion as substrate for oxidation by Nitrosomonas europaea cells and extracts . J Bacteriol , 120 : 556 – 558 .
   PubMed Web of Science ®Google Scholar
• Wagner , M and Schwartz , W . 1965 . Geomikrobiologische Untersuchungen. IV. Untersuchungen über die mikrobielle Verwitterung von Kalkstein im Karst . Z Allg Mikrobiol , 5 : 52 – 76 .
   PubMedGoogle Scholar
• Wagner , M and Schwartz , W . 1967 . Geomikrobiologische Untersuchungen. VIII. Über das Verhalten von Bakterien auf der Oberfläche von Gesteinen und Mineralien und ihre Rolle bei der Verwitterung . Z Allg Mikrobiol , 7 : 33 – 52 .
   PubMedGoogle Scholar
• Warscheid , T and Braams , J . 2000 . Biodeterioration of stone: a review . Int Biodeter Biodegr , 46 : 343 – 368 .
   Web of Science ®Google Scholar
• Welch , S A and Banfield , J F . 2002 . Modification of olivine surface morphology and reactivity by microbial activity during chemical weathering . Geochim Cosmochim Acta , 66 : 213 – 221 .
   Web of Science ®Google Scholar
• Wlotzka , F . 1961 . Untersuchungen zur Geochemie des Stickstoffs . Geochim Cosmochim Acta , 24 : 106 – 154 .
   Google Scholar