Free-living bacterial communities associated with tubeworm (Ridgeia piscesae) aggregations in contrasting diffuse flow hydrothermal vent habitats at the main Endeavour field, Juan de Fuca Ridge

MicrobiologyOpen

Volumn 2, Issue 2, 2013, Pages 259-275

  Forget, Nathalie L ^a   Kim Juniper, S ^a  

^a UNIVERSITY OF VICTORIA   (Canada)

Author keywords

454 tag sequencing; Bacterial diversity; Hydrothermal vents; Microbial ecology; Pyrosequencing; Ridgeia piscesae; SSU rRNA gene

Indexed keywords

HYDROGEN; SULFUR;

ACTINOBACTERIA; ARTICLE; BACTERIUM DETECTION; BACTEROIDETES; CANADA; CHLOROFLEXI; CONTROLLED STUDY; DECOMPOSER; DEINOCOCCUS; DELTAPROTEOBACTERIA; DETRITUS; EPSILONPROTEOBACTERIA; FIRMICUTES; GAMMAPROTEOBACTERIA; HABITAT; HETEROTROPH; HYDROTHERMAL VENT; METABOLISM; METHANOTROPH; MICROBIAL COMMUNITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANCTOMYCETES; PRIORITY JOURNAL; RIDGEIA PISCESAE; SIBOGLINIDAE; SULFUR CYCLE; SULFUR OXIDIZING BACTERIUM; SULFUROVUM; TEMPERATURE; THERMUS; TUBEWORM; UNITED STATES; VERRUCOMICROBIA;

ANIMALS; BIODIVERSITY; CARBON; DELTAPROTEOBACTERIA; DNA, BACTERIAL; ECOSYSTEM; EPSILONPROTEOBACTERIA; GAMMAPROTEOBACTERIA; GEOLOGIC SEDIMENTS; HYDROTHERMAL VENTS; NITROGEN; PHYLOGENY; POLYCHAETA; SEQUENCE ANALYSIS, DNA; SULFUR; WATER MICROBIOLOGY;

ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CHLOROFLEXI; CHLOROFLEXI (CLASS); DEINOCOCCUS-THERMUS; DELTAPROTEOBACTERIA; EPSILONPROTEOBACTERIA; FIRMICUTES; GAMMAPROTEOBACTERIA; PLANCTOMYCETES; RIDGEIA PISCESAE; SULFUROVUM; TUBICOLAE; VERRUCOMICROBIA;

EID: 84897926611     PISSN: None     EISSN: 20458827     Source Type: Journal    
DOI: 10.1002/mbo3.70     Document Type: Article

References (100)

1. Alain, K., M. Olagnon, D. Desbruyeres, A. Page, G. Barbier, S. K. Juniper, et al. 2002. Phylogenetic characterization of the bacterial assemblage associated with mucous secretions of the hydrothermal vent polychaete Paralvinella palmiformis. FEMS Microbiol. Ecol. 42:463-476.
2. Alain, K., M. Zbinden, N. Le Bris, F. Lesongeur, J. Querellou, F. Gaill, et al. 2004. Early steps in microbial colonization processes at deep-sea hydrothermal vents. Environ. Microbiol. 6:227-241.
3. Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16s rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736.
4. Baross, J. A., and J. W. Deming. 1983. Growth of black smoker bacteria at temperatures of at least 250-degrees-C. Nature 303:423-426.
5. Belkin, S., C. O. Wirsen, and H. W. Jannasch. 1986. A new sulfur-reducing, extremely thermophilic eubacterium from a submarine thermal vent. Appl. Environ. Microbiol. 51:1180-1185.
6. Bourbonnais, A., M. F. Lehmann, D. A. Butterfield, and S. K. Juniper. 2012. Subseafloor nitrogen transformations in diffuse hydrothermal vent fluids of the Juan de Fuca Ridge evidenced by the isotopic composition of nitrate and ammonium. Geochem. Geophys. Geosyst. 13:1-23.
7. Bowman, J. P., L. I. Sly, P. D. Nichols, and A. C. Hayward. 1993. Revised taxonomy of the methanotrophs - description of methylobacter gen-nov., emendation of Methylococcus, validation of Methylosinus and Methylocystis species, and a proposal that the family Methylococcaceae includes only the group-I methanotrophs. Int. J. Syst. Bacteriol. 43:735-753.
8. Butterfield, D. A., R. E. McDuff, M. J. Mottl, M. D. Lilley, J. E. Lupton, and G. J. Massoth. 1994. Gradients in the composition of hydrothermal fluids from the endeavor segment vent field - phase-separation and brine loss. J. Geophys. Res. Solid Earth 99:9561-9583.
9. Byrne, N., F. Lesongeur, N. Bienvenu, C. Geslin, K. Alain, D. Prieur, et al. 2009. Effect of variation of environmental conditions on the microbial communities of deep-sea vent chimneys, cultured in a bioreactor. Extremophiles 13:595-608.
10. Campbell, B. J., C. Jeanthon, J. E. Kostka, G. W. Luther, and S. C. Cary. 2001. Growth and phylogenetic properties of novel bacteria belonging to the epsilon subdivision of the Proteobacteria enriched from Alvinella pompejana and deep-sea hydrothermal vents. Appl. Environ. Microbiol. 67:4566-4572.
11. Campbell, B. J., A. S. Engel, M. L. Porter, and K. Takai. 2006. The versatile epsilon-proteobacteria: key players in sulphidic habitats. Nat. Rev. Microbiol. 4:458-468.
12. Corliss, J. B., J. Dymond, L. I. Gordon, J. M. Edmond, R. P. V. Herzen, R. D. Ballard, et al. 1979. Submarine thermal springs on the Galapagos rift. Science 203:1073-1083.
13. Corre, E., A. L. Reysenbach, and D. Prieur. 2001. Epsilon-proteobacterial diversity from a deep-sea hydrothermal vent on the Mid-Atlantic Ridge. FEMS Microbiol. Lett. 205:329-335.
14. Cuvelier, D., J. Sarrazin, A. Colaco, J. Copley, D. Desbruyeres, A. G. Glover, et al. 2009. Distribution and spatial variation of hydrothermal faunal assemblages at Lucky Strike (Mid-Atlantic Ridge) revealed by high-resolution video image analysis. Deep Sea Res. I Oceanogr. Res. Pap. 56:2026-2040.
15. Cuvelier, D., P. M. Sarradin, J. Sarrazin, A. Colaco, J. T. Copley, D. Desbruyeres, et al. 2011. Hydrothermal faunal assemblages and habitat characterisation at the Eiffel Tower edifice (Lucky Strike, Mid-Atlantic Ridge). Mar. Ecol. Evol. Perspect. 32:243-255.
16. Davis, R.E., and C. L. Moyer. 2008. Extreme spatial and temporal variability of hydrothermal microbial mat communities along the Mariana Island Arc and southern Mariana back-arc system. J. Geophys. Res. Solid Earth 113:B08S15, doi: 10.1029/2007JB005413.
17. de Angelis, M. A., M. D. Lilley, E. J. Olson, and J. A. Baross. 1993. Methane oxidation in deep-sea hydrothermal plumes of the endeavor segment of the Juan-de-Fuca Ridge. Deep Sea Res. I Oceanogr. Res. Pap. 40:1169-1186.
18. DeSantis, T. Z., P. Hugenholtz, N. Larsen, M. Rojas, E. L. Brodie, K. Keller, et al. 2006. Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl. Environ. Microbiol. 72:5069-5072.
19. Durand, S., P. Legendre, and S. K. Juniper. 2006. Sonar backscatter differentiation of dominant macrohabitat types in a hydrothermal vent field. Ecol. Appl. 16:1421-1435.
20. Edgar, R. C., B. J. Haas, J. C. Clemente, C. Quince, and R. Knight. 2011. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27:2194-2200.
21. Felbeck, H., and G. N. Somero. 1982. Primary production in deep-sea hydrothermal vent organisms - roles of sulfide-oxidizing bacteria. Trends Biochem. Sci. 7:201-204.
22. Felsenstein, J. 2005. PHYLIP (Phylogeny Inference Package) version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle.
23. Flores, G. E., J. H. Campbell, J. D. Kirshtein, J. Meneghin, M. Podar, J. I. Steinberg, et al. 2011. Microbial community structure of hydrothermal deposits from geochemically different vent fields along the Mid-Atlantic Ridge. Environ. Microbiol. 13:2158-2171.
24. Forget, N. L., S. A. Murdock, and S. K. Juniper. 2010. Bacterial diversity in Fe-rich hydrothermal sediments at two South Tonga Arc submarine volcanoes. Geobiology 8:417-432.
25. Fustec, A., D. Desbruyeres, and S. K. Juniper. 1987. Deep-sea hydrothermal vent communities at 13°N on the East Pacific Rise: microdistribution and temporal variations. Biol. Oceanogr. 4:121-164.
26. Gorlenko, V. M., I. A. Bryantseva, E. E. Panteleeva, T. P. Tourova, and T. V. Kolganova. 2004. Ectothiorhodosinus mongolicum gen. nov., sp. nov., a new purple bacterium from a soda lake in Mongolia. Microbiology 73:66-73.
27. Guri, M., L. Durand, V. Cueff-Gauchard, M. Zbinden, P. Crassous, B. Shillito, et al. 2012. Acquisition of epibiotic bacteria along the life cycle of the hydrothermal shrimp Rimicaris exoculata. ISME J. 6:597-609.
28. Harold, R., and R. Y. Stanier. 1955. The genera Leucothrix and Thiothrix. Bacteriol. Rev. 19:49-64.
29. Hessler, R. R., W. M. Smithey, M. A. Boudrias, C. H. Keller, R. A. Lutz, and J. J. Childress. 1988. Temporal change in megafauna at the rose garden hydrothermal vent (Galapagos rift - eastern tropical Pacific). Deep Sea Res. I Oceanogr. Res. Pap. 35:1681-1709.
30. Horn, H. S. 1966. Measurement of overlap in comparative ecological studies. Am. Nat. 100:419-424.
31. Huber, J. A., D. A. Butterfield, and J. A. Baross. 2003. Bacterial diversity in a subseafloor habitat following a deep-sea volcanic eruption. FEMS Microbiol. Ecol. 43:393-409.
32. Huber, T., G. Faulkner, and P. Hugenholtz. 2004. Bellerophon: a program to detect chimeric sequences in multiple sequence alignments. Bioinformatics 20:2317-2319.
33. Huber, J. A., H. V. Cantin, S. M. Huse, D. B. M. Welch, M. L. Sogin, and D. A. Butterfield. 2010. Isolated communities of Epsilonproteobacteria in hydrothermal vent fluids of the Mariana Arc seamounts. FEMS Microbiol. Ecol. 73:538-549.
34. Huse, S. M., J. A. Huber, H. G. Morrison, M. L. Sogin, and D. Mark Welch. 2007. Accuracy and quality of massively parallel DNA pyrosequencing. Genome Biol. 8:R143.
35. Inagaki, F., K. Takai, K. I. Hideki, K. H. Nealson, and K. Horikishi. 2003. Sulfurimonas autotrophica gen. nov., sp. nov., a novel sulfur-oxidizing epsilon-proteobacterium isolated from hydrothermal sediments in the Mid-Okinawa Trough. Int. J. Syst. Evol. Microbiol. 53:1801-1805.
36. Inagaki, F., K. Takai, K. H. Nealson, and K. Horikoshi. 2004. Sulfurovum lithotrophicum gen. nov., sp. nov., a novel sulfur-oxidizing chemolithoautotroph within the epsilon-Proteobacteria isolated from Okinawa Trough hydrothermal sediments. Int. J. Syst. Evol. Microbiol. 54:1477-1482.
37. Isaksen, M. F., and A. Teske. 1996. Desulforhopalus vacuolatus gen. nov., sp. nov., a new moderately psychrophilic sulfate-reducing bacterium with gas vacuoles isolated from a temperate estuary. Arch. Microbiol. 166:160-168.
38. Jannasch, H. W., and C. O. Wirsen. 1979. Chemo-synthetic primary production at east Pacific sea-floor spreading centers. Bioscience 29:592-598.
39. Jannasch, H. W., and C. O. Wirsen. 1981. Morphological survey of microbial mats near deep-sea thermal vents. Appl. Environ. Microbiol. 41:528-538.
40. Jannasch, H. W., C. O. Wirsen, S. J. Molyneaux, and T. A. Langworthy. 1988. Extremely thermophilic fermentative archaebacteria of the genus desulfurococcus from deep-sea hydrothermal vents. Appl. Environ. Microbiol. 54:1203-1209.
41. Janssen, P. H., A. Schuhmann, F. Bak, and W. Liesack. 1996. Disproportionation of inorganic sulfur compounds by the sulfate-reducing bacterium Desulfocapsa thiozymogenes gen. nov., sp. nov. Arch. Microbiol. 166:184-192.
42. Jones, W. J., J. A. Leigh, F. Mayer, C. R. Woese, and R. S. Wolfe. 1983. Methanococcus jannaschii sp-nov., an extremely thermophilic methanogen from a submarine hydrothermal vent. Arch. Microbiol. 136:254-261.
43. Karl, D. M., C. O. Wirsen, and H. W. Jannasch. 1980. Deep-sea primary production at the Galapagos hydrothermal vents. Science 207:1345-1347.
44. Kato, S., Y. Takano, T. Kakegawa, H. Oba, K. Inoue, C. Kobayashi, et al. 2010. Biogeography and biodiversity in sulfide structures of active and inactive vents at deep-sea hydrothermal fields of the Southern Mariana Trough. Appl. Environ. Microbiol. 76:2968-2979.
45. Kormas, K. A., M. K. Tivey, K. Von Damm, and A. Teske. 2006. Bacterial and archaeal phylotypes associated with distinct mineralogical layers of a white smoker spire from a deep-sea hydrothermal vent site (9 degrees N, East Pacific Rise). Environ. Microbiol. 8:909-920.
46. Kurahashi, M., and A. Yokota. 2007. Endozoicomonas elysicola gen. nov., sp. nov., a gamma-proteobacterium isolated from the sea slug Elysia ornata. Syst. Appl. Microbiol. 30:202-206.
47. Lanzen, A., S. L. Jorgensen, M. M. Bengtsson, I. Jonassen, L. Ovreas, and T. Urich. 2011. Exploring the composition and diversity of microbial communities at the Jan Mayen hydrothermal vent field using RNA and DNA. FEMS Microbiol. Ecol. 77:577-589.
48. Larkin, M. A., G. Blackshields, N. P. Brown, R. Chenna, P. A. McGettigan, H. McWilliam, et al. 2007. ClustalW and ClustalX version 2. Bioinformatics 23:2947-2948.
49. Lee, Kiyoung, H. K. Lee, T. H. Choi, K. M. T. Kim, and J. C. Cho. 2007a. Granulosicoccaceae fam nov., to include Granulosicoccus antarcticus gen. nov., sp. nov., a non-phototrophic, obligately aerobic chemoheterotroph in the order Chromatiales, isolated from Antarctic seawater. J. Microbiol. Biotechnol. 17:1483-1490.
50. Lee, Y. K., S. G. Hong, H. H. Cho, K. H. Cho, and H. K. Lee. 2007b. Dasania marina gen. nov., sp. nov., of the order Pseudomonadales, isolated from Arctic marine sediment. J. Microbiol. 45:505-509.
51. Liesack, W., and K. Finster. 1994. Phylogenetic analysis of 5 strains of gram-negative, obligately anaerobic, sulfur-reducing bacteria and description of Desulfuromusa gen-nov., including Desulfuromusa-kysingii sp-nov., Desulfuromusa-bakii sp-nov., and Desulfuromusa-succinoxidans sp-nov. Int. J. Syst. Bacteriol. 44:753-758.
52. Longnecker, K., and A. L. Reysenbach. 2001. Expansion of the geographic distribution of a novel lineage of epsilon-Proteobacteria to a hydrothermal vent site on the Southern East Pacific Rise. FEMS Microbiol. Ecol. 35:287-293.
53. Lonsdale, P. 1977. Clustering of suspension-feeding macrobenthos near abyssal hydrothermal vents at oceanic spreading centers. Deep Sea Res. 24: 857-863.
54. Lopez-Garcia, P., F. Gaill, and D. Moreira. 2002. Wide bacterial diversity associated with tubes of the vent worm Riftia pachyptila. Environ. Microbiol. 4:204-215.
55. Lozupone, C., and R. Knight. 2005. UniFrac: a new phylogenetic method for comparing microbial communities. Appl. Environ. Microbiol. 71:8228-8235.
56. Moussard, H., E. Corre, M. A. Cambon-Bonavita, Y. Fouquet, and C. Jeanthon. 2006. Novel uncultured Epsilonproteobacteria dominate a filamentous sulphur mat from the 13 degrees N hydrothermal vent field, East Pacific Rise. FEMS Microbiol. Ecol. 58:449-463.
57. Moyer, C. L., F. C. Dobbs, and D. M. Karl. 1995. Phylogenetic diversity of the bacterial community from a microbial mat at an active, hydrothermal vent system, Loihi Seamount, Hawaii. Appl. Environ. Microbiol. 61:1555-1562.
58. Nakagawa, S., F. Inagaki, K. Takai, K. Horikoshi, and Y. Sako. 2005a. Thioreductor micantisoli gen. nov., sp. nov., a novel mesophilic, sulfur-reducing chemolithoautotroph within the epsilon-Proteobacteria isolated from hydrothermal sediments in the Mid-Okinawa Trough. Int. J. Syst. Evol. Microbiol. 55:599-605.
59. Nakagawa, S., K. Takai, F. Inagaki, K. Horikoshi, and Y. Sako. 2005b. Nitratiruptor tergarcus gen. nov., sp. nov. and Nitratifractor salsuginis gen. nov., sp. nov., nitrate-reducing chemolithoautotrophs of the epsilon-Proteobacteria isolated from a deep-sea hydrothermal system in the Mid-Okinawa Trough. Int. J. Syst. Evol. Microbiol. 55:925-933.
60. Nakagawa, S., K. Takai, F. Inagaki, H. Chiba, J. Ishibashi, S. Kataoka, et al. 2005c. Variability in microbial community and venting chemistry in a sediment-hosted backarc hydrothermal system: impacts of subseafloor phase-separation. FEMS Microbiol. Ecol. 54:141-155.
61. Opatkiewicz, A. D., D. A. Butterfield, and J. A. Baross. 2009. Individual hydrothermal vents at Axial Seamount harbor distinct subseafloor microbial communities. FEMS Microbiol. Ecol. 70:413-424.
62. Pagé, A., S. K. Juniper, M. Olagnon, K. Alain, G. Desrosiers, J. Querellou, et al. 2004. Microbial diversity associated with a Paralvinella sulfincola tube and the adjacent substratum on an active deep-sea vent chimney. Geobiology 2:225-238.
63. Pagé, A., M. K. Tivey, D. S. Stakes, and A. L. Reysenbach. 2008. Temporal and spatial archaeal colonization of hydrothermal vent deposits. Environ. Microbiol. 10:874-884.
64. 2 fixation and sulfur cycling associated with low-temperature emissions at the Lilliput hydrothermal field, southern Mid-Atlantic Ridge (9 degree S). Environ. Microbiol. 9:1186-1201.
65. Petersen, J. M., A. Ramette, C. Lott, M. A. Cambon-Bonavita, M. Zbinden, and N. Dubilier. 2010. Dual symbiosis of the vent shrimp Rimicaris exoculata with filamentous gamma- and epsilonproteobacteria at four Mid-Atlantic Ridge hydrothermal vent fields. Environ. Microbiol. 12:2204-2218.
66. Polz, M. F., and C. M. Cavanaugh. 1995. Dominance of one bacterial phylotype at a Mid-Atlantic Ridge hydrothermal vent site. Proc. Natl. Acad. Sci. USA 92:7232-7236.
67. Prieur, D., S. Chamroux, P. Durand, G. Erauso, P. Fera, C. Jeanthon, et al. 1990. Metabolic diversity in epibiotic microflora associated with the pompeii worms alvinella-pompejana and alvinella-caudata (polychaetae, annelida) from deep-sea hydrothermal vents. Mar. Biol. 106:361-367.
68. Pruesse, E. 2007. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res. 35:7188-7196.
69. Reyes, A. O., W. S. Moore, and D. S. Stakes. 1995. Th-228/r-228 ages of a barite-rich chimney from the endeavor segment of the Juan-de-Fuca Ridge. Earth Planet. Sci. Lett. 131:99-113.
70. Reysenbach, A. L., K. Longnecker, and J. Kirshtein. 2000. Novel bacterial and archaeal lineages from an in situ growth chamber deployed at a Mid-Atlantic Ridge hydrothermal vent. Appl. Environ. Microbiol. 66:3798-3806.
71. Roussel, E. G., C. Konn, J. L. Charlou, J. P. Donval, Y. Fouquet, J. Querellou, et al. 2011. Comparison of microbial communities associated with three Atlantic ultramafic hydrothermal systems. FEMS Microbiol. Ecol. 77:647-665.
72. Ruby, E. G., C. O. Wirsen, and H. W. Jannasch. 1981. Chemolithotrophic sulfur-oxidizing bacteria from the Galapagos rift hydrothermal vents. Appl. Environ. Microbiol. 42:317-324.
73. Ruby, E. G., H. W. Jannasch, and W. G. Deuser. 1987. Fractionation of stable carbon isotopes during chemoautotrophic growth of sulfur-oxidizing bacteria. Appl. Environ. Microbiol. 53:1940-1943.
74. Sarrazin, J., and S. K. Juniper. 1999. Biological characteristics of a hydrothermal edifice mosaic community. Mar. Ecol. Prog. Ser. 185:1-19.
75. Sarrazin, J., V. Robigou, S. K. Juniper, and J. R. Delaney. 1997. Biological and geological dynamics over four years on a high-temperature sulfide structure at the Juan de Fuca Ridge hydrothermal observatory. Mar. Ecol. Prog. Ser. 153:5-24.
76. Sarrazin, J., S. K. Juniper, G. Massoth, and P. Legendre. 1999. Physical and chemical factors influencing species distributions on hydrothermal sulfide edifices of the Juan de Fuca Ridge, northeast Pacific. Mar. Ecol. Prog. Ser. 190:89-112.
77. Sarrazin, J., C. Levesque, S. K. Juniper, and M. K. Tivey. 2002. Mosaic community dynamics on Juan de Fuca Ridge sulphide edifices: substratum, temperature and implications for trophic structure. Cah. Biol. Mar. 43:275-279.
78. Schloss, P. D., and J. Handelsman. 2005. Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl. Environ. Microbiol. 71:1501-1506.
79. Schloss, P. D., S. L. Westcott, T. Ryabin, J. R. Hall, M. Hartmann, E. B. Hollister, et al. 2009. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75:7537-7541.
80. Schrenk, M. O., D. S. Kelley, J. R. Delaney, and J. A. Baross. 2003. Incidence and diversity of microorganisms within the walls of an active deep-sea sulfide chimney. Appl. Environ. Microbiol. 69:3580-3592.
81. Sogin, M. L., H. G. Morrison, J. A. Huber, D. Mark Welch, S. M. Huse, P. R. Neal, et al. 2006. Microbial diversity in the deep sea and the underexplored "rare biosphere". Proc. Natl. Acad. Sci. USA 103:12115-12120.
82. Sorokin, D., T. Tourova, E. Bezsoudnova, A. Pol, and G. Muyzer. 2007. Denitrification in a binary culture and thiocyanate metabolism in Thiohalophilus thiocyanoxidans gen. nov. sp. nov - a moderately halophilic chemolithoautotrophic sulfur-oxidizing Gammaproteobacterium from hypersaline lakes. Arch. Microbiol. 187:441-450.
83. Suzuki, D., A. Ueki, A. Amaishi, and K. Ueki. 2008. Desulfoluna butyratoxydans gen. nov., sp. nov., a novel Gram-negative, butyrate-oxidizing, sulfate-reducing bacterium isolated from an estuarine sediment in Japan. Int. J. Syst. Evol. Microbiol. 58:826-832.
84. Takai, K., K. H. Nealson, and K. Horikoshi. 2004. Hydrogenimonas thermophila gen. nov., sp. nov., a novel thermophilic, hydrogen-oxidizing chemolithoautotroph within the epsilon-Proteobacteria, isolated from a black smoker in a Central Indian Ridge hydrothermal field. Int. J. Syst. Evol. Microbiol. 54:25-32.
85. Takai, K., S. Nakagawa, A. L. Reysenbach, and J. Hoek. 2006. Microbial ecology of mid-ocean ridges and back-arc basins. Pp. 185-213 in D. M. Christie, C. R. Fisher, L. Sang-Mook, S. E. Givens, eds. Back-arc spreading systems: geological, biological, chemical and physical interactions. American Geophysical Union, Washington, DC, USA.
86. Tivey, M. K., D. S. Stakes, T. L. Cook, M. D. Hannington, and S. Petersen. 1999. A model for growth of steep-sided vent structures on the endeavour segment of the Juan de Fuca Ridge: results of a petrologic and geochemical study. J. Geophys. Res. Solid Earth 104:22859-22883.
87. Tunnicliffe, V., and S. K. Juniper. 1990. Dynamic character of the hydrothermal vent habitat and the nature of sulfide chimney fauna. Prog. Oceanogr. 24:1-13.
88. Tunnicliffe, V., R. W. Embley, J. F. Holden, D. A. Butterfield, G. J. Massoth, and S. K. Juniper. 1997. Biological colonization of new hydrothermal vents following an eruption on Juan de Fuca Ridge. Deep Sea Res. I Oceanogr. Res. Pap. 44:1627-1644.
89. Urcuyo, I. A., G. J. Massoth, I. R. MacDonald, and C. R. Fisher. 1998. In situ growth of the vestimentiferan Ridgeia piscesae living in highly diffuse flow environments in the main endeavour segment of the Juan de Fuca Ridge. Cah. Biol. Mar. 39:267-279.
90. Urcuyo, I. A., G. J. Massoth, D. Julian, and C. R. Fisher. 2003. Habitat, growth and physiological ecology of a basaltic community of Ridgeia piscesae from the Juan de Fuca Ridge. Deep Sea Res. I Oceanogr. Res. Pap. 50:763-780.
91. Venkitachalam, K. 2005. Particular matter and particles associated to microbes in hydrothermal vents from the endeavour segment of the Juan du Fuca Ridge (northeast Pacific). [M.Sc. thesis] (in French), Department of Biological Sciences, University of Quebec at Montreal, QC, Canada, 246 pp.
92. Wang, Q., G. M. Garrity, J. M. Tiedje, and J. R. Cole. 2007. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73:5261-5267.
93. Wang, F. P., H. Y. Zhou, J. Meng, X. T. Peng, L. J. Jiang, P. Sun, et al. 2009. GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent. Proc. Natl. Acad. Sci. USA 106:4840-4845.
94. White, J.R., N. Nagarajan, and M. Pop. 2009. Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Comput. Biol. 5:e1000352.
95. Widdel, F., and N. Pfennig. 1982. Studies on dissimilatory sulfate-reducing bacteria that decompose fatty-acids. 2. incomplete oxidation of propionate by Desulfobulbus-propionicus gen-nov., sp-nov. Arch. Microbiol. 131:360-365.
96. Widdel, F., G. W. Kohring, and F. Mayer. 1983. Studies on dissimilatory sulfate-reducing bacteria that decompose fatty-acids. 3. characterization of the filamentous gliding Desulfonema-limicola gen-nov. sp-nov. and Desulfonema-Magnum sp-nov. Arch. Microbiol. 134:286-294.
97. Wirsen, C. O., J. H. Tuttle, and H. W. Jannasch. 1986. Activities of sulfur-oxidizing bacteria at the 21-degrees-n East Pacific Rise vent site. Mar. Biol. 92:449-456.
98. Wise, M. G., J. V. McArthur, and L. J. Shimkets. 2001. Methylosarcina fibrata gen. nov., sp. nov. and Methylosarcina quisquiliarum sp. nov., novel type I methanotrophs. Int. J. Syst. Evol. Microbiol. 51:611-621.
99. Zbinden, M., B. Shillito, N. Le Bris, C. D. de Montlaur, E. Roussel, F. Guyot, et al. 2008. New insigths on the metabolic diversity among the epibiotic microbial communitiy of the hydrothermal shrimp Rimicaris exoculata. J. Exp. Mar. Biol. Ecol. 359:131-140.
100. Zhou, H. Y., J. T. Li, X. T. Peng, J. Meng, F. P. Wang, and Y. C. Ai. 2009. Microbial diversity of a sulfide black smoker in main endeavour hydrothermal vent field, Juan de Fuca Ridge. J. Microbiol. 47:235-247.