Photosynthesis, respiration and exopolymer calcium-binding in biofilm calcification (Westerhöfer and Deinschwanger creek, Germany)

Geomicrobiology Journal

Volumn 25, Issue 2, 2008, Pages 83-94

  Shiraishi, Fumito ^a   Bissett, Andrew ^b   de Beer, Dirk ^b   Reimer, Andreas ^a   Arp, Gernot ^a  

^a UNIVERSITY OF GÖTTINGEN   (Germany)

^b MAX PLANCK INSTITUTE FOR MARINE MICROBIOLOGY   (Germany)

Author keywords

Biomineralization; Cyanobacteria; Extracellular polymeric substances (EPS); Fluorescence in situ hybridization (FISH); Microbialite; Microelectrodes; Stromatolite; Tufa

Indexed keywords

AQUATIC ENVIRONMENT; BIOFILM; BIOMINERALIZATION; CALCIFICATION; CYANOBACTERIUM; ELECTRODE; EXOPOLYMER; GEOMICROBIOLOGY; HYBRIDIZATION; IN SITU MEASUREMENT; MICROBIAL ACTIVITY; MICROBIALITE; NUCLEATION; PH; PHOTOSYNTHESIS; RESPIRATION; STROMATOLITE; SUPERSATURATION; TUFA; WATER CHEMISTRY;

CENTRAL EUROPE; EURASIA; EUROPE; GERMANY;

BACTERIA (MICROORGANISMS); CYANOBACTERIA; PHORMIDIUM;

EID: 41549091408     PISSN: 01490451     EISSN: 15210529     Source Type: Journal    
DOI: 10.1080/01490450801934888     Document Type: Article

References (73)

1. Allwood, AC, Walter, MR, Kamber, BS, Marshall, CP and Burch, IW (2006) Stromatolite reef from the Early Archaean era of Australia. Nature, 441, pp. 714-718.
2. Amman, R., Krumholz, L. and Stahl, DA (1990) Fluorescent-oligonucleotide probing of whole cell for determinative, phylogenetic, and environmental studies in microbiology. J Bacteriol, 172, pp. 762-770.
3. Arp, G., Hofmann, J. and Reitner, J. (1998) Microbial fabric formation in spring mounds ("microbialite") of alkaline salt lakes in the Badan Jaran Sand Sea PR China. Palaios, 13, pp. 581-592.
4. Arp, G., Reimer, A. and Reitner, J. (2001) Photosynthesis-induced biofilm calcification and calcium concentrations in Phanerozoic oceans. Science, 292, pp. 1701-1704.
5. Arp, G., Wedemeyer, N. and Reitner, J. (2001) Fluvial tufa formation in a hard-water creek (Deinschwanger Bach, Franconian Alb Germany). Facies, 44, pp. 1-22.
6. Awramik, SM (1984) Ancient stromatolites and microbial mats. Microbial Mats: Stromatolites, pp. 1-22. Alan R Liss Inc., New York
7. Awramik, SM (1992) The history and significance of stromatolites. Early Organic Evolution: Implications for Mineral and Energy Resources, pp. 435-449. Springer-Verlag, Berlin-Heidelberg
8. Awramik, SM and Riding, R. (1988) Role of algal eukaryotes in subtidal columnar stromatolite formation. Proc Natl Acad Sci USA, 85, pp. 1327-1329.
9. Baumgartner, LK, Reid, RP, Dupraz, C., Decho, AW, Buckley, DH, Spear, JR, Przekop, KM and Visscher, PT (2006) Sulfate reducing bacteria in microbial mats: Changing paradigms, new discoveries. Sediment Geol, 185, pp. 131-145.
10. Bosak, T. and Newman, DK (2003) Microbial nucleation of calcium carbonate in the Precambrian. Geology, 31, pp. 577-580.
11. Braissant, O., Cailleau, G., Dupraz, C. and Verrecchia, EP (2003) Bacterially induced mineralization of calcium carbonate in terrestrial environments: The role of exopolysaccharides and amino acids. J Sediment Res, 73, pp. 485-490.
12. Braissant, O., Decho, AW, Dupraz, C., Glunk, C., Przekop, KM and Visscher, PT (2007) Exopolymeric substances of sulfate-reducing bacteria: Interactions with calcium at alkaline pH and implication for formation of carbonate minerals. Geobiology, 5, pp. 401-411.
13. Broecker, WS and Peng, TH (1974) Gas exchange rates between air and sea. Tellus, 26, pp. 21-35.
14. Buhmann, D. and Dreybrodt, W. (1985) The kinetics of calcite dissolution and precipitation in geologically relevant situations of karst areas, 1. Open system. Chem Geol, 48, pp. 189-211.
15. Burne, RV and Moore, LS (1987) Microbialites: Organosedimentary deposits of benthic microbial communities. Palaios, 2, pp. 241-254.
16. 2+ uptake and photosynthesis in the reef-building hermatypic coral Favia sp. Mar Ecol Prog Ser, 194, pp. 75-85.
17. Decho, AW (1990) Microbial exopolymer secretions in ocean environments: their role(s) in food webs and marine processes. Oceanogr Mar Biol Ann Rev, 28, pp. 73-154.
18. Decho, AW (2000) Microbial biofilms in intertidal systems: An overview. Cont Shelf Res, 20, pp. 1257-1273.
19. Decho, AW, Visscher, PT and Reid, RP (2005) Production and cycling of natural microbial exopolymers (EPS) within a marine stromatolite. Palaeogeogr Palaeoclimatol Palaeoecol, 219, pp. 71-86.
20. Dreybrodt, W. and Buhmann, D. (1991) A mass transfer model for dissolution and precipitation of calcite from solutions in turbulent motion. Chem Geol, 90, pp. 107-122.
21. 2 outgassing: Field measurements of precipitation rates in comparison to theoretical predictions. Chem Geol, 97, pp. 285-294.
22. Dupraz, C. and Visscher, PT (2005) Microbial lithification in marine stromatolites and hypersaline mats. Trends Microb, 13, pp. 429-438.
23. Ferris, FG and Beveridge, TJ (1984) Binding of a paramagnetic metal cation to Escherichia coli K-12 outer membrane vesicles. FEMS Microbiol Lett, 24, pp. 43-46.
24. Ford, TD and Pedley, HM (1996) A review of tufa and travertine deposits of the world. Earth-Sci Rev, 41, pp. 117-175.
25. Gieseke, A. and de Beer, D. (2004) Use of microelectrodes to measure in situ microbial activities in biofilms, sediments, and microbial mats. Molecular Microbial Ecology Manual., pp. 1581-1612. Springer-Verlag, Berlin-Heidelberg
26. Grassholf, K., Erhardt, M. and Kremling, K. (1983) Methods of Seawater Analysis, p. 419. Verlag Chemie, Weinheim
27. Grotzinger, JP (1989) Facies and evolution of Precambrian carbonate depositional systems: Emergence of the modern platform archetype. Controls on Carbonate Platform and Basin Development, pp. 79-106. SEPM Spec Publ 44
28. Grotzinger, JP (1990) Geochemical model for Proterozoic stromatolite decline. Proterozoic Evolution and Environments, pp. 80-104.
29. Grotzinger, JP (1994) Trends in Precambrian carbonate sediments and their implication for understanding evolution. Early Life on Earth. Nobel Symposium No 84, pp. 245-258. Columbia University Press, New York
30. Grotzinger, JP and Knoll, AH (1999) Stromatolites in Precambrian carbonates: Evolutionary mileposts or environmental dipsticks?. Annu Rev Earth Planet Sci, 27, pp. 313-358.
31. Grotzinger, JP and Rothman, DH (1996) An abiotic model for stromatolite morphogenesis. Nature, 383, pp. 423-425.
32. Grözschel, S. and de Beer, D. (2002) Effect of oxygen concentration on photosynthesis and respiration in two hypersaline microbial mats. Microb Ecol, 44, pp. 208-216.
33. Hoffmann, F., Janussen, D., Dröse, W., Arp, G. and Reitner, J. (2003) Histological investigation of organisms with hard skeletons: A case study of siliceous sponges. Biotech Histochem, 78, pp. 191-199.
34. Jacobson, RL and Usdowski, E. (1975) Geochemical controls on a calcite precipitating spring. Contrib Mineral Petrol, 51, pp. 65-74.
35. Jonkers, HM, Ludwig, R., de Wit, R., Pringault, O., Muyzer, G., Niemann, H., Finke, N. and de Beer, D. (2003) Structural and functional analysis of a microbial mat ecosystem from a unique permanent hypersaline inland lake: 'La Salada de Chiprana' (NE Spain). FEMS Microbiol Ecol, 44, pp. 175-189.
36. 3 precipitation. Prep Biochem Biotechnol, 32, pp. 51-63.
37. 3 polymorphism. J Crystal Growth, 240, pp. 230-235.
38. Kempe, S. and Kazmierczak, J. (1990) Calcium carbonate supersaturation and the formation of in situ calcified stromatolites. Facets of Modern Biogeochemistry, pp. 255-278. Springer-Verlag, Berlin-Heidelberg
39. Kempe, S. and Kazmierczak, J. (1994) The role of alkalinity in the evolution of ocean chemistry, organization of living systems, and biocalcification processes. Bull Inst oceanogr (Monaco) no. spec, 13, pp. 61-117.
40. Knoll, AH, Fairchild, IJ and Swett, K. (1993) Calcified microbes in Neoproterozoic carbonates: Implications for our understanding of the Proterozoic/Cambrian transition. Palaios, 8, pp. 512-525.
41. Kühl, M. and Jørgensen, BB (1992) Microsensor measurements of sulfate reduction and sulfide oxidation in compact microbial communities of aerobic biofilms. Appl Environ Microbiol, 58, pp. 1164-1174.
42. Li, YH and Gregory, S. (1974) Diffusion of ions in sea water and in deep-sea sediments. Geochim Cosmochim Acta, 38, pp. 703-714.
43. Ludwig, R., Al-Horani, F., de Beer, D. and Jonkers, HM (2005) Photosynthesis-controlled calcification in hypersaline microbial mat. Limnol Oceanogr, 50, pp. 1836-1843.
44. Manz, W., Arp, G., Schumann-Kindel, G., Szewzyk, U. and Reitner, J. (2000) Widefield decomvolution epifluorescence microscopy combined with fluorescence in situ hybridization reveals the special arrangement of bacteria in sponge tissue. J Microbiol Meth, 40, pp. 125-134.
45. Matsuoka, J., Kano, A., Oba, T., Watanabe, T., Sakai, S. and Seto, K. (2001) Seasonal variation of stable isotopic compositions recorded in a laminated tufa, SW Japan. Earth Planet Sci Lett, 192, pp. 31-44.
46. Merz, MUE (1992) The biology of carbonate precipitation by cyanobacteria. Facies, 26, pp. 81-102.
47. Merz-Preiß, M. and Riding, R. (1999) Cyanobacterial tufa calcification in two freshwater streams: Ambient environment, chemical thresholds and biological processes. Sediment Geol, 126, pp. 103-124.
48. Morse, JW (1983) The kinetics of calcium carbonate dissolution and precipitation. Carbonates: Mineralogy, and Chemistry. Rev Mineral, Vol 11, pp. 227-264. Mineralogical Society of America, Chelsea, Michigan
49. Parkhurst, DL and Appelo, CAJ (1999) User's Guide to PHREEQC (version 2)-A Computer Program for Speciation, Batch-Reaction, One-Dimensional Transport, and Inverse Geochemical Calculations. Water-Resources Investigations Report 99-4259, p. 312. U.S. Geological Survey, Denver
50. Pentecost, A. (1978) Blue-green algae and freshwater carbonate deposits. Proc Royal Soc London Ser B, 200, pp. 43-61.
51. Pentecost, A. (1984) Association of cyanobacteria with tufa deposits: identity, enumeration, and nature of the sheath material revealed by histochemistry. Geomicrobiol J, 4, pp. 285-298.
52. Pentecost, A. and Riding, R. (1986) Calcification of cyanobacteria. Biomineralization in Lower Plants and Animals. Systematic Assoc Spec Vol 30, pp. 73-90. Clarendon Press, Oxford
53. 2O. Geochim Cosmochim Acta, 46, pp. 1011-1040.
54. Plummer, LN, Parkhurst, DL and Wigley, TML (1979) Critical review of the kinetics of calcite dissolution and precipitation. Chemical Modelling in Aqueous Systems: Speciation, Sorption, Solubility and Kinetics, pp. 537-573. American Chemical Society, Washington, DC
55. 2. Am J Sci, 278, pp. 179-216.
56. Rabus, R., Fukui, M., Wilkes, H. and Widdel, F. (1996) Degradative capacities and 16S rRNA-targeted whole cell hybridization of sulfate-reducing bacteria in an anaerobic enrichment culture utilizing alkylbenzenes from crude oil. Appl Environ Microbiol, 62, pp. 3605-3613.
57. Ramus, J. (1977) Alcian Blue: A quantitative aqueous assay for algal acid and sulfated polysaccharides. J Phycol, 13, pp. 345-348.
58. 2 and 25°C: A test of the calcite dissolution model. Geochim Cosmochim Acta, 45, pp. 1281-1291.
59. Reid, RP, Visscher, PT, Decho, AW, Stolz, JF, Bebout, BM, Dupraz, C., Macintyre, IG, Paerl, HW, Pinckney, JL, Prufert-Bebout, L., Steppe, TF and Marais, DJ Des (2000) The role of microbes in accretion, lamination and early lithification of modern marine stromatolites. Nature, 406, pp. 989-992.
60. Revsbech, NP (1989) An oxygen microsensor with a guard cathode. Limnol Oceanogr, 34, pp. 474-478.
61. Riding, R. (1982) Cyanophyte calcification and changes in ocean chemistry. Nature, 299, pp. 814-815.
62. Riding, R. (2000) Microbial carbonates: The geological record of calcified bacterial-algal mats and biofilms. Sedimentology, 47, pp. 179-214.
63. Riding, R. (2006) Cyanobacterial calcification, carbon dioxide concentrating mechanisms, and Proterozoic-Cambrian changes in atmospheric composition. Geobiology, 4, pp. 299-316.
64. Riding, R. and Liang, L. (2005) Geobiology of microbial carbonates: metazoan and seawater saturation state influences on secular trends during the Phanerozoic. Palaeogeogr Palaeoclimatol Palaeoecol, 219, pp. 101-115.
65. Romeis, B. (1989) Mikroskopische Technik, p. 697. Urban & Schwarzenberg, Munich
66. 13C-depleted carbon microparticles in > 3700-Ma sea-floor sedimentary rocks from West Greenland. Science, 283, pp. 674-676.
67. Schidlowski, M. (1988) A 3,800-million-year isotopic record of life from carbon in sedimentary rocks. Nature, 333, pp. 313-318.
68. Scott, JE, Quintarelli, G. and Dellovo, MC (1964) The chemical and histochemical properties of Alcian Blue staining. Histochemie, 4, pp. 73-85.
69. Smith, RM, Martell, AE and Motekaitis, RS (1997) NIST Critically Selected Stability Constants of Metal Complexes Database, Version 4.0, National Institute of Standards and Technology, Gaithersburg, MD
70. 3 precipitation. Earth Planet Sci Lett, 42, pp. 267-276.
71. Visscher, PT, Reid, RP and Bebout, BM (2000) Microscale observations of sulfate reduction: Correlation of microbial activity with lithified micritic laminae in modern marine stromatolites. Geology, 28, pp. 919-922.
72. Visscher, PT, Reid, RP, Bebout, BM, Hoeft, SE, Macintyre, IG and Thompson, JA Jr (1998) Formation of lithified micritic laminae in modern marine stromatolites (Bahamas): The role of sulfur cycling. Am Mineral, 83, pp. 1482-1493.
73. Wallner, G., Amann, R. and Beisker, W. (1993) Optimizing fluorescent in situ hybridization with ribosomal-RNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms. Cytometry, 14, pp. 136-143.