What's up down there?

Current Opinion in Microbiology

Volumn 1, Issue 3, 1998, Pages 286-290

  White, David C ^a,b   Phelps, Tommy J ^b   Onstott, Tullis C ^c  

^a UNIVERSITY OF TENNESSEE   (United States)

^b OAK RIDGE NATIONAL LABORATORY   (United States)

^c PRINCETON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MICROBIOTA;

BACTERIUM; GEOLOGY; METABOLISM; MICROBIOLOGY; MICROCLIMATE; REVIEW;

BACTERIA; ENVIRONMENTAL MICROBIOLOGY; EXTRATERRESTRIAL ENVIRONMENT; GEOLOGY;

EID: 0032082972     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1369-5274(98)80031-3     Document Type: Article

References (32)

1. Fredrickson JK, Onstott TC: Microbes Deep inside the Earth. Sci Am 1996, 6873. This is an excellent nontechnical overview of the history and ecology of the subsurface microbiota.
2. Amy PS, Haldeman DL (Eds): The Microbiology of the Terrestrial Deep Subsurface. Boca Raton Fl, CRC Press LLC; 1997. This book is a collection of research on the deep subsurface covering three sections: "Considerations for Sampling; Microbial Ecology and Related Methods; and Applications".
3. Bachtoven R (Ed): Special Issue Proceedings of the 1996 International Symposium on Subsurface Microbiology (ISSM-96). FEMS Microbiol Rev 1997, 20:179-638. Edited proceedings of the ISSM 1996 conference in Davos Switzerland, with 36 reviewed papers summarizing the research into the subsurface microbiology.
4. Fradrickson JK, Phielps TJ: Subsurface drilling and sampling. In Manual of Environmental Microbiology, edn 1. Edited by Hurst CH, Knudsen GR, McInernay WJ, Stetzenbach LD, Walter MV. Washington, DC: American Society for Microbiology Press; 1996:527-540. This is a review of methods of core and ground water recovery and the particular, soluble and gaseous tracers that can be utilized for accurately measuring the contamination within recovered samples.
5. Lehman RM, Colwell FS, Ringelberg DB, White DC: Combined microbial community-level analyses for quality assurance of terrestrial subsurface cores. J Microbiol Methods 1995, 22:263 281.
6. White DC, Davis WM, Nickels JS, King JD, Bobbie RJ: Determination of the sedimentary microbial biomass by extractable lipid phosphate. Oecologia 1979, 40:51-62.
7. .White DC, Stair JO, Ringelberg DB: Quantitative comparisons of ni situ microbial biodiversity by signature biomarker analysis. J Indust Microbiol 1996, 17:185-196. The distribution of signature lipids can be utilized to show differences in extant community composition.
8. White DC: Chemical ecology: possible linkage between macro- and microbial ecology. Oikos 1995, 74:174-181.
9. White DC, Ringelberg DB: Utility of signature lipid biomarker analysis in determining in situ viable biomass, community structure, and nutritional/physiological status of the deep subsurface microbiota. In The Microbiology of the Terrestrial Deep Subsurface. Edited by Amy PS, Haldernan DL. Boca Raton Fl: CRC Press LLC; 1997:117-134. A review of the application of the signature lipid biomarker technology to sample quality assurance and microbial ecology of the extant subsurface microbial communities.
10. Ringelberg DB, Sutton S, White DC: Biomass bioactivity and biodiversity: microbial ecology of the deep subsurface: analysis of ester-linked fatty acids. FEMS Microbiol Rev 1997, 20:371-377 Signature lipid and diglyceride/phospholipid fatty acid profiles of deep subsurface microbes differ with geological features of sedimentation and subsequent diagenesis.
11. White DC, Ringelberg DB: Monitoring deep subsurface microbiota for assessment of safe long-term nuclear waste disposal. Can J Microbiol 1996, 42:375-381. A review on the utility of the signature lipid biomarker technology in the analysis of the community ecology of the deep subsurface microbiola.
12. Bennet PC, Hiebert FK, Choi WJ: Microbial colonization and weathering of silicates in a petroleum contaminated groundwater. Chem Geol 1996, 132:45-53. This study shows that there are microbes there is weathering and where the microbes are absent surfaces were not weathered.
13. Vasconcelos C, McKenzie JA: Microbial mediation of modern dolomite precipitation and diagenesis under anoxic conditions (Lagoa Vermelha, Rio de Janeiro, Brazil). J Sediment Res 1997, 67:378-390. This work suggests sulfate-reducing bacteria could be a solution to the dolomite problem.
14. Mortimer RJG, Coleman ML: Microbial influence on the oxygen isotopic composition of diagenetic siderite. Geochem Cosmochem Acta 1997, 61:1705-1711. An as yet unexplained shift in oxygen isotope values in siderite generated by Geobacter metallireducens from thermodynamtc equilibrium of the medium may signal that many biomineralization processes produce isotopic signatures different from those predicted.
15. Krumholtz LR, McKinley JP, Ulrich GA, Suflita JM: Confined subsurface microbial communities in Cretaceous rock. Nature 1997, 386:64-66. Silver foil was utilized to demonstrate two-dimensional heterogeneity of sulfate reduction by trapping sulfide. The highest suffide reduction activities were found in sandstones abutting organic shales, indicating spatially discrete microbial ecosystems fueled by nutrients deposited in surrounding shales which are themselves incapable of supporting a microbial community.
16. K eft TL, Phelps TJ: Life in the slow lane: Activities of microorganisms in the subsurface. In The Microbiology of the Terrestrial Deep Subsurface, Edited by Amy PS, Haldeman DL. Boca Raton Fil: CRC Press LLC; 1997:137-163. The capacity of the subsurface microbiola to starve for long periods of time yet spring into action when traces of nutrients appear is documented in this comprehensive review.
17. Fredrickson JK, McKinley JP, Bjornstead BN, Long PE, Ringelberg DB, White DC, Krumholz LK, Suflita JM, Colwell FS, Lehman LR et al.: Pore-size constraints on the activity and survival of subsurface bacteria in a late Cretaceous shale-sandstone sequence, Northwestern New Mexico, Geomicrobiology Journal 1997, 14:183-202. It is not pore size so much as pore throat size that is important for microbial transport and diffusion of nutrients.
18. Colwell FS, Onstott TC, Delwiche ME, Chandler D, Fredrickson JK, Yao J-Q, McKinley JP, Boon D, Griffiths R, Phelps TJ et al.: Microorganisms from deep, high temperature sandstones: constraints on microbial colonization. FEMS Microbiol Rev 1997, 20:42 5-435. Subsurface samples recovered from the Piceance Basin of Western Colorado showed that geological conditions constraining transport prevented recolonization of the rock samples. Measurable but low biomass was present where some traces of microbes were recovered, showing a phylogenetic relationship to Desulfotomaculum thait migrated into the rock formation in the past five million years.
19. Tseng H-Y, Onstott TC: A tectonic origin for the deep subsurface microorganisms of Taylorsville Basin: Thermal and fluid flow model constraints. FEMS Microbiol Rev 1997, 20:392-397. The occurrence of thermophilic bacteria was shown to correlate with geochemical data as a testable hypothesis of long term entrapment and survival of organisms suited to the environment.
20. Liu SV, Zhou J, Zhang C, Cole DR, Gajdarziska-Josifovska M, Phelps TJ: Thermophilic Fe(III)-reducing bacteria from the deep subsurface: the evolutionary implications. Sciene 1997, 277:1106-1109. Thermophilic (45°C-75°C) bacteria that reduce amorphous iron (III)-oxyhydroxide to magnetic iron oxides were recovered from the deep subsurface in basins isolated from the surface for millions of years.
21. Lovely DR, Chapelle FH: Deep subsurface microbial processes. Rev Geophys 1995, 33:365-381.
22. Lovely DR: Microbial Fe(III) reduction in subsurface environments. FEMS Microbiol Rev 1997, 20:305-313. This is a short highly referenced review of the phylogenetic relationships and activities of dissimilatory iron-reducing bacteria from the subsurface.
23. Straub KL, Benz M, Schink B, Widdel F: Anaerobic, nitrate-dependent microbial oxidation of ferrous iron. Appt Environ Microbiol 1996, 62:1458-1460. This is a first report of anaerobic nitrate-reducing bacteria capable of oxidizing ferrous iron.
24. Lovely DR, Coates JD, Blunt-Harris EL, Phillips EJP, Woodward JC: Humic substances as electron acceptors for microbial respiration. Nature 1996, 382:445-448. This paper demonstrates the ability of humic acid to couple dissimilatory iron reducers like Geobacter spp. and Shewanella spp. with hydrogen and organic compounds as well as relatively inaccessible Fe(III) oxides.
25. Stevens TO, McKinley JP: Lithotrophic microbial ecosystems in deep basalt aquifers. Science 1995, 270:450-454.
26. 13C-depleted, carbon-enriched microfossils in a deep granitic fissure suggests that even the granite shields have a microbiota and have had it for a very long time.
27. Wellwbury P, Goodman K, Barth T, Cragg BA, Barenes SP, Parkes RJ: Deep marine biosphere fueled by increasing organicmatter availability during burial and heating. Nature 1997, 388:573-576. This is a report of microbial activity 150m below the deep sea floor.
28. Giovannoni SJ, Fisk MR, Mullins TD, Furnes H: Proceedings of hte Ocean Drilling Program: Scientific Results, Edited by Alt JC, Kinoshita H, Stokking LB, Michael PJ. Arlington VA: National Science Foundation; 1996:207-213. Correlations between glass alteration features and particulate nucleic acids in deep sea basalts were demonstrated.
29. Riffner SM, Palumbo AV, Phelps TJ, Hazen TC: Effects of nutrient dosing on subsurface methanotrophic populations and trichloroethyiene degradation J Ind Microbiol Biotechnol 1997, 18:204-212. Addition of gaseous nutrients through horizontal wells surrounding a trichloroethylene contamination plume stimulated the target microbial community in the subsurface and increased the bio remediation significantly. This technology has been widely utilized for other contaminants.
30. 13C-labeled bacteria as tracers in modeling the effects of heterogeneity on bacterial transport.
31. McKay DS, Gibson EK, Thomas-Keprta KL, Vail H, Romartek CS, Clemett SJ, Chillier XDF, Maechling CR, Zare RN: Search for past life on Mars: possible relic biogenic activity in Martian meteorite ALH84001. Science 1996, 273:924-930. Nanostructures and polynucleararomatics found on a meteorile from Mars might have had a biological origin. Perhaps, but is certainly worth a trip to Mars to see.
32. Slobodkin A, Reysenbach A-L, Strutz N, Dreier M., Wiegel W: Thermoterrabacterium ferrireducens gen nov., sp. nov., a thermophilic anaerobic dissimilatory Fe (III) reducing-bacterium from a continental hot spring. Int J Syst Bacterio!l 1997, 47:541-547. This paper reports the first direct isolation of a thermophilic dissimilatory iron-reducing bacterium.