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Volumn 5, Issue DEC, 2014, Pages

Comparisons of the composition and biogeographic distribution of the bacterial communities occupying South African thermal springs with those inhabiting deep subsurface fracture water

Author keywords

16S rRNA gene; Diversity; Subsurface; Thermal springs; V6 hypervariable region

Indexed keywords

ALGORITHM; ARTICLE; BIOMASS; ENTROPY; GEOCHEMISTRY; HIGH THROUGHPUT SEQUENCING; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; MINING; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PROTEOBACTERIA; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; SOUTH AFRICA; TEMPERATURE; TERRESTRIAL SURFACE WATERS; THERMAL SPRING;

EID: 84930392829     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2014.00679     Document Type: Article
Times cited : (59)

References (84)
  • 1
    • 0000222596 scopus 로고
    • Geochemical evidence of present-day serpentinization
    • Barnes, I., Lamarche, V. C., and Himmelberg, G. (1967). Geochemical evidence of present-day serpentinization. Science 156, 830-832. doi: 10.1126/science.156.3776.830
    • (1967) Science , vol.156 , pp. 830-832
    • Barnes, I.1    Lamarche, V.C.2    Himmelberg, G.3
  • 2
    • 0001225625 scopus 로고
    • Present day serpentinization in New Caledonia, Oman and Yugoslavia
    • Barnes, I., O'Neil, J., and Trescases, J. (1978). Present day serpentinization in New Caledonia, Oman and Yugoslavia. Geochim. Cosmochim. Acta 42, 144-145.
    • (1978) Geochim. Cosmochim. Acta , vol.42 , pp. 144-145
    • Barnes, I.1    O'Neil, J.2    Trescases, J.3
  • 4
    • 84879801118 scopus 로고    scopus 로고
    • Bacterial communities associated with subsurface geochemical processes in continental serpentinite springs
    • Brazelton, W. J., Morrill, P. L., Szponar, N., and Schrenk, M. O. (2013). Bacterial communities associated with subsurface geochemical processes in continental serpentinite springs. Appl. Environ. Microbiol. 79, 3906-3916. doi: 10.1128/AEM.00330-13
    • (2013) Appl. Environ. Microbiol. , vol.79 , pp. 3906-3916
    • Brazelton, W.J.1    Morrill, P.L.2    Szponar, N.3    Schrenk, M.O.4
  • 5
    • 84862703105 scopus 로고    scopus 로고
    • Metagenomic evidence for h(2) oxidation and h(2) production by serpentinite-hosted subsurface microbial communities
    • Brazelton, W. J., Nelson, B., and Schrenk, M. O. (2012). Metagenomic evidence for h(2) oxidation and h(2) production by serpentinite-hosted subsurface microbial communities. Front. Microbiol. 2:268. doi: 10.3389/fmicb.2011.00268
    • (2012) Front. Microbiol , vol.2 , pp. 268
    • Brazelton, W.J.1    Nelson, B.2    Schrenk, M.O.3
  • 6
    • 33749015733 scopus 로고    scopus 로고
    • Rheinheimera perlucida sp nov., a marine bacterium of the Gammaproteobacteria isolated from surface water of the central Baltic Sea.
    • Brettar, I., Christen, R., and Höfle, M. G. (2006). Rheinheimera perlucida sp. nov., a marine bacterium of the Gammaproteobacteria isolated from surface water of the central Baltic Sea. Int. J. Syst. Evol. Microbiol. 56, 2177-2183. doi: 10.1099/ijs.0.64172-0
    • (2006) Int. J. Syst. Evol. Microbiol. , vol.56 , pp. 2177-2183
    • Brettar, I.1    Christen, R.2    Höfle, M.G.3
  • 7
    • 84984087617 scopus 로고
    • Recovery of a hot spring community from a catastrophe
    • Brock, T. D., and Brock, M. L. (1969). Recovery of a hot spring community from a catastrophe. J. Phycol. 5, 75-77. doi: 10.1111/j.1529-8817.1969.tb02580.x
    • (1969) J. Phycol. , vol.5 , pp. 75-77
    • Brock, T.D.1    Brock, M.L.2
  • 8
    • 85013721774 scopus 로고
    • Nonparametric estimation of the number of classes in a population
    • Chao, A. (1984). Nonparametric estimation of the number of classes in a population. Scan. J. Statist. 11, 265-270.
    • (1984) Scan. J. Statist. , vol.11 , pp. 265-270
    • Chao, A.1
  • 10
    • 53749096964 scopus 로고    scopus 로고
    • Environmental genomics reveals a single-species ecosystem deep within Earth
    • Chivian, D., Brodie, E. L., Alm, E. J., Culley, D. E., Dehal, P. S., DeSantis, T. Z., et al. (2008). Environmental genomics reveals a single-species ecosystem deep within Earth. Science 322, 275-278. doi: 10.1126/science.1155495
    • (2008) Science , vol.322 , pp. 275-278
    • Chivian, D.1    Brodie, E.L.2    Alm, E.J.3    Culley, D.E.4    Dehal, P.S.5    DeSantis, T.Z.6
  • 11
    • 84891787231 scopus 로고    scopus 로고
    • Ribosomal database project: data and tools for high throughput rRNA analysis
    • Cole, J. R., Wang, Q., Fish, J. A., Chai, B., McGarrell, D. M., Sun, Y., et al. (2014). Ribosomal database project: data and tools for high throughput rRNA analysis. Nucleic Acids Res. 42, 1-10. doi: 10.1093/nar/gkt1244
    • (2014) Nucleic Acids Res. , vol.42 , pp. 1-10
    • Cole, J.R.1    Wang, Q.2    Fish, J.A.3    Chai, B.4    McGarrell, D.M.5    Sun, Y.6
  • 12
    • 33846046530 scopus 로고    scopus 로고
    • 217 000-year-old DNA sequences of green sulfur bacteria in Mediterranean sapropels and their implications for the reconstruction of the paleoenvironment
    • Coolen, M. J. L., and Overmann, J. (2007). 217 000-year-old DNA sequences of green sulfur bacteria in Mediterranean sapropels and their implications for the reconstruction of the paleoenvironment. Environ. Microbiol. 9, 238-249. doi: 10.1111/j.1462-2920.2006.01134.x
    • (2007) Environ. Microbiol. , vol.9 , pp. 238-249
    • Coolen, M.J.L.1    Overmann, J.2
  • 13
    • 78751674645 scopus 로고    scopus 로고
    • Preservation, origin and genetic imprint of extracellular DNA in permanently anoxic deep-sea sediments
    • Corinaldesi, C., Barucca, M., Luna, G. M., and Dell'Anno, A. (2011). Preservation, origin and genetic imprint of extracellular DNA in permanently anoxic deep-sea sediments. Mol. Ecol. 20, 642-654. doi: 10.1111/j.1365-294X.2010.04958.x
    • (2011) Mol. Ecol. , vol.20 , pp. 642-654
    • Corinaldesi, C.1    Barucca, M.2    Luna, G.M.3    Dell'Anno, A.4
  • 14
    • 50049114397 scopus 로고    scopus 로고
    • Damage and degradation rates of extracellular DNA in marine sediments: implications for the preservation of gene sequences
    • Corinaldesi, C., Beolchini, F., and Dell'Anno, A. (2008). Damage and degradation rates of extracellular DNA in marine sediments: implications for the preservation of gene sequences. Mol. Ecol. 17, 3939-3951. doi: 10.1111/j.1365-294X.2008.03880.x
    • (2008) Mol. Ecol. , vol.17 , pp. 3939-3951
    • Corinaldesi, C.1    Beolchini, F.2    Dell'Anno, A.3
  • 16
    • 15944399441 scopus 로고    scopus 로고
    • Viruses, prokaryotes and DNA in the sediments of a deep-hypersaline anoxic basin (DHAB) of the Mediterranean Sea
    • Danovaro, R., Corinaldesi, C., Dell'Anno, A., Fabiano, M., and Corselli, C. (2005). Viruses, prokaryotes and DNA in the sediments of a deep-hypersaline anoxic basin (DHAB) of the Mediterranean Sea. Environ. Microbiol. 7, 586-592. doi: 10.1111/j.1462-2920.2005.00727.x
    • (2005) Environ. Microbiol. , vol.7 , pp. 586-592
    • Danovaro, R.1    Corinaldesi, C.2    Dell'Anno, A.3    Fabiano, M.4    Corselli, C.5
  • 17
    • 79957856836 scopus 로고    scopus 로고
    • Capture of planktonic microbial diversity in fractures by long-term monitoring of flowing boreholes, Evander Basin, South Africa
    • Davidson, M. M., Silver, B. J., Onstott, T. C., Moser, D. P., Gihring, T. M., Pratt, L. M., et al. (2011). Capture of planktonic microbial diversity in fractures by long-term monitoring of flowing boreholes, Evander Basin, South Africa. Geomicrobiol. J. 28, 275-300. doi: 10.1080/01490451.2010.499928
    • (2011) Geomicrobiol. J. , vol.28 , pp. 275-300
    • Davidson, M.M.1    Silver, B.J.2    Onstott, T.C.3    Moser, D.P.4    Gihring, T.M.5    Pratt, L.M.6
  • 18
    • 0035159370 scopus 로고    scopus 로고
    • Evaluation of biological and physical protection against nuclease degradation of clay-bound plasmid DNA
    • Demanèche, S., Jocteur-Monrozier, L., Quiquampoix, H., and Simonet, P. (2001). Evaluation of biological and physical protection against nuclease degradation of clay-bound plasmid DNA. Appl. Environ. Microbiol. 67, 293-299. doi: 10.1128/AEM.67.1.293-299.2001
    • (2001) Appl. Environ. Microbiol. , vol.67 , pp. 293-299
    • Demanèche, S.1    Jocteur-Monrozier, L.2    Quiquampoix, H.3    Simonet, P.4
  • 19
    • 0027790373 scopus 로고
    • Deep-sea smokers: windows to a subsurface biosphere? Geochim
    • Deming, J. W., and Baross, J. A. (1993). Deep-sea smokers: windows to a subsurface biosphere? Geochim. Cosmochim. Acta 57, 3219-3230. doi: 10.1016/0016-7037(93)90535-5
    • (1993) Cosmochim. Acta , vol.57 , pp. 3219-3230
    • Deming, J.W.1    Baross, J.A.2
  • 20
    • 34248159346 scopus 로고    scopus 로고
    • High-density universal 16S rRNA microarray analysis reveals broader diversity than typical clone library when sampling the environment
    • DeSantis, T. Z., Brodie, E. L., Moberg, J. P., Zubieta, I. X., Piceno, Y. M., and Andersen, G. L. (2007). High-density universal 16S rRNA microarray analysis reveals broader diversity than typical clone library when sampling the environment. Microb. Ecol. 53, 371-383. doi: 10.1007/s00248-006-9134-9
    • (2007) Microb. Ecol. , vol.53 , pp. 371-383
    • DeSantis, T.Z.1    Brodie, E.L.2    Moberg, J.P.3    Zubieta, I.X.4    Piceno, Y.M.5    Andersen, G.L.6
  • 21
    • 33746061683 scopus 로고    scopus 로고
    • Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
    • DeSantis, T. Z., Hugenholtz, P., Larsen, N., Rojas, M., Brodie, E. L., Keller, K., et al. (2006). Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl. Environ. Microbiol. 72, 5069-5072. doi: 10.1128/AEM.03006-05
    • (2006) Appl. Environ. Microbiol. , vol.72 , pp. 5069-5072
    • DeSantis, T.Z.1    Hugenholtz, P.2    Larsen, N.3    Rojas, M.4    Brodie, E.L.5    Keller, K.6
  • 22
    • 84897390945 scopus 로고    scopus 로고
    • An evaluation for harnessing low-enthalpy geothermal energy in the Limpopo Province, South Africa
    • Dhansay, T., de Wit, M., and Patt, A. (2014). An evaluation for harnessing low-enthalpy geothermal energy in the Limpopo Province, South Africa. S. Afr. J. Sci. 110, 1-10. doi: 10.1590/sajs.2014/20130282
    • (2014) S. Afr. J. Sci. , vol.110 , pp. 1-10
    • Dhansay, T.1    de Wit, M.2    Patt, A.3
  • 23
    • 53749097505 scopus 로고    scopus 로고
    • Polymicrobial nature of chronic diabetic foot ulcer biofilm infections determined using bacterial tag encoded FLX amplicon pyrosequencing (bTEFAP)
    • Dowd, S. E., Wolcott, R. D., Sun, Y., McKeehan, T., Smith, E., and Rhoads, D. (2008). Polymicrobial nature of chronic diabetic foot ulcer biofilm infections determined using bacterial tag encoded FLX amplicon pyrosequencing (bTEFAP). PLoS ONE 3:e3326. doi: 10.1371/journal.pone.0003326
    • (2008) PLoS ONE , vol.3
    • Dowd, S.E.1    Wolcott, R.D.2    Sun, Y.3    McKeehan, T.4    Smith, E.5    Rhoads, D.6
  • 24
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar, R. C. (2010). Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26, 2460-2461. doi: 10.1093/bioinformatics/btq461
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 25
    • 79961181125 scopus 로고    scopus 로고
    • UCHIME improves sensitivity and speed of chimera detection
    • Edgar, R. C., Haas, B. J., Clemente, J. C., Quince, C., and Knight, R. (2011). UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27, 2194-2200. doi: 10.1093/bioinformatics/btr381
    • (2011) Bioinformatics , vol.27 , pp. 2194-2200
    • Edgar, R.C.1    Haas, B.J.2    Clemente, J.C.3    Quince, C.4    Knight, R.5
  • 26
    • 84889649570 scopus 로고    scopus 로고
    • Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data
    • Eren, A. M., Maignien, L., Sul, W. J., Murphy, L. G., Grim, S. L., Morrison, H. G., et al. (2013a). Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data. Methods Ecol. Evol. 4, 1111-1119. doi: 10.1111/2041-210X.12114
    • (2013) Methods Ecol. Evol. , vol.4 , pp. 1111-1119
    • Eren, A.M.1    Maignien, L.2    Sul, W.J.3    Murphy, L.G.4    Grim, S.L.5    Morrison, H.G.6
  • 27
    • 84879138105 scopus 로고    scopus 로고
    • A filtering method to generate high quality short reads using illumina paired-end technology
    • Eren, A. M., Vineis, J. H., Morrison, H. G., and Sogin, M. L. (2013b). A filtering method to generate high quality short reads using illumina paired-end technology. PLoS ONE 8:e66643. doi: 10.1371/journal.pone.0066643
    • (2013) PLoS ONE , vol.8
    • Eren, A.M.1    Vineis, J.H.2    Morrison, H.G.3    Sogin, M.L.4
  • 28
    • 0030613231 scopus 로고    scopus 로고
    • Population structure and physiological changes within a hot spring microbial mat community following disturbance
    • Ferris, M. J., Nold, S. C., Revsbech, N. P., and Ward, D. M. (1997). Population structure and physiological changes within a hot spring microbial mat community following disturbance. Appl. Environ. Microbiol. 63, 1367-1374.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 1367-1374
    • Ferris, M.J.1    Nold, S.C.2    Revsbech, N.P.3    Ward, D.M.4
  • 29
    • 1542380531 scopus 로고    scopus 로고
    • Partitioning of bacterial communities between travertine depositional facies at Mammoth Hot Springs, Yellowstone National Park, U.S.A
    • Fouke, B. W., Bonheyo, G. T., Sanzenbacher, B., and Frias-Lopez, J. (2003). Partitioning of bacterial communities between travertine depositional facies at Mammoth Hot Springs, Yellowstone National Park, U.S.A. Can. J. Earth Sci. 40, 1531-1548. doi: 10.1139/e03-067
    • (2003) Can. J. Earth Sci. , vol.40 , pp. 1531-1548
    • Fouke, B.W.1    Bonheyo, G.T.2    Sanzenbacher, B.3    Frias-Lopez, J.4
  • 30
    • 54549105879 scopus 로고    scopus 로고
    • Community structure of marine bacterioplankton: patterns, networks, and relationships to function
    • Fuhrman, J., and Steele, J. (2008). Community structure of marine bacterioplankton: patterns, networks, and relationships to function. Aquat. Microb. Ecol. 53, 69-81. doi: 10.3354/ame01222
    • (2008) Aquat. Microb. Ecol. , vol.53 , pp. 69-81
    • Fuhrman, J.1    Steele, J.2
  • 31
    • 53749085723 scopus 로고    scopus 로고
    • The distribution of microbial taxa in the subsurface water of the kalahari shield, South Africa
    • Gihring, T. M., Moser, D. P., Lin, L.-H., Davidson, M., Onstott, T. C., Morgan, L., et al. (2006). The distribution of microbial taxa in the subsurface water of the kalahari shield, South Africa. Geomicrobiol. J. 23, 415-430. doi: 10.1080/01490450600875696
    • (2006) Geomicrobiol. J. , vol.23 , pp. 415-430
    • Gihring, T.M.1    Moser, D.P.2    Lin, L.-H.3    Davidson, M.4    Onstott, T.C.5    Morgan, L.6
  • 32
    • 57249090263 scopus 로고    scopus 로고
    • Controls on the distribution of thermal springs in the southern Canadian Cordillera
    • Grasby, S. E., and Hutcheon, I. (2001). Controls on the distribution of thermal springs in the southern Canadian Cordillera. Can. J. Earth Sci. 38, 427-440. doi: 10.1139/e00-091
    • (2001) Can. J. Earth Sci. , vol.38 , pp. 427-440
    • Grasby, S.E.1    Hutcheon, I.2
  • 33
    • 33947687786 scopus 로고    scopus 로고
    • Origin of the natural gas seep of çirali (Chimera), Turkey: site of the first Olympic fire
    • Hosgörmez, H. (2007). Origin of the natural gas seep of çirali (Chimera), Turkey: site of the first Olympic fire. J. Asian Earth Sci. 30, 131-141. doi: 10.1016/j.jseaes.2006.08.002
    • (2007) J. Asian Earth Sci. , vol.30 , pp. 131-141
    • Hosgörmez, H.1
  • 34
    • 57149093416 scopus 로고    scopus 로고
    • Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing
    • Huse, S. M., Dethlefsen, L., Huber, J. A., Welch, D. M., Relman, D. A., and Sogin, M. L. (2008). Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing. PLoS Genet. 4:e1000255. doi: 10.1371/journal.pgen.1000255
    • (2008) PLoS Genet , vol.4 , pp. e1000255
    • Huse, S.M.1    Dethlefsen, L.2    Huber, J.A.3    Welch, D.M.4    Relman, D.A.5    Sogin, M.L.6
  • 35
    • 77955251092 scopus 로고    scopus 로고
    • Ironing out the wrinkles in the rare biosphere through improved OTU clustering
    • Huse, S. M., Welch, D. M., Morrison, H. G., and Sogin, M. L. (2010). Ironing out the wrinkles in the rare biosphere through improved OTU clustering. Environ. Microbiol. 12, 1889-1898. doi: 10.1111/j.1462-2920.2010.02193.x
    • (2010) Environ. Microbiol. , vol.12 , pp. 1889-1898
    • Huse, S.M.1    Welch, D.M.2    Morrison, H.G.3    Sogin, M.L.4
  • 36
    • 80955177493 scopus 로고    scopus 로고
    • Characterization of bacterial diversity to a depth of 1500 m in the Outokumpu deep borehole, Fennoscandian Shield
    • Itävaara, M., Nyyssönen, M., Kapanen, A., Nousiainen, A., Ahonen, L., and Kukkonen, I. (2011). Characterization of bacterial diversity to a depth of 1500 m in the Outokumpu deep borehole, Fennoscandian Shield. FEMS Microbiol. Ecol. 77, 295-309. doi: 10.1111/j.1574-6941.2011.01111.x
    • (2011) FEMS Microbiol. Ecol. , vol.77 , pp. 295-309
    • Itävaara, M.1    Nyyssönen, M.2    Kapanen, A.3    Nousiainen, A.4    Ahonen, L.5    Kukkonen, I.6
  • 37
    • 84873036043 scopus 로고    scopus 로고
    • Association between physical and geochemical characteristics of thermal springs and algal diversity in Limpopo Province, South Africa
    • Jonker, C. Z., van Ginkel, C., and Olivier, J. (2013). Association between physical and geochemical characteristics of thermal springs and algal diversity in Limpopo Province, South Africa. Water SA. 39, 95-104. doi: 10.4313/wsa.v39i1.10
    • (2013) Water SA. , vol.39 , pp. 95-104
    • Jonker, C.Z.1    van Ginkel, C.2    Olivier, J.3
  • 38
    • 24644441228 scopus 로고    scopus 로고
    • Geochemically Generated, Energy-Rich Substrates and Indigenous Microorganisms in Deep, Ancient Groundwater
    • Kieft, T. L., McCuddy, S. M., Onstott, T. C., Davidson, M., Lin, L.-H., Mislowack, B., et al. (2005). Geochemically Generated, Energy-Rich Substrates and Indigenous Microorganisms in Deep, Ancient Groundwater. Geomicrobiol. J. 22, 325-335. doi: 10.1080/01490450500184876
    • (2005) Geomicrobiol. J. , vol.22 , pp. 325-335
    • Kieft, T.L.1    McCuddy, S.M.2    Onstott, T.C.3    Davidson, M.4    Lin, L.-H.5    Mislowack, B.6
  • 39
    • 79959677258 scopus 로고    scopus 로고
    • Target region selection is a critical determinant of community fingerprints generated by 16S Pyrosequencing
    • Kumar, P. S., Brooker, M. R., Dowd, S. E., and Camerlengo, T. (2011). Target region selection is a critical determinant of community fingerprints generated by 16S Pyrosequencing. PLoS ONE 6:e20956. doi: 10.1371/journal.pone.0020956
    • (2011) PLoS ONE , vol.6
    • Kumar, P.S.1    Brooker, M.R.2    Dowd, S.E.3    Camerlengo, T.4
  • 40
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B., Trapnell, C., Pop, M., and Salzberg, S. L. (2009). Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10:R25. doi: 10.1186/gb-2009-10-3-r25
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 41
    • 84987846822 scopus 로고    scopus 로고
    • Phylogeny and phylogeography of functional genes shared among seven terrestrial subsurface metagenomes reveal N-cycling and microbial evolutionary relationships
    • Lau, M. C. Y., Cameron, C., Magnabosco, C., Brown, C. T., Schilkey, F., Grim, S. L., et al. (2014). Phylogeny and phylogeography of functional genes shared among seven terrestrial subsurface metagenomes reveal N-cycling and microbial evolutionary relationships. Front. Microbiol. 5:531. doi: 10.3389/fmicb.2014.00531
    • (2014) Front. Microbiol , vol.5 , pp. 531
    • Lau, M.C.Y.1    Cameron, C.2    Magnabosco, C.3    Brown, C.T.4    Schilkey, F.5    Grim, S.L.6
  • 42
    • 33947314286 scopus 로고    scopus 로고
    • Planktonic microbial communities associated with fracture-derived groundwater in a deep gold mine of South Africa
    • Lin, L.-H., Hall, J., Onstott, T. C., Gihring, T., Lollar, B. S., Boice, E., et al. (2006a). Planktonic microbial communities associated with fracture-derived groundwater in a deep gold mine of South Africa. Geomicrobiol. J. 23, 475-497. doi: 10.1080/01490450600875829
    • (2006) Geomicrobiol. J. , vol.23 , pp. 475-497
    • Lin, L.-H.1    Hall, J.2    Onstott, T.C.3    Gihring, T.4    Lollar, B.S.5    Boice, E.6
  • 43
    • 33750332574 scopus 로고    scopus 로고
    • Long-term sustainability of a high-energy, low-diversity crustal biome
    • Lin, L.-H., Wang, P.-L., Rumble, D., Lippmann-Pipke, J., Boice, E., Pratt, L. M., et al. (2006b). Long-term sustainability of a high-energy, low-diversity crustal biome. Science 314, 479-482. doi: 10.1126/science.1127376
    • (2006) Science , vol.314 , pp. 479-482
    • Lin, L.-H.1    Wang, P.-L.2    Rumble, D.3    Lippmann-Pipke, J.4    Boice, E.5    Pratt, L.M.6
  • 44
    • 54549106898 scopus 로고    scopus 로고
    • Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers
    • Liu, Z., Desantis, T. Z., Andersen, G. L., and Knight, R. (2008). Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers. Nucleic Acids Res. 36:e120. doi: 10.1093/nar/gkn491
    • (2008) Nucleic Acids Res , vol.36
    • Liu, Z.1    Desantis, T.Z.2    Andersen, G.L.3    Knight, R.4
  • 45
    • 51349136973 scopus 로고    scopus 로고
    • Isotopic signatures of CH4 and higher hydrocarbon gases from Precambrian Shield sites: a model for abiogenic polymerization of hydrocarbons
    • Lollar, B. S., Lacrampe-Couloume, G., Voglesonger, K., Onstott, T. C., Pratt, L. M., and Slater, G. F. (2008). Isotopic signatures of CH4 and higher hydrocarbon gases from Precambrian Shield sites: a model for abiogenic polymerization of hydrocarbons. Geochim. Cosmochim. Acta 72, 4778-4795. doi: 10.1016/j.gca.2008.07.004
    • (2008) Geochim. Cosmochim. Acta , vol.72 , pp. 4778-4795
    • Lollar, B.S.1    Lacrampe-Couloume, G.2    Voglesonger, K.3    Onstott, T.C.4    Pratt, L.M.5    Slater, G.F.6
  • 46
    • 29144464937 scopus 로고    scopus 로고
    • UniFrac: a new phylogenetic method for comparing microbial communities
    • Lozupone, C., and Knight, R. (2005). UniFrac: a new phylogenetic method for comparing microbial communities. Appl. Environ. Microbiol. 71, 8228-8235. doi: 10.1128/AEM.71.12.8228-8235.2005
    • (2005) Appl. Environ. Microbiol. , vol.71 , pp. 8228-8235
    • Lozupone, C.1    Knight, R.2
  • 47
    • 35148880782 scopus 로고    scopus 로고
    • Mineralogical, chemical and biological characterization of an anaerobic biofilm collected from a borehole in a deep gold mine in South Africa
    • MacLean, L. C. W., Pray, T. J., Onstott, T. C., Brodie, E. L., Hazen, T. C., and Southam, G. (2007). Mineralogical, chemical and biological characterization of an anaerobic biofilm collected from a borehole in a deep gold mine in South Africa. Geomicrobiol. J. 24, 491-504. doi: 10.1080/01490450701572416
    • (2007) Geomicrobiol. J. , vol.24 , pp. 491-504
    • MacLean, L.C.W.1    Pray, T.J.2    Onstott, T.C.3    Brodie, E.L.4    Hazen, T.C.5    Southam, G.6
  • 48
    • 12144286181 scopus 로고    scopus 로고
    • The role of physical, chemical, and microbial heterogeneity on the field-scale transport and attachment of bacteria
    • Mailloux, B. J. (2003). The role of physical, chemical, and microbial heterogeneity on the field-scale transport and attachment of bacteria. Water Resour. Res. 39:1142. doi: 10.1029/2002WR001591
    • (2003) Water Resour. Res , vol.39 , pp. 1142
    • Mailloux, B.J.1
  • 49
    • 56349141935 scopus 로고    scopus 로고
    • Origins of high pH mineral waters from ultramafic rocks, Central Portugal
    • Marques, J. M., Carreira, P. M., Carvalho, M. R., Matias, M. J., Goff, F. E., Basto, M. J., et al. (2008). Origins of high pH mineral waters from ultramafic rocks, Central Portugal. Appl. Geochem. 23, 3278-3289. doi: 10.1016/j.apgeochem.2008.06.029
    • (2008) Appl. Geochem. , vol.23 , pp. 3278-3289
    • Marques, J.M.1    Carreira, P.M.2    Carvalho, M.R.3    Matias, M.J.4    Goff, F.E.5    Basto, M.J.6
  • 50
    • 79961170598 scopus 로고    scopus 로고
    • Hydrothermal ecotones and streamer biofilm communities in the Lower Geyser Basin, Yellowstone National Park
    • Meyer-Dombard, D. R., Swingley, W., Raymond, J., Havig, J., Shock, E. L., and Summons, R. E. (2011). Hydrothermal ecotones and streamer biofilm communities in the Lower Geyser Basin, Yellowstone National Park. Environ. Microbiol. 13, 2216-2231. doi: 10.1111/j.1462-2920.2011.02476.x
    • (2011) Environ. Microbiol. , vol.13 , pp. 2216-2231
    • Meyer-Dombard, D.R.1    Swingley, W.2    Raymond, J.3    Havig, J.4    Shock, E.L.5    Summons, R.E.6
  • 51
    • 0001020041 scopus 로고
    • Measuring of Interspecific association and similarity between communities
    • Morisita, M. (1959). Measuring of Interspecific association and similarity between communities. Mem. Fac. Sci. Kyushu Univ. Ser. E 3, 65-80.
    • (1959) Mem. Fac. Sci. Kyushu Univ. Ser. E , vol.3 , pp. 65-80
    • Morisita, M.1
  • 52
    • 84874991427 scopus 로고    scopus 로고
    • Geochemistry and geobiology of a present-day serpentinization site in California: the Cedars
    • Morrill, P. L., Kuenen, J. G., Johnson, O. J., Suzuki, S., Rietze, A., Sessions, A. L., et al. (2013). Geochemistry and geobiology of a present-day serpentinization site in California: the Cedars. Geochim. Cosmochim. Acta 109, 222-240. doi: 10.1016/j.gca.2013.01.043
    • (2013) Geochim. Cosmochim. Acta , vol.109 , pp. 222-240
    • Morrill, P.L.1    Kuenen, J.G.2    Johnson, O.J.3    Suzuki, S.4    Rietze, A.5    Sessions, A.L.6
  • 54
    • 0347723719 scopus 로고    scopus 로고
    • Temporal shifts in the geochemistry and microbial community structure of an ultradeep mine borehole following isolation
    • Moser, D. P., Onstott, T. C., Fredrickson, J. K., Brockman, F. J., Balkwill, D. L., Drake, G. R., et al. (2003). Temporal shifts in the geochemistry and microbial community structure of an ultradeep mine borehole following isolation. Geomicrobiol. J. 20, 517-548. doi: 10.1080/713851170
    • (2003) Geomicrobiol. J. , vol.20 , pp. 517-548
    • Moser, D.P.1    Onstott, T.C.2    Fredrickson, J.K.3    Brockman, F.J.4    Balkwill, D.L.5    Drake, G.R.6
  • 56
    • 47249092186 scopus 로고    scopus 로고
    • Physical and chemical characteristics of thermal springs in the Waterberg area in Limpopo Province, South Africa
    • Olivier, J., van Niekerk, H. J., and van der Walt, I. J. (2008). Physical and chemical characteristics of thermal springs in the Waterberg area in Limpopo Province, South Africa. Water SA 34, 163-174.
    • (2008) Water SA , vol.34 , pp. 163-174
    • Olivier, J.1    van Niekerk, H.J.2    van der Walt, I.J.3
  • 57
    • 80155180519 scopus 로고    scopus 로고
    • Thermal and chemical characteristics of hot water springs in the northern part of the Limpopo Province, South Africa
    • Olivier, J., Venter, J. S., and Jonker, C. Z. (2011). Thermal and chemical characteristics of hot water springs in the northern part of the Limpopo Province, South Africa. Water SA 37, 427-436.
    • (2011) Water SA , vol.37 , pp. 427-436
    • Olivier, J.1    Venter, J.S.2    Jonker, C.Z.3
  • 58
    • 33947312626 scopus 로고    scopus 로고
    • The origin and age of biogeochemical trends in deep fracture water of the Witwatersrand Basin, South Africa
    • Onstott, T. C., Lin, L. H., Davidson, M., Mislowack, B., Borcsik, M., Hall, J., et al. (2006). The origin and age of biogeochemical trends in deep fracture water of the Witwatersrand Basin, South Africa. Geomicrobiol. J. 23, 369-414. doi: 10.1080/01490450600875688
    • (2006) Geomicrobiol. J. , vol.23 , pp. 369-414
    • Onstott, T.C.1    Lin, L.H.2    Davidson, M.3    Mislowack, B.4    Borcsik, M.5    Hall, J.6
  • 60
    • 65949108590 scopus 로고    scopus 로고
    • Metagenomic pyrosequencing and microbial identification
    • Petrosino, J. F., Highlander, S., Luna, R. A., Gibbs, R. A., and Versalovic, J. (2009). Metagenomic pyrosequencing and microbial identification. Clin. Chem. 55, 856-866. doi: 10.1373/clinchem.2008.107565
    • (2009) Clin. Chem. , vol.55 , pp. 856-866
    • Petrosino, J.F.1    Highlander, S.2    Luna, R.A.3    Gibbs, R.A.4    Versalovic, J.5
  • 61
    • 49949140975 scopus 로고
    • The measurement of diversity in different types of biological collections
    • Pielou, E. C. (1967). The measurement of diversity in different types of biological collections. J. Theor. Biol. 15, 177. doi: 10.1016/0022-5193(67)90048-3
    • (1967) J. Theor. Biol. , vol.15 , pp. 177
    • Pielou, E.C.1
  • 62
    • 0022489782 scopus 로고
    • 4th Edn. New York, NY: WH Freeman and Co.
    • Press, F., and Siever, R. (1986). Earth. 4th Edn. New York, NY: WH Freeman and Co.
    • (1986) Earth
    • Press, F.1    Siever, R.2
  • 63
    • 67649327176 scopus 로고    scopus 로고
    • Fasttree: computing large minimum evolution trees with profiles instead of a distance matrix
    • Price, M. N., Dehal, P. S., and Arkin, A. P. (2009). Fasttree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol. Biol. Evol. 26, 1641-1650. doi: 10.1093/molbev/msp077
    • (2009) Mol. Biol. Evol. , vol.26 , pp. 1641-1650
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 64
    • 69549129476 scopus 로고    scopus 로고
    • The "rare biosphere": a reality check
    • Reeder, J., and Knight, R. (2009). The "rare biosphere": a reality check. Nat. Methods 6, 636-637. doi: 10.1038/nmeth0909-636
    • (2009) Nat. Methods , vol.6 , pp. 636-637
    • Reeder, J.1    Knight, R.2
  • 65
    • 33846091179 scopus 로고    scopus 로고
    • ltm: an R package for latent variable modeling and item response theory analyses
    • Rizopoulos, D. (2006). ltm: an R package for latent variable modeling and item response theory analyses. J. Stat. Softw. 17, 1-25.
    • (2006) J. Stat. Softw. , vol.17 , pp. 1-25
    • Rizopoulos, D.1
  • 66
    • 72949107142 scopus 로고    scopus 로고
    • Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • Schloss, P. D., Westcott, S. L., Ryabin, T., Hall, J. R., Hartmann, M., Hollister, E. B., et al. (2009). Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537-7541. doi: 10.1128/AEM.01541-09
    • (2009) Appl. Environ. Microbiol. , vol.75 , pp. 7537-7541
    • Schloss, P.D.1    Westcott, S.L.2    Ryabin, T.3    Hall, J.R.4    Hartmann, M.5    Hollister, E.B.6
  • 67
    • 77952957390 scopus 로고    scopus 로고
    • Microbial provinces in the subseafloor
    • Schrenk, M. O., Huber, J. A., and Edwards, K. J. (2010). Microbial provinces in the subseafloor. Ann. Rev. Mar. Sci. 2, 279-304. doi: 10.1146/annurev-marine-120308-081000
    • (2010) Ann. Rev. Mar. Sci. , vol.2 , pp. 279-304
    • Schrenk, M.O.1    Huber, J.A.2    Edwards, K.J.3
  • 68
    • 33747073504 scopus 로고    scopus 로고
    • Microbial diversity in the deep sea and the underexplored "rare biosphere." Proc
    • Sogin, M. L., Morrison, H. G., Huber, J. A., Mark Welch, D., Huse, S. M., Neal, P. R., et al. (2006). Microbial diversity in the deep sea and the underexplored "rare biosphere." Proc. Natl. Acad. Sci. U.S.A. 103, 12115-12120. doi: 10.1073/pnas.0605127103
    • (2006) Natl. Acad. Sci. U.S.A. , vol.103 , pp. 12115-12120
    • Sogin, M.L.1    Morrison, H.G.2    Huber, J.A.3    Mark Welch, D.4    Huse, S.M.5    Neal, P.R.6
  • 69
    • 84904162479 scopus 로고
    • A method of establishing groups of equal amplitude in plant sociology based on similarity of species content
    • Sorensen, T. (1948). A method of establishing groups of equal amplitude in plant sociology based on similarity of species content. K. Danske Vidensk. Selsk. 5, 4-7.
    • (1948) K. Danske Vidensk. Selsk. , vol.5 , pp. 4-7
    • Sorensen, T.1
  • 71
    • 84884324550 scopus 로고    scopus 로고
    • Microbial diversity in The Cedars, an ultrabasic, ultrareducing, and low salinity serpentinizing ecosystem
    • Suzuki, S., Ishii, S., Wu, A., Cheung, A., Tenney, A., Wanger, G., et al. (2013). Microbial diversity in The Cedars, an ultrabasic, ultrareducing, and low salinity serpentinizing ecosystem. Proc. Natl. Acad. Sci. U.S.A. 110, 15336-15341. doi: 10.1073/pnas.1302426110
    • (2013) Proc. Natl. Acad. Sci. U.S.A. , vol.110 , pp. 15336-15341
    • Suzuki, S.1    Ishii, S.2    Wu, A.3    Cheung, A.4    Tenney, A.5    Wanger, G.6
  • 72
    • 84878245415 scopus 로고    scopus 로고
    • Geochemistry of a continental site of serpentinization, the tablelands ophiolite, gros morne national park: a Mars analogue
    • Szponar, N., Brazelton, W. J., Schrenk, M. O., Bower, D. M., Steele, A., and Morrill, P. L. (2013). Geochemistry of a continental site of serpentinization, the tablelands ophiolite, gros morne national park: a Mars analogue. Icarus 224, 286-296. doi: 10.1016/j.icarus.2012.07.004
    • (2013) Icarus , vol.224 , pp. 286-296
    • Szponar, N.1    Brazelton, W.J.2    Schrenk, M.O.3    Bower, D.M.4    Steele, A.5    Morrill, P.L.6
  • 74
    • 83355173191 scopus 로고    scopus 로고
    • Metagenomic analysis of bacterial diversity of Siloam hot water spring, Limpopo, South Africa
    • Tekere, M., Lötter, A., Olivier, J., Jonker, N., and Venter, S. (2011). Metagenomic analysis of bacterial diversity of Siloam hot water spring, Limpopo, South Africa. Afr. J. Biotechnol. 10, 18005-18012. doi: 10.5897/AJB11.899
    • (2011) Afr. J. Biotechnol. , vol.10 , pp. 18005-18012
    • Tekere, M.1    Lötter, A.2    Olivier, J.3    Jonker, N.4    Venter, S.5
  • 75
    • 84870847376 scopus 로고    scopus 로고
    • An evaluation of the bacterial diversity at Tshipise, Mphephu and Sagole hot water springs, Limpopo Province, South Africa
    • Tekere, M., Prinsloo, A., Olivier, J., Jonker, N., and Venter, S. (2012). An evaluation of the bacterial diversity at Tshipise, Mphephu and Sagole hot water springs, Limpopo Province, South Africa. Afr. J. Microbiol. Res. 6, 4993-5004. doi: 10.5897/AJMR12.250
    • (2012) Afr. J. Microbiol. Res. , vol.6 , pp. 4993-5004
    • Tekere, M.1    Prinsloo, A.2    Olivier, J.3    Jonker, N.4    Venter, S.5
  • 76
    • 84930393661 scopus 로고    scopus 로고
    • Using water chemistry, isotopes and microbiology to evaluate groundwater sources, flow paths and geochemical reactions in the death valley flow system, USA
    • Thomas, J. M., Moser, D. P., Fisher, J. C., Reihle, J., Wheatley, A., Hershey, R. L., et al. (2013). Using water chemistry, isotopes and microbiology to evaluate groundwater sources, flow paths and geochemical reactions in the death valley flow system, USA. Procedia Earth Planet. Sci. 7, 842-845. doi: 10.1016/j.proeps.2013.03.033
    • (2013) Procedia Earth Planet. Sci. , vol.7 , pp. 842-845
    • Thomas, J.M.1    Moser, D.P.2    Fisher, J.C.3    Reihle, J.4    Wheatley, A.5    Hershey, R.L.6
  • 77
    • 84878633275 scopus 로고    scopus 로고
    • Microbial and functional diversity of a subterrestrial high pH groundwater associated to serpentinization
    • Tiago, I., and Veríssimo, A. (2013). Microbial and functional diversity of a subterrestrial high pH groundwater associated to serpentinization. Environ. Microbiol. 15, 1687-1706. doi: 10.1111/1462-2920.12034
    • (2013) Environ. Microbiol. , vol.15 , pp. 1687-1706
    • Tiago, I.1    Veríssimo, A.2
  • 79
    • 34548293679 scopus 로고    scopus 로고
    • Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
    • Wang, Q., Garrity, G. M., Tiedje, J. M., and Cole, J. R. (2007). Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73, 5261-5267. doi: 10.1128/AEM.00062-07
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 5261-5267
    • Wang, Q.1    Garrity, G.M.2    Tiedje, J.M.3    Cole, J.R.4
  • 80
    • 0031737291 scopus 로고    scopus 로고
    • A natural view of microbial biodiversity within hot spring cyanobacterial mat communities
    • Ward, D. M., Ferris, M. J., Nold, S. C., and Bateson, M. M. (1998). A natural view of microbial biodiversity within hot spring cyanobacterial mat communities. Microbiol. Mol. Biol. Rev. 62, 1353-1370.
    • (1998) Microbiol. Mol. Biol. Rev. , vol.62 , pp. 1353-1370
    • Ward, D.M.1    Ferris, M.J.2    Nold, S.C.3    Bateson, M.M.4
  • 82
    • 0000752430 scopus 로고
    • Similarity indices, sample size and diversity
    • Wolda, H. (1981). Similarity indices, sample size and diversity. Oecologia 50, 296-302. doi: 10.1007/BF00344966
    • (1981) Oecologia , vol.50 , pp. 296-302
    • Wolda, H.1
  • 83
    • 34547451077 scopus 로고    scopus 로고
    • Rheinheimera aquimaris sp nov., isolated from seawater of the East Sea in Korea.
    • Yoon, J.-H., Bae, S. E., Kang, S.-J., and Oh, T.-K. (2007). Rheinheimera aquimaris sp. nov., isolated from seawater of the East Sea in Korea. Int. J. Syst. Evol. Microbiol. 57, 1386-1390. doi: 10.1099/ijs.0.64898-0
    • (2007) Int. J. Syst. Evol. Microbiol. , vol.57 , pp. 1386-1390
    • Yoon, J.-H.1    Bae, S.E.2    Kang, S.-J.3    Oh, T.-K.4
  • 84
    • 55849139045 scopus 로고    scopus 로고
    • Rheinheimera tangshanensis sp nov., a rice root-associated bacterium.
    • Zhang, X., Sun, L., Qiu, F., McLean, R. J. C., Jiang, R., and Song, W. (2008). Rheinheimera tangshanensis sp. nov., a rice root-associated bacterium. Int. J. Syst. Evol. Microbiol. 58, 2420-2424. doi: 10.1099/ijs.0.65605-0
    • (2008) Int. J. Syst. Evol. Microbiol. , vol.58 , pp. 2420-2424
    • Zhang, X.1    Sun, L.2    Qiu, F.3    McLean, R.J.C.4    Jiang, R.5    Song, W.6


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