Culturable and molecular phylogenetic diversity of microorganisms in an open-dumped, extremely acidic Pb/Zn mine tailings

Extremophiles

Volumn 12, Issue 5, 2008, Pages 657-664

  Tan, Gui Liang ^a   Shu, Wen Sheng ^a   Hallberg, Kevin B ^b   Li, Fang ^a   Lan, Chong Yu ^a   Zhou, Wen Hua ^a   Huang, Li Nan ^a  

^a SUN YAT SEN UNIVERSITY   (China)

^b BANGOR UNIVERSITY   (United Kingdom)

Author keywords

16S rRNA gene; Acid mine drainage; Acidophiles; Microbial diversity; Mine tailings

Indexed keywords

ARCHAEAL RNA; BACTERIAL RNA; IRON; PRIMER DNA; PYRITE; RNA 16S; SULFIDE; SULFUR;

ACIDITHIOBACILLUS THIOOXIDANS; ARTICLE; CLASSIFICATION; GENETIC VARIABILITY; GENETICS; GEOLOGY; LEPTOSPIRA; METABOLISM; MINING; MOLECULAR CLONING; OXIDATION REDUCTION REACTION; PH; PHYLOGENY; THERMOPLASMA;

ACIDITHIOBACILLUS THIOOXIDANS; CLONING, MOLECULAR; DNA PRIMERS; GENETIC VARIATION; GEOLOGY; HYDROGEN-ION CONCENTRATION; IRON; LEPTOSPIRACEAE; MINING; OXIDATION-REDUCTION; PHYLOGENY; RNA, ARCHAEAL; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SULFIDES; SULFUR; THERMOPLASMA;

ACIDIPHILIUM; ACIDIPHILIUM CRYPTUM; ACIDITHIOBACILLUS FERROOXIDANS; ACIDOPHILES; ARCHAEA; BACTERIA (MICROORGANISMS); FERROPLASMA ACIDIPHILUM; LEPTOSPIRILLUM FERRIPHILUM; PROKARYOTA; SULFOBACILLUS THERMOTOLERANS; THERMOPLASMA;

EID: 50649094685     PISSN: 14310651     EISSN: 14334909     Source Type: Journal    
DOI: 10.1007/s00792-008-0171-9     Document Type: Article

References (35)

1. SF Altschul W Gish W Miller EW Myers DJ Lipman 1990 Basic local alignment search tool J Mol Biol 215 403 410
2. BJ Baker JF Banfield 2003 Microbial communities in acid mine drainage FEMS Microbiol Ecol 44 139 152
3. PL Bond SP Smriga JF Banfield 2000 Phylogeny of microorganisms populating a thick, subaerial, predominantly lithotrophic biofilm at an extreme acid mine drainage site Appl Environ Microbiol 66 3842 3849
4. JE Brofft JV McArthur LJ Shimkets 2002 Recovery of novel bacterial diversity from a forested wetland impacted by reject coal Environ Microbiol 4 764 769
5. CG Bryan KB Hallberg DB Johnson 2006 Mobilisation of metals in mineral tailings at the abandoned Sao Domingos copper mine (Portugal) by indigenous acidophilic bacteria Hydrometallurgy 83 184 194
6. NJ Coram DE Rawlings 2002 Molecular relationship between two groups of the genus Leptospirillum and the finding that Leptospirillum ferriphilum sp. nov. dominates South African commercial biooxidation tanks that operate at 40°C Appl Environ Microbiol 68 838 845
7. R De la Iglesia D Castro R Ginocchio D van der Lelie B Gonzalez 2006 Factors influencing the composition of bacterial communities found at abandoned copper-tailings dumps J Appl Microbiol 100 537 544
8. N Diaby B Dold HR Pfeifer C Holliger DB Johnson KB Hallberg 2007 Microbial communities in a porphyry copper tailings impoundment and their impact on the geochemical dynamics of the mine waste Environ Microbiol 9 298 307
9. MA Dojka P Hugenholtz SK Haack NR Pace 1998 Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation Appl Environ Microbiol 64 3869 3877
10. M Dopson C Baker-Austin A Hind JP Bowman PL Bond 2004 Characterization of Ferroplasma isolates and Ferroplasma acidarmanus sp. nov., extreme acidophiles from acid mine drainage and industrial bioleaching environments Appl Environ Microbiol 70 2079 2088
11. GF Duarte AS Rosado L Seldin AC Keijzer-Wolters JD van Elsas 1998 Extraction of ribosomal RNA and genomic DNA from soil for studying the diversity of the indigenous bacterial community J Microbiol Methods 32 21 29
12. KJ Edwards TM Gihring JF Banfield 1999 Seasonal variations in microbial populations and environmental conditions in an extreme acid mine drainage environment Appl Environ Microbiol 65 3627 3632
13. D Fortin B Davis TJ Beveridge 1996 Role of Thiobacillus and sulfate-reducing bacteria in iron biocycling in oxic and acidic mine tailings FEMS Microbiol Ecol 21 11 24
14. D Fortin M Roy J Rioux P Thibault 2000 Occurrence of sulfate-reducing bacteria under a wide range of physico-chemical conditions in Au and Cu-Zn mine tailings FEMS Microbiol Ecol 33 197 208
15. EM Gabor EJ de Vries DB Janssen 2003 Efficient recovery of environmental DNA for expression cloning by indirect extraction methods FEMS Microbiol Ecol 44 153 163
16. A García-Moyano E González-Toril A Aguilera R Amils 2007 Prokaryotic community composition and ecology of floating macroscopic filaments from an extreme acidic environment, Río Tinto (SW, Spain) Syst Appl Microbiol 30 601 614
17. OV Golyshina TA Pivovarova GI Karavaiko TF Kondrateva ER Moore WR Abraham H Lunsdorf KN Timmis MM Yakimov PN Golyshin 2000 Ferroplasma acidiphilum gen. nov., sp. nov., an acidophilic, autotrophic, ferrous-iron-oxidizing, cell-wall-lacking, mesophilic member of the Ferroplasmaceae fam. nov., comprising a distinct lineage of the Archaea Int J Syst Evol Microbiol 50 997 1006
18. OV Golyshina KN Timmis 2005 Ferroplasma and relatives, recently discovered cell wall-lacking archaea making a living in extremely acid, heavy metal-rich environments Environ Microbiol 7 1277 1288
19. IJ Good 1953 The population frequencies of species and estimation of population parameters Biometrika 40 237 264
20. KB Hallberg DB Johnson 2003 Novel acidophiles isolated from moderately acidic mine drainage waters Hydrometallurgy 71 139 148
21. Hawkes RB, Franzmann PD, Plumb JJ (2005) Moderate thermophiles including Ferroplasma cyprexacervatum sp. nov. dominate an industrial-scale chalcocite heap bioleaching operation. In: Harrison STL, Rawlings DE, Petersen J (eds) Proceedings of the sixteenth international biohydrometallurgy symposium, pp 657-666
22. RB Hawkes PD Franzmann G O'hara JJ Plumb 2006 Ferroplasma cupricumulans sp. nov., a novel moderately thermophilic, acidophilic archaeon isolated from an industrial-scale chalcocite bioleach heap Extremophiles 10 525 530
23. DB Johnson TAM Bridge 2002 Reduction of ferric iron by acidophilic heterotrophic bacteria: evidence for constitutive and inducible enzyme systems in Acidiphilium spp J Appl Microbiol 92 315 321
24. D Kock A Schippers 2006 Geomicrobiological investigation of two different mine waste tailings generating acid mine drainage Hydrometallurgy 83 167 175
25. DE Rawlings H Tributsch GS Hansford 1999 Reasons why 'Leptospirillum'- like species rather than Thiobacillus ferrooxidans are the dominant iron-oxidizing bacteria in many commercial processes for the biooxidation of pyrite and related ores Microbiology 145 5 13
26. A Schippers R Hallmann S Wentzien W Sand 1995 Microbial diversity in uranium mine waste heaps Appl Environ Microbiol 61 2930 2935
27. PD Schloss J Handelsman 2005 Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness Appl Environ Microbiol 71 1501 1506
28. M Silver 1987 Distribution of iron-oxidizing bacteria in the Nordic uranium tailings deposit, Elliot Lake, Ontario, Canada Appl Environ Microbiol 53 846 852
29. DR Singleton MA Furlong SL Rathbun WB Whitman 2001 Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples Appl Environ Microbiol 67 4374 4376
30. G Southam TJ Beveridge 1992 Enumeration of Thiobacilli within pH-neutral and acidic mine tailings and their role in the development of secondary mineral soil Appl Environ Microbiol 58 1904 1912
31. GL Tan WS Shu KB Hallberg F Li CY Lan LN Huang 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 Microbiol Ecol 59 118 126
32. YL Tsai BH Olson 1991 Rapid method for direct extraction of DNA from soil and sediments Appl Environ Microbiol 57 1070 1074
33. JLCM van de Vossenberg AJM Driessen W Zillig WN Konings 1998 Bioenergetics and cytoplasmic membrane stability of the extremely acidophilic, thermophilic archaeon Picrophilus oshimae Extremophiles 2 67 74
34. B Wielinga JK Lucy JN Moore OF Seastone JE Gannon 1999 Microbiological and geochemical characterization of fluvially deposited sulfidic mine tailings Appl Environ Microbiol 65 1548 1555
35. B Yang WS Shu ZH Ye CY Lan MH Wong 2003 Growth and metal accumulation in vetiver and two Sesbania species on lead/zinc mine tailings Chemosphere 5 1593 1600