Bacteria in weathered basaltic glass, Iceland

Geomicrobiology Journal

Volumn 26, Issue 7, 2009, Pages 491-507

  Cockell, Charles S ^a   Olsson, Karen ^a   Knowles, Felicity ^a   Kelly, Laura ^a   Herrera, Aude ^a   Thorsteinsson, Thorsteinn ^b   Marteinsson, Viggo ^c  

^a OPEN UNIVERSITY   (United Kingdom)

^b National Energy Authority Reykjavik   (Iceland)

^c Matis ohf Iceland   (Iceland)

Author keywords

Actinobacteria; Basaltic glass; Iceland; Volcanic; Weathering

Indexed keywords

BACTERIUM; BASALT; CLONE; COLONIZATION; DNA; GROWTH; PH; WEATHERING;

EURASIA; EUROPE; ICELAND; NORTHERN EUROPE; SCANDINAVIA;

ACIDOBACTERIA; ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; FIRMICUTES; GEMMATIMONADETES; PROTEOBACTERIA; VERRUCOMICROBIA;

EID: 70349790129     PISSN: 01490451     EISSN: 15210529     Source Type: Journal    
DOI: 10.1080/01490450903061101     Document Type: Article

References (72)

1. Abed RMM, Zein B, Al-Thukair A, de Beer D. 2007. Phylogenetic diversity and activity of aerobic heterotrophic bacteria from a hypersaline oil-polluted microbial mat. Syst Appl Microbiol 30:319-330.
2. Adamo P, Marchetiello A, Violante P. 1993. The weathering of mafic rocks by lichens. Lichenologist 25:285-297.
3. Billi D, Grilli Caiola M. 1996. Effects of nitrogen and phosphorus deprivation on Chroococcidiopsis sp. (Chroococcales). Algal Stud 83:93-105.
4. Bland W, Rolls D. 2005. Weathering: An Introduction to the Scientific Principles. Arnold, London.
5. Bopp HL, Chakrabarty AM, Ehrlich HL. 1983. Chromate resistance plasmid in Pseudomonas fluorescens. J Bacteriol 155:1105-1109.
6. Bruce KD, Hiorns WD, Hobman JL, Osborn AM, Strike P, Ritchie DA. 1992. Amplification of DNA from native populations of soil bacteria by using the polymerase chain reaction. Appl Environ Microbiol 58:3413-3416.
7. Brunauer S, Emmett PH, Teller E. 1938. Adsorption of gases in multimolecular layers. J Am Chem Soc 60:309-319.
8. Burford EP, Kierans M, Gadd GM. 2003. Geomycology: Fungi in mineral substrata. Mycologist 17:98-107.
9. Carmichael ISE.1964.ThepetrologyofThingmuli,aTertiary volcano ineastern Iceland. J Petrol 5:425-460.
10. Chakravorty S, Helb D, Burday H, Connell N, Alland D. 2007. A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria. J Microbiol Meth 69:330-339.
11. Cockell CS, Schuerger AC, Billi D, Friedmann EI, Panitz C. 2005. Effects of a simulated Martian UV flux on the cyanobacterium, Chroococcidiopsis sp 029. Astrobiology 5:127-140.
12. Cockell CS, Olsson K, Herrera A, Meunier A. 2009. Alteration textures in terrestrial volcanic glass and the associated bacterial community. Geobiology 7:50-65.
13. Cole JR, Chai B, Marsh TL, Farris RJ, Wang Q, Kulam SA, Chandra S, Mc- Garrell DM, Schmidt TM, Garrity GM, Tiedje JM. 2003. The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31:442-443.
14. de la Torre JR, Goebel BM, Friedmann EI, Pace NR. 2003. Microbial diversity of cryptoendolithic communities from the McMurdo Dry Valleys, Antarctica. Appl Environ Microbiol 69:3858-3867.
15. 86Sr ratio of seawater. Earth Planet Sci Lett 188:459-474.
16. Dessert C, Dupré B, Gaillardet J, François LM, Allègre CJ. 2003. Basalt weath- ering laws and the impact of basalt weathering on the global carbon cycle. Chem Geol 202:257-273.
17. Drees KP, Neilson JW, Betancourt JL, Quade J, Henderson DA, Pryor BM, Maier RM. 2006. Bacterial community structure in the hyperarid core of the Atacama Desert, Chile. Appl Environ Microbiol 72:7902-7908.
18. Etienne S, Dupont J. 2002. Fungal weathering of basaltic rocks in a cold oceanic environment (Iceland): comparison between experimental and field observations. Earth Surf Proc Land 27:737-748.
19. Fajardo-Cavazos P, Nicholson W. 2006. Bacillus endospores isolated from granite: close molecular relationships to globally distributed Bacillus spp. from endolithic and extreme environments. Appl Environ Microbiol 72:2856-2863.
20. Fierer N, Bradford MA, Jackson RB. 2007. Toward an ecological classification of soil bacteria. Ecology 88:1354-1364.
21. Fisk MR, Giovannoni SJ, Thorseth IH. 1998. Alteration of oceanic volcanic glass: textural evidence of microbial activity. Science 281:978-980.
22. Friedmann EI, Ocampo-Friedmann R. 1985. Blue-green algae in arid cryptoendolithic habitats. Archiv für Hydrobiologie 38/39:349-350.
23. Furnes H, Staudigel H. 1999. Biological mediation in ocean crust alteration: How deep is the deep biosphere? Earth Planet Sci Lett 166:97-103.
24. 2 consumption rates deduced from the chemistry of the large rivers. Chem Geol 159:3-30.
25. Gislason SR, Eugster HP. 1987. Meteoric water-basalt interactions. II: A field study in N.E. Iceland. Geochim Cosmochim Acta 51:2841-2855.
26. Gomez-Alvarez V, King GM, Nüsslein K. 2006. Comparative bacterial in recent Hawaiian volcanic deposits of different ages. FEMS Microbiol Ecol 60:60-73.
27. Gundlapally SR, Garcia-Pichel F. 2006. The community and phylogenetic diversity of biological soil crusts in the Colorado Plateau studied by molecular fingerprinting and intensive cultivation. Microb Ecol 52:345-357.
28. Herrera A, Cockell CS. 2007. Exploring microbial diversity in volcanic environments: A review of methods in DNA extraction. J Microbiol Meth 70:1-12.
29. Herrera A, Cockell CS, Self S, Blaxter M, Reitner J, Arp G, Dröse W, Thorsteinsson T, Tindle AG. 2008. Bacterial colonization and weathering of terrestrial obsidian in Iceland. Geomicrobiol J 25:25-37.
30. Herrera A, Cockell CS, Self S, Blaxter M, Reitner J, Thorsteinsson T, Arp G, Dröse W, Tindle AG. 2009. A cryptoendolithic community in volcanic glass. Astrobiology 9:369-381.
31. Ibekwe AM, Kennedy AC, Halvorson JJ, Yang CH. 2007. Characterization of developing microbial communities in Mount St. Helens pyroclastic substrate. Soil Biol Biochem 39:2496-2507.
32. Jackson TA, Keller WD. 1970. A comparative study of the role of lichens and "inorganic" processes in the chemical weathering of recent Hawaiian lava flows. Am J Sci 269:446-466.
33. Jacobsson SP, Gudmundsson MT. 2008. Subglacial and intraglacial volcanic formations in Iceland. Jokull 58:179-196.
34. Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111-120.
35. Kisakurek B, Widdowson M, James RH. 2004. Behaviour of Li isotopes during continental weathering: the Bidar laterite profile, India. Chem Geol 212:27-44.
36. Louvat P, Allègre CJ. 1998. Riverine erosion rates on Sao Migual volcanic island, Azores archipelago. Chem Geol 148:177-200.
37. Lysnes K, Thorseth IH, Steinbu BO, Øvreås L, Torsvik T, Pedersen RB. 2004. Microbial community diversity in seafloor basalt from the Arctic spreading ridges. FEMS Microb Ecol 50:213-230.
38. Malik A, Jaiswal R.2000.MetalresistanceinPseudomonasstrainsisolatedfrom soil treated with industrial wastewater. World J Microbiol Biotech 16:177-182.
39. Mason OU, Stingl U, Wilhelm LJ, Moeseneder MM, Di Meo-Savoie CA, Fisk MR, Giovannoni SJ. 2007. The phylogeny of endolithic microbes associated with marine basalts. Environ Microbiol 9:2539-2550.
40. Mergeay M, Nies S, Schlegel HG, Gerits J, Charles P, Van Gijsegem F. 1985. Alcaligenes eutrophus CH34 is a facultative chemolithotroph with plasmid- bound resistance to heavy metals. J Bacteriol 162:328-334.
41. Murray AE, Grzymski JJ. 2007. Diversity and genomics of Antarctic marine micro-organisms. Phil Trans Royal Soc 362:2259-2271.
42. Nagy ML, Perez A, Garcia-Pichel F. 2005. The prokaryotic diversity of bio- logical crusts in the Sonoran desert (Organ Pipe Cactus National Monument, AZ). FEMS Microb Ecol 54:233-245.
43. Nwosu VC. 2001. Antibiotic resistance with particular reference to soil microorganisms. Res Microbiol 152:421-430.
44. O'Sullivan LA, Fuller KE, Thomas EM, Turley CM, Fry JC, Weightman AJ. 2004. Distribution and culturability of the uncultivated 'AGG58 cluster' of the Bacteroidetes phylum in aquatic environments. FEMS Microb Ecol 47:359-370.
45. Perriere G, Gouy M. 1996. WWW-query: an on-line retrieval system for biological sequence banks. Biochimie 78:364-369.
46. Qin YY, Liu DT, Yang H. 2007. Investigation of total bacterial and ammoniaoxidizing bacterial community composition in a full-scale aerated submerged biofilm reactor for drinking water pretreatment in China. FEMS Microbiol Lett 268:126-134.
47. Riesenfeld CS, Goodman RM, Handelsman J. 2004. Uncultured soil bacteria are a reservoir of new antibiotic resistance genes. Environ Microbiol 6:981-989.
48. Rippka R, Deruelles J, Waterbury JB, Herdman M, Stanier RY. 1979. Generic assignments, strain histories and properties of pure cultures of cyanobacteria. J Gen Microbiol 111:1-61.
49. Ryan FJ. 1950. Selected methods of Neurospora genetics. Meth Med Res 3:51-75.
50. Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425.
51. Santelli CM, Orcutt BN, Banning E, Bach W, Moyer CL, Sogin ML, Staudigel H, Edwards KJ. 2008. Abundance and diversity of microbial life in ocean crust. Nature 452:653-657.
52. Schaeffer P, Millet J, Aubert JP. 1965. Catabolic repression of bacterial sporulation. Proc Natl Acad Sci USA 54:704-711.
53. Schwieger F, Tebbe CC. 1998. A new approach to utilize PCR-single-strandconformation polymorphism for 16S rRNA gene-based microbial community analysis. Appl Environ Microbiol 64:4870-4876.
54. Shivaji S, Reddy GSN, Aduri RP, Kutty R, Ravenschlag K. 2004. Bacterial diversity of a soil sample from Schirmacher Oasis, Antarctica. Cell Mol Biol 50:525-536.
55. Sinton J, Gronvold K, Saemundsson K. 2005. Postglacial eruptive history of the Western Volcanic Zone, Iceland. Geochem Geophys Geosys 6: Art. No. Q12009.
56. Steven B, Briggs G, McKay CP, Pollard WH, Greer CW, Whyte LG. 2007. Characterization of the microbial diversity in a permafrost sample from the Canadian High Arctic using culture-dependent and culture-independent methods. FEMS Microbiol Ecol 59:513-523.
57. Stroncik NA, Schminke H. 2002. Palagonite - A review. Intern J Earth Sci 91:680-697.
58. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl Acids Res 25:4876-4882.
59. Thorseth IH, Furnes H, Tumyr O. 1991. A textural and chemical study of Icelandic palagonite of varied composition and its bearing on the mechanism of the glass-palagonite transformation. Geochim Cosmochim Acta 55:731-749.
60. Thorseth IH, Furnes H, Heldal M. 1992. The importance of microbiological activity in the alteration of natural basaltic glass. Geochim Cosmochim Acta 56:845-850.
61. Thorseth IH, Torsvik T, Torsvik V, Daae FL, Pedersen RB. 2001. Diversity of life in ocean floor basalt. Earth Planet Sci Lett 194:31-37.
62. Thorseth IH, Pedersen RB, Christie DM. 2003. Microbial alteration of 0-30- Ma seafloor and sub-seafloor basaltic glasses from the Australian Antarctic Discordance. Earth Planet Sci Lett 215:237-247.
63. Torsvik T, Furnes H, Muehlenbachs K, Thorseth IH, Tumyr O. 1998. Evidence for microbial activity at the glass-alteration interface in oceanic basalts. Earth Planet Sci Lett 162:165-176.
64. Walker JJ, Pace NR 2007. Phylogenetic composition of rocky mountain endolithic microbial ecosystems. Appl Environ Microbiol 73:3497-3504.
65. Walsh JN, Clarke E. 1982. The role of fractional crystallisation in the formation of granitic and intermediate rocks of the Beinn Chaisgidle Centre, Mull, Scotland. Mineral Mag 45:247-255.
66. Weirich G, Schweisfurth R. 1985. Extraction and culture of microorganisms from rock. Geomicrobiol J 4:1-20.
67. ◦C. Geochim Cosmochim Acta 68:4843-4858.
68. ◦C. Geochim Cosmochim Acta 71:2224-2239.
69. Wu X, Xi WY, Ye WJ, Yang H. 2007b. Bacterial community composition of a shallow hypertrophic freshwater lake in China. FEMS Microb Ecol 61:85-96.
70. Yu Y, Breitbart M, McNairnie, Rohwer F. 2006. FastGroupII: A web-based bioinformatics platform for analyses of large 16S rDNA libraries. BMC Bioinformatics 7:57.
71. Zhang H, Sekiguchi Y, Hanada S, Hugenholtz P, Kim H, Kamagata Y, Nakamura K. 2003. Gemmatimonas aurantiaca gen. nov., sp nov., a Gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov. Int J Syst Evol Microbiol 53:1155-1163.
72. Zhou JP, Gu YQ, Zou CS, Mo MH. 2007. Phylogenetic diversity of bacteria in an earth-cave in Guizhou Province, Southwest of China. J Microbiol 45:105- 112.