Biogeosciences in Heavy Metal-Contaminated Soils

Chapter
First Online:
Part of the Soil Biology book series (SOILBIOL, volume 31)

Abstract

Biogeosciences cover research from the micro to the macro scale. Element fluxes in microbial habitats have large impacts, e.g., in climate change phenomena. The strong focus on application of research and a high interdisciplinary, together with the understanding of the necessity for environmental protection, are the reasons for the fast growth of biogeosciences. This comparably young field of research integrates disciplines including hydro(geo)chemistry, plant physiology or microbiology and bacterial genetics, generally aiming at integration of effects of life (βίος) on Earth (γεος). The interference of humans with biogeochemical cycles leads to a dangerous imbalance in the overall mass balance of nature. Biogeosciences deliver tools and methods for an understanding of such anthropogenic imbalances. At the same time, the field develops means to counter-act adverse effects of disturbed matter cycling on the environment. The research field of biogeosciences arose as an answer to environmental degradation and delivers the scientific approach for measures to be taken to alleviate these deleterious effects of disequilibrium in bioremediation and phytoremediation approaches.

Keywords

Microbial Biomass Root Hair Acid Mine Drainage Natural Attenuation Water Path 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.
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Notes

Acknowledgement

We gratefully acknowledge support from EU (UMBRELLA, 7th framework program) and of JSMC.

References

  1. Alisi C, Musella R, Tasso F, Ubaldi C, Manzo S, Cremisini C, Sprocati AR (2009) Bioremediation of diesel oil in a co-contaminated soil by bioaugmentation with a microbial formula tailored with native strains selected for heavy metals resistance. Sci Total Environ 407:3024–3032PubMedCrossRefGoogle Scholar
  2. Alkorta I, Epelde L, Mijangos I, Amezaga I, Garbisu C (2006) Bioluminescent bacterial biosensors for the assessment of metal toxicity and bioavailability in soils. Rev Environ Health 21:139–152PubMedCrossRefGoogle Scholar
  3. Andrade SA, Silveira AP, Mazzafera P (2010) Arbuscular mycorrhiza alters metal uptake and the physiological response of Coffea arabica seedlings to increasing Zn and Cu concentrations in soil. Sci Total Environ 408:5381–5391PubMedCrossRefGoogle Scholar
  4. Baas Becking LGM (1934) Geobiologie of inleiding tot de milieukunde. Van Stockum WP and Zoon, The Hague, the Netherlands (in Dutch)Google Scholar
  5. Babalola OO (2010) Beneficial bacteria of agricultural importance. Biotechnol Lett 32:1559–1570PubMedCrossRefGoogle Scholar
  6. Barriuso J, Solano BR, Gutiérrez Mañero FJ (2008) Protection against pathogen and salt stress by four plant growth-promoting rhizobacteria isolated from Pinus sp. on Arabidopsis thaliana. Phytopathology 98:666–672PubMedCrossRefGoogle Scholar
  7. Bednarek P, Kwon C, Schulze-Lefert P (2010) Not a peripheral issue: secretion in plant-microbe interactions. Curr Opin Plant Biol 13:378–387PubMedCrossRefGoogle Scholar
  8. Beškoski VP, Gojgić-Cvijović G, Milić J, Ilić M, Miletić S, Solević T, Vrvić MM (2011) Ex situ bioremediation of a soil contaminated by mazut (heavy residual fuel oil) – a field experiment. Chemosphere 83:34–40PubMedCrossRefGoogle Scholar
  9. Bhattacharjee RB, Singh A, Mukhopadhyay SN (2008) Use of nitrogen-fixing bacteria as biofertiliser for non-legumes: prospects and challenges. Appl Microbiol Biotechnol 80:199–209PubMedCrossRefGoogle Scholar
  10. Bianco C, Defez R (2009) Medicago truncatula improves salt tolerance when nodulated by an indole-3-acetic acid-overproducing Sinorhizobium meliloti strain. J Exp Bot 60:3097–3107PubMedCrossRefGoogle Scholar
  11. Borch T, Kretzschmar R, Kappler A, Cappellen PV, Ginder-Vogel M, Voegelin A, Campbell K (2010) Biogeochemical redox processes and their impact on contaminant dynamics. Environ Sci Technol 44:15–23PubMedCrossRefGoogle Scholar
  12. Brown KS (1995) The green clean: the emerging field of phytoremediation takes root. Bioscience 45:579–582CrossRefGoogle Scholar
  13. Chandler DP, Kukhtin A, Mokhiber R, Knickerbocker C, Ogles D, Rudy G, Golova J, Long P, Peacock A (2010) Monitoring microbial community structure and dynamics during in situ U(VI) bioremediation with a field-portable microarray analysis system. Environ Sci Technol 44:5516–5522PubMedCrossRefGoogle Scholar
  14. Chaney RL (1983) Plant uptake of inorganic waste constituents. In: Parr JF, Marsh PD, Kla JM (eds) Land treatment of hazadous wastes. Noyes Data Corporation, Park Ridge, NJ, pp 50–76Google Scholar
  15. Citterio S, Prato N, Fumagalli P, Aina R, Massa N, Santagostino A, Sgorbati S, Berta G (2005) The arbuscular mycorrhizal fungus Glomus mosseae induces growth and metal accumulation changes in Cannabis sativa L. Chemosphere 59:21–29PubMedCrossRefGoogle Scholar
  16. Condron LM, Goh KM, Newman RH (1985) Nature and distribution of soil phosphorus as revealed by a sequential extraction method followed by 31P nuclear magnetic resonance analysis. Soil Sci 36:199–207CrossRefGoogle Scholar
  17. de Freitas JR (2002) Biofertilizers. In: Pimentel D (ed) Encyclopedia of pest management. CRC, 56, p 54Google Scholar
  18. de Wit R, Bouvier T (2006) Everything is everywhere, but, the environment selects; what did Baas Becking and Beijerinck really say? Environ Microbiol 8:755–758PubMedCrossRefGoogle Scholar
  19. Dey R, Pal KK, Bhatt DM, Chauhan SM (2004) Growth promotion and yield enhancement of peanut (Arachis hypogaea L.) by application of plant growth-promoting rhizobacteria. Microbiol Res 159:371–394PubMedCrossRefGoogle Scholar
  20. Dimkpa C, Svatos A, Merten D, Büchel G, Kothe E (2008) Hydroxamate siderophores produced by Streptomyces acidiscabies E13 bind nickel and promote growth in cowpea (Vigna unguiculata L.) under nickel stress. Can J Microbiol 54:163–172PubMedCrossRefGoogle Scholar
  21. Dimkpa CO, Merten D, Svatos A, Büchel G, Kothe E (2009) Siderophores mediate reduced and increased uptake of cadmium by Streptomyces tendae F4 and sunflower (Helianthus annuus), respectively. J Appl Microbiol 107:1687–1696PubMedCrossRefGoogle Scholar
  22. Döös BR (2002) Population growth and loss of arable land. Global Environ Change 12:303–311CrossRefGoogle Scholar
  23. Dubbin WE, Ander EL (2003) Influence of microbial hydroxamate siderophores on Pb(II) desorption from α-FeOOH. Appl Geochem 18:1751–1756CrossRefGoogle Scholar
  24. Dubey SK, Tripathi AK, Upadhyay SN (2006) Exploration of soil bacterial communities for their potential as bioresource. Bioresour Technol 97:2217–2224PubMedCrossRefGoogle Scholar
  25. Dudka S, Adriano DC (1997) Environmental impacts of metal ore mining and processing: a review. J Environ Qual 26:590–602Google Scholar
  26. Faisal M, Hasnain S (2005) Bacterial Cr (VI) reduction concurrently improves sunflower (Helianthus annuus L.) growth. Biotechnol Lett 27:943–947PubMedCrossRefGoogle Scholar
  27. Furrer G, Phillips BL, Ulrich KU, Pöthig R, Casey WH (2002) The origin of aluminum flocs in polluted streams. Science 297:2245–2247Google Scholar
  28. Ganesan V (2008) Rhizoremediation of cadmium soil using a cadmium-resistant plant growth-promoting rhizopseudomonad. Curr Microbiol 56:403–407PubMedCrossRefGoogle Scholar
  29. García de Salamone IE, Hynes RK, Nelson LM (2005) Role of cytokinins in plant growth promotion by rhizosphere bacteria. In: Siddiqui ZA (ed) PGPR: biocontrol and biofertilization, 2nd edn. Springer, Dordrecht, pp 173–195Google Scholar
  30. Gutierrez-Mañero FJ, Ramos-Solano B, Probanza A, Mehouachi J, Tadeo FR, Talon M (2001) The plant growth-promoting rhizobacteria Bacillus pumilus and Bacillus licheniformis produce high amounts of physiologically active gibberellins. Physiol Plant 111:1–7CrossRefGoogle Scholar
  31. Haferburg G, Groth I, Möllmann U, Kothe E, Sattler I (2009) Arousing sleeping genes: shifts in secondary metabolism of metal tolerant actinobacteria under conditions of heavy metal stress. Biometals 22:225–234PubMedCrossRefGoogle Scholar
  32. Haferburg G, Kothe E (2010) Metallomics: lessons for metalliferous soil remediation. Appl Microbiol Biotechnol 87:1271–1280PubMedCrossRefGoogle Scholar
  33. Haferburg G, Merten D, Büchel G, Kothe E (2007) Biosorption of metal and salt tolerant microbial isolates from a former uranium mining area. Their impact on changes in rare earth element patterns in acid mine drainage. J Basic Microbiol 47:474–484Google Scholar
  34. Han J, Sun L, Dong X, Cai Z, Sun X, Yang H, Wang Y, Song W (2005) Characterization of a novel plant growth-promoting bacteria strain Delftia tsuruhatensis HR4 both as a diazotroph and a potential biocontrol agent against various plant pathogens. Syst Appl Microbiol 28:66–76PubMedCrossRefGoogle Scholar
  35. Hargreaves PR, Brookes PC, Ross GJS, Poulton PR (2003) Evaluating soil microbial carbon as indicator of long-term environmental change. Soil Biol Biochem 35:401–407CrossRefGoogle Scholar
  36. Hiltner L (1904) Über neuere Erfahrungen und Probleme auf dem Gebiete der Bodenbakteriologie unter besonderer Berücksichtigung der Gründüngung und Brache. Arbeiten der Deutschen Landwirtschaftlichen Gesellschaft 98:59–78 (in German)Google Scholar
  37. Idriss EE, Makarewicz O, Farouk A, Rosner K, Greiner R, Bochow H, Richter T, Borris R (2002) Extracellular phytase activity of Bacillus amyloliquefaciens FZB45 contributes to its plant-growth-promoting effect. Microbiology 148:2097–2109PubMedGoogle Scholar
  38. Ivanov V, Chu J (2008) Applications of microorganisms to geotechnical engineering for bioclogging and biocementation of soil in situ. Rev Environ Sci Biotechnol 7:139–153CrossRefGoogle Scholar
  39. Kloepper JW, Schroth MN (1978) Plant growth-promoting rhizobacteria on radishes. In: Proceedings of the 4th international conference on plant pathogenic bacteria, vol 2. Station de Pathologie Végétale et de Phytobactériologie, INRA, Angers, France, pp 879–882Google Scholar
  40. Kozdrój J (1995) Microbial responses to single or successive soil contamination with Cd or Cu. Soil Biol Biochem 11:1459–1465CrossRefGoogle Scholar
  41. Laanbroek HJ (2010) Methane emission from natural wetlands: interplay between emergent macrophytes and soil microbial processes. A mini-review. Ann Bot 105:141–153PubMedCrossRefGoogle Scholar
  42. Lai HY, Juang KW, Chen ZS (2010) Large-area experiment on uptake of metals by twelve plants growing in soils contaminated with multiple metals. Int J Phytoremediation12:785–797Google Scholar
  43. Langer U, Böhme L, Böhme F (2004) Classification of soil microorganisms based on growth properties: a critical view of some commonly used terms. J Plant Nutr Soil Sci 167:267–269CrossRefGoogle Scholar
  44. Lombi E, Zhao FJ, Dunham SJ, McGrath SP (2000) Cadmium accumulation in populations of Thlaspi caerulescens and Thlaspi goesingense. New Phytol 145:11–20CrossRefGoogle Scholar
  45. Lugtenberg B, Kamilova F (2009) Plant-growth-promoting rhizobacteria. Annu Rev Microbiol 63:541–556PubMedCrossRefGoogle Scholar
  46. Ma Y, Rajkumar M, Freitas H (2009) Improvement of plant growth and nickel uptake by nickel resistant-plant-growth promoting bacteria. J Hazard Mater 166:1154–1161PubMedCrossRefGoogle Scholar
  47. Margesin R, Płaza GA, Kasenbacher S (2011) Characterization of bacterial communities at heavy-metal-contaminated sites. Chemosphere 82:1583–1588PubMedCrossRefGoogle Scholar
  48. Marschner H (1995) Mineral nutrition of higher plants, 2nd edn. Academic, LondonGoogle Scholar
  49. McIntyre T (2003) Phytoremediation of heavy metals from soils. Adv Biochem Eng Biotechnol 78:97–123PubMedGoogle Scholar
  50. Mehnaz S, Mirza MS, Haurat J, Bally R, Normand P, Bano A, Malik KA (2001) Isolation and 16S rRNA sequence analysis of the beneficial bacteria from the rhizosphere of rice. Can J Microbiol 47:110–117PubMedCrossRefGoogle Scholar
  51. Miljević N, Golobocanin D (2007) Potential use of environmental isotopes in pollutant migration studies. Arh Hig Rada Toksikol 58:251–262PubMedCrossRefGoogle Scholar
  52. Miller JM, Rhoden DL (1991) Preliminary evaluation of Biolog, a carbon source utilization method for bacterial identification. J Clin Microbiol 29:1143–1147PubMedGoogle Scholar
  53. Miraglia M, Marvin HJ, Kleter GA, Battilani P, Brera C, Coni E, Cubadda F, Croci L, De Santis B, Dekkers S, Filippi L, Hutjes RW, Noordam MY, Pisante M, Piva G, Prandini A, Toti L, van den Born GJ, Vespermann A (2009) Climate change and food safety: an emerging issue with special focus on Europe. Food Chem Toxicol 47:1009–1021PubMedCrossRefGoogle Scholar
  54. Mendez MO, Maier RM (2008) Phytostabilization of mine tailings in arid and semiarid environments-an emerging remediation technology. Environ Health Perspect 116:278–283PubMedCrossRefGoogle Scholar
  55. Nehnevajova E, Herzig R, Federer G, Erismann KH, Schwitzguébel JP (2007) Chemical mutagenesis – a promising technique to increase metal concentration and extraction in sunflowers. Int J Phytoremediation 9:149–165PubMedCrossRefGoogle Scholar
  56. Pathak A, Dastidar MG, Sreekrishnan TR (2009) Bioleaching of heavy metals from sewage sludge: a review. J Environ Manage 90:2343–2353PubMedCrossRefGoogle Scholar
  57. Peuke AD, Rennenberg H (2005) Phytoremediation. EMBO Rep 6:497–501PubMedCrossRefGoogle Scholar
  58. Prasad MN, Freitas H, Fraenzle S, Wuenschmann S, Markert B (2010) Knowledge explosion in phytotechnologies for environmental solutions. Environ Pollut 158:18–23PubMedCrossRefGoogle Scholar
  59. Rajkumar M, Freitas H (2008a) Effects of inoculation of plant-growth promoting bacteria on Ni uptake by Indian mustard. Bioresour Technol 99:3491–3498PubMedCrossRefGoogle Scholar
  60. Rajkumar M, Freitas H (2008b) Influence of metal resistant-plant growth-promoting bacteria on the growth of Ricinus communis in soil contaminated with heavy metals. Chemosphere 71:834–842PubMedCrossRefGoogle Scholar
  61. Rajkumar M, Ae N, Prasad MN, Freitas H (2010) Potential of siderophore-producing bacteria for improving heavy metal phytoextraction. Trends Biotechnol 28:142–149PubMedCrossRefGoogle Scholar
  62. Scheffer F, Schachtschabel P (2010) Bodenmikroflora. In: Scheffer F, Schachtschabel (eds) Lehrbuch der Bodenkunde. Spektrum Akademischer Verlag, Heidelberg, pp 84–99 (in German)Google Scholar
  63. Sheng XF, Xia JJ (2006) Improvement of rape (Brassica napus) plant growth and cadmium uptake by cadmium-resistant bacteria. Chemosphere 64:1036–1042PubMedCrossRefGoogle Scholar
  64. Smil V (2000) Phosphorous in the environment: natural flows and human interferences. Annu Rev Energ Environ 25:53–88CrossRefGoogle Scholar
  65. Sridevi M, Kumar MG, Mallaiah KV (2008) Production of catechol-type of siderophores by Rhizobium sp. isolated from stem nodules of Sesbania procumbens (Roxb.) W and A. Res J Microbiol 3:282–287CrossRefGoogle Scholar
  66. Stabnikova O, Wang J-Y, Ivanov V (2010) Value-added biotechnological products from organic wastes. In: Wang LK, Ivanov V, Tay J-H (eds) Environ Biotechnol, 1st edn. Springer, Berlin, pp 343–394CrossRefGoogle Scholar
  67. Staley JT, Konopka A (1985) Measurements of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats. Annu Rev Microbiol 39:321–346PubMedCrossRefGoogle Scholar
  68. Steele DB, Stowers MD (1991) Techniques for selection of industrially important microorganisms. Annu Rev Microbiol 45:89–106PubMedCrossRefGoogle Scholar
  69. Wall JD, Krumholz LR (2006) Uranium reduction. Annu Rev Microbiol 60:149–166PubMedCrossRefGoogle Scholar
  70. Warhurst A (2002) Mining, mineral processing, and extractive metallurgy: an overview of the technologies and their impact on the physical environment. In: Warhurst A, Noronha L (eds) Environmental policy in mining: corporate strategy and planning for closure. CRC, Boca Raton, FLGoogle Scholar
  71. Wiatrowski HA, Barkay T (2005) Monitoring of microbial metal transformations in the environment. Curr Opin Biotechnol 16:261–268PubMedCrossRefGoogle Scholar
  72. Wu SC, Cheung KC, Luo YM, Wong MH (2006) Effects of inoculation of plant growth promoting rhizobacteria on metal uptake by Brassica juncea. Environ Pollut 140:124–135PubMedCrossRefGoogle Scholar
  73. Yakovchenko V, Sikora LJ, Kaufman DD (1996) A biologically based indicator of soil quality. Biol Fertil Soils 21:245–251CrossRefGoogle Scholar
  74. Zaidi S, Usmani S, Singh BR, Musarrat J (2006) Significance of Bacillus subtilis strain SJ 101 as a bioinoculant for concurrent plant growth promotion and nickel accumulation in Brassica juncea. Chemosphere 64:991–997PubMedCrossRefGoogle Scholar
  75. Zhang FS (1993) Mobilisation of iron and manganese by plant-borne and synthetic metal chelators. Plant Soil 155–156:111–114CrossRefGoogle Scholar

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© Springer-Verlag Berlin Heidelberg 2012

Authors and Affiliations

  1. 1.Microbial PhytopathologyFriedrich-Schiller-University JenaJenaGermany

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