Biomarkers, chemistry and microbiology show chemoautotrophy in a multilayer chemocline in the Cariaco Basin

Deep-Sea Research Part I: Oceanographic Research Papers

Volumn 63, Issue , 2012, Pages 133-156

  Wakeham, Stuart G ^a,g   Turich, Courtney ^a,h   Schubotz, Florence ^b,d   Podlaska, Agnieszka ^c   Li, Xiaona N ^c   Varela, Ramon ^f   Astor, Yrene ^f   Sáenz, James P ^d,i   Rush, Darci ^e   Sinninghe Damsté, Jaap S ^e   Summons, Roger E ^d   Scranton, Mary I ^c   Taylor, Gordon T ^c   Hinrichs, Kai Uwe ^b  

^a SKIDAWAY INSTITUTE OF OCEANOGRAPHY   (United States)

^b UNIVERSITY OF BREMEN   (Germany)

^c STONY BROOK UNIVERSITY   (United States)

^d MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^e ROYAL NETHERLANDS INSTITUTE FOR SEA RESEARCH   (Netherlands)

^f FUNDACIÓN LA SALLE DE CIENCIAS NATURALES   (Venezuela)

^g UNIVERSITY OF WASHINGTON   (United States)

^h Conoco Phillips 600 NDairy Ashford ^*  (United States)

ⁱ MAX PLANCK INSTITUTE OF MOLECULAR CELL BIOLOGY AND GENETICS   (Germany)

Author keywords

Ammonium oxidation; Archaea; Bacteria; Cariaco Basin; Chemoautotrophy; Lipid biomarkers; Particulate matter; Sulfur oxidation

Indexed keywords

AMMONIUM OXIDATION; ARCHAEA; CARIACO BASIN; CHEMOAUTOTROPHY; LIPID BIOMARKERS; PARTICULATE MATTER; SULFUR OXIDATION;

AMMONIUM COMPOUNDS; BIOMARKERS; SULFUR;

BACTERIA;

AUTOTROPHY; BIOMARKER; CARBON FIXATION; DATA SET; DISSOLVED OXYGEN; LIPID; MICROBIOLOGY; OXIDATION; REDOX POTENTIAL; SULFUR; WATER COLUMN;

ATLANTIC OCEAN; CARIACO BASIN; CARIBBEAN SEA;

ARCHAEA; BACTERIA (MICROORGANISMS);

EID: 84862820728     PISSN: 09670637     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.dsr.2012.01.005     Document Type: Article

References (238)

1. Agogué H., Brink M., Dinasquet J., Herndl G.J. Major gradients in putatively nitrifying and non-nitrifying Archaea in the deep North Atlantic. Nature 2008, 456:788-791.
2. Asselineau J. Bacterial lipids containing amino acids or peptides linked by amide bonds. Fort. Chem. Org. Nat. 1991, 56:1-85.
3. Astor Y., Muller-Karger F., Scranton M. Seasonal and interannual variation in the hydrography of the Cariaco Basin: implications for basin ventilation. Cont. Shelf Res. 2003, 23:125-144.
4. Azam F., Fenchel T., Field J.G., Gray J.S., Meyer-Reil L.A., Thingstad F. The ecological role of water-column microbes in the sea. Mar. Ecol. Prog. Ser. 1983, 10:257-263.
5. Barridge J.K., Shively J.M. Phospholipids of the Thiobacilli. J. Bacteriol. 1968, 95:2182-2185.
6. Beman J.M., Steele J.A., Fuhrman J. Co-occurrence patterns for abundant archaeal and bacterial lineages in the deep chlorophyll maximum of coastal California. ISME J. 2011, 5:1077-1085.
7. Benning C. Biosynthesis and function of the sulfolipid sulfoquinovosyl diacylglycerol. Annu. Rev. Plant Physiol. Plant Mol. Biol. 1998, 1998(49):53-75.
8. Benning C., Huang Z.H., Gage D.A. Accumulation of a novel glycolipid and a betaine lipid in cells of Rhodobacter sphaeroides grown under phosphate limitation. Arch. Biochem. Biophys. 1995, 317:103-111.
9. Bian, L., Hinrichs, K.-U., Xie, T., Brassell, S.C., Iversen, N., Fossing, H., Jørgensen, B.B., Hayes, J.M., 2001. Algal and archaeal polyisoprenoids in a recent marine sediment: molecular isotopic evidence for anaerobic oxidation of methane. Geochem. Geophys. Geosyst. 2, Paper number 2000GC000112.
10. Berg I.A., Kockelkorn D., Ramos-Vera W.H., Say R.F., Zarzycki J., Michael Hügler M., Alber B.E., Fuchs G. Autotrophic carbon fixation in archaea. Nat. Rev. Microbiol. 2010, 8:447-460.
11. Bligh E.G., Dyer W.J. A rapid method for total lipid extraction and purification. Can. J. Biochem. Physiol. 1959, 37:911-917.
12. Blumenberg M., Seifert R., Reitner J., Pape T., Michaelis W. Membrane lipid patterns typify distinct anaerobic methanotrophic consortia. Proc. Natl. Acad. Sci. USA 2004, 30:11111-11116.
13. Blumenberg M., Krüger M., Nauhaus K., Talbot H.M., Oppermann B.I., Seifert R., Pape T., Michaelis W. Biosynthesis of hopanoids by sulfate-reducing bacteria (genus Desulfovibrio). Environ. Microbiol. 2006, 8:1220-1227.
14. Blumenberg M., Seifert R., Michaelis W. Aerobic methanotrophy in the oxic anoxic transition zone of the Black Sea water column. Org. Geochem. 2007, 38:84-91.
15. Blumenberg M., Mollenhauer G., Zabel M., Reimer A., Thiel V. Decoupling of bio- and geohopanoids in sediments of the Benguela Upwelling System (BUS). Org. Geochem. 2010, 41:1119-1129.
16. Boumann H.A., Hopmans E.C., van de Leemput I., Op den Camp H.J., van de Vossenberg J., Strous M., Jetten M.S., Sinninghe Damsté J.S., Schouten S. Ladderane phospholipids in anammox bacteria comprise phosphocholine and phosphoethanolamine headgroups. FEMS Microbiol. Lett. 2006, 258:297-304.
17. Boumann H.A., Stroeve P., Longo M.L., Poolman B., Kuiper J.M., Hopmans E.C.,.M., Jetten M.S.M., Sinninghe Damsté J.S., Schouten S. Biophysical properties of membrane lipids of anammox bacteria: II. Impact of temperature and bacteriohopanoids. Biochim. Biophys. Acta 2009, 1788:1452-1457.
18. Bradley A.S., Pearson A., Saenz J.P., Marx C.J. Adenosylhopane: the first step in biosynthesis of hopanoid side chains. Org. Geochem. 2010, 41:1075-1081.
19. Brochier-Armanet C., Boussau B., Gribaldo S., Forterre P. Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota. Nat. Rev. Microbiol. 2008, 6:245-252.
20. Brocks J.J., Pearson A. Building the biomarker tree of life. Rev. Mineral. Geochem. 2005, 59:233-258.
21. Bryukhanova A.L., Korneevaa V.A., Kanapatskiib T.A., Zakharovab E.E., Men'kob E.V., Rusanov I.I., Pimenov N.V. Investigation of the sulfate-reducing bacterial community in the aerobic water and chemocline zone of the Black Sea by the FISH technique. Microbiology 2011, 80:108-116.
22. Bulow S.E., Rich J.J., Naik H.S., Pratihary A.K., Ward B.B. Denitrification exceeds anammox as a nitrogen loss pathway in the Arabian Sea oxygen minimum zone. Deep-Sea Res. I 2010, 57:384-393.
23. Burd A.B., Jackson G.A. Particle aggregation. Annu. Rev. Mar. Sci. 2009, 1:65-90.
24. Canfield D.E., Frank J.S., Thamdrup B., Brabandere L.D., Dalsgaard T., Delong E.F., Revsbech N.P., Ulloa O. A cryptic sulfur cycle in oxygen-minimum-zone waters off the Chilean coast. Science 2010, 330:1375-1377.
25. Chistoserdova L., Jenkins C., Kalyuzhnaya M.G., Marx C.J., Lapidus A., Vorholt J.A., Staley J.T., Lidstrom M.E. The enigmatic Planctomycetes may hold a key to the origins of methanogenesis and methylotrophy. Mol. Biol. Evol. 2004, 21:1234-1241.
26. Conner R.L., Landry J.R., Burns C.H., Mallory F.B. Cholesterol inhibition of pentacyclic triterpenoid biosynthesis in Tetrahymena pyriformis. J. Protozool. 1968, 15:600-605.
27. Coolen M.J.L., Abbas B., van Bleiswijk J., Hopmans E.C., Kuypers M.M., Wakeham S.G., Sinninghe Damsté J.S. Putative ammonia-oxidizing Crenarchaeota thrive in suboxic waters of the Black Sea: a basin-wide ecological study using 16S ribosomal and functional genes and membrane lipids. Environ. Microbiol. 2007, 9:1001-1016.
28. Dees C., Shiveley J.M. Localization and quantitation of the ornithine lipid of Thiobacillus thiooxidans. J. Bacteriol. 1982, 149:798-799.
29. de la Torre J., Walker C.B., Ingalls A.E., Könneke M., Stahl D.A. Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Environ. Microbiol. 2008, 10:810-818.
30. DeLong E.F., King L.L., Massana R., Cittone H., Murray A., Schleper C., Wakeham S.G. Cyclic and acyclic dibiphytanyl ether lipids in marine psychrophilic crenarchaeotes: evolutionary and ecological implications. Appl. Environ. Microbiol. 1998, 64:1133-1138.
31. Dembitsky V.M. Betaine ether-linked glycerolipids: chemistry and biology. Prog. Lipid Res. 1996, 35:1-51.
32. Doughty D.M., Hunter R.C., Summons R.E., Newman D.K. 2-Methylhopanoids are maximally produced in akinetes of Nostoc punctiforme: geobiological implications. Geobiology 2009, 7:524-532.
33. Doughty D.M., Maureen L., Coleman M.L., Hunter R.C., Sessions A.L., Summons R.E., Newman D.K. The RND-family transporter, HpnN, is required for hopanoid localization to the outer membrane of Rhodopseudomonas palustris TIE-1. Proc. Natl. Acad. Sci. USA 2011, 1-7. 10.1073/pnas.1104209108.
34. Dowhan W. Molecular basis for membrane phospholipid diversity: why are there so many lipids?. Annu. Rev. Biochem. 1997, 66:199-232.
35. Dowling N.J.E., Widdel F., White D.C. Phospholipid ester-linked fatty acid biomarkers of acetate-oxidizing sulfate-reducers and other sulfide-forming bacteria. J. Gen. Microbiol. 1986, 132:1815-1825.
36. Edgcomb V., Orsi W., Taylor G.T., Vdacny P., Taylor C., Suarez P., Epstein S. Accessing marine protists from the anoxic Cariaco Basin. ISME J. 2011, 5:1237-1341.
37. Eichenberger W., Gfeller H., Grey P., Gribi C., Henderson R.J. Gas chromatographic-mass spectrometric identification of betaine lipids in Chronomonas salina. Phytochemistry 1996, 42:967-972.
38. 25 irregular isoprenoids. Naturwissenschaften 1999, 86:295-300.
39. Elvert M., Whiticar M.J., Suess E. Diploptene in varved sediments of Saanich Inlet: indicator of increasing bacterial activity under anaerobic conditions during the Holocene. Mar. Geol. 2001, 174:371-383.
40. Elvert M., Boetius A., Knittel K., Jørgensen B.B. Characterization of specific membrane fatty acids as chemotaxonomic markers for sulfate-reducing bacteria involved in anaerobic oxidation of methane. Geomicrobiol. J. 2003, 20:403-419.
41. Escribano R., Hidalgo P., Krautz C. Zooplankton associated with the oxygen minimum zone system in the northern upwelling region of Chile during March 2000. Deep-Sea Res. II 2009, 56:1083-1094.
42. Fang J., Barcelona M.J. Structural determination and quantitative analysis of bacterial phospholipids using liquid chromatography/electrospray ionization/mass spectrometry. J. Microbiol. Methods 1998, 33:23-35.
43. Fang J., Barcelona M.J., Semrau J.D. Characterization of methanotrophic bacteria on the basis of intact phospholipid profiles. FEMS Microbiol. Lett. 2000, 189:67-72.
44. Francis C.A., Roberts K.J., Beman J.M., Santoro A.F., Oakley B.B. Ubiquity and diversity of ammonium-oxidizing archaea in water columns and sediments of the ocean. Proc. Natl. Acad. Sci. USA 2005, 102:14683-14688.
45. Freeman, K.H., Wakeham, S.G., Hayes, J.M., 1994. Predictive isotopic biogeochemistry: hydrocarbons from anoxic marine basins. In: Schoell, M., Hayes, J.M. (Eds.), Compound Specific Isotope Analysis in Biogeochemistry and Petroleum Geochemistry. Org. Geochem. 21, 629-644.
46. Fry B., Jannasch H., Molyneaux S.J., Wirsen C., Muramoto J., King S. Stable isotope studies of the carbon, nitrogen and sulfur cycles in the Black Sea and Cariaco Trench. Deep-Sea Res. 1991, 38(Suppl. 2):SI003-S1020.
47. Gasol J.M., Moran X.A.G. Effects of filtration on bacterial activity and picoplankton community structure as assessed by flow cytometry. Aquat. Microb. Ecol. 1999, 16:251-264.
48. Geiger O., Röhrs V., Weissenmayer B., Finan T.M., Thomas-Oates J.E. The regulator gene phoB mediates phosphate stress-controlled synthesis of the membrane lipid diacylglyceryl-N,N,N-trimethylhomoserine in Rhizobium (Sinorhizobium) meliloti. Mol. Microbiol. 1999, 32:63-73.
49. Geiger O., González-Silva N., López-Lara I.M., Sohlenkamp C. Amino acid-containing membrane lipids in bacteria. Prog. Lipid Res. 2010, 49:46-60.
50. Goldfine H. Bacterial membranes and lipid packing theory. J. Lipid Res. 1984, 25:1501-1507.
51. Goldfine H., Hagen P.-O. N-methyl groups in bacterial lipids. J. Bacteriol. 1968, 95:367-375.
52. Goldman J.C., Caron D.A., Dennett M.R. Regulation of gross growth efficiency and ammonium regeneration in bacteria by substrate C: N ratio. Limnol. Oceanogr. 1987, 32:1239-1252.
53. Goñi M.A., Aceves H., Benitez-Nelson C., Scranton M.I., Tappa E., Thunell R., Black D.E., Muller-Karger F., Astor Y., Varela Y. Oceanographic and climatologic controls on the compositions and fluxes of biogenic materials in the water column and sediments of the Cariaco Basin over the Late Holocene. Deep-Sea Res. I 2009, 56:614-640.
54. Gowing M.M., Silver M.W. Minipellets: a new and abundant size class of marine fecal pellets. J. Mar. Res. 1985, 43:395-418.
55. Gowing M.M., Wishner K.F. Feeding ecology of the copepod Lucicutia aff. L. grandis near the lower interface of the Arabian Sea oxygen minimum zone. Deep-Sea Res. II 1998, 45:2433-2459.
56. Hallam S.J., Mincer T.J., Preston C.M., Roberts K., Richardson P.M., Delong E.F. Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota. PLoS Biol. 2006, 4:520-536. (e95).
57. Harvey H.R., Fallon R.D., Patton J.S. The effect of organic matter and oxygen on the degradation of bacterial membrane lipids in marine sediments. Geochim. Cosmochim. Acta 1986, 50:795-804.
58. Harvey H.R., McManus G.B. Marine ciliates as a widespread source of tetrahymanol and hopan-3Β-ol in sediments. Geochim. Cosmochim. Acta 1991, 55:3387-3390.
59. Harwood J.L. Membrane lipids in algae. Lipids in Photosynthesis: Structure, Function and Genetics 1998, 53-64. Kluwer Academic Publishers. P. Siegenthaler, N. Murata (Eds.).
60. Hayes, J.N., 2001. Fractionation of the isotopes of carbon and hydrogen in biosynthetic processes. In: Valley, J.W., Cole, D.R. (Eds.), Stable Isotope Geochemistry. Rev. Mineral. Geochem. 43, 225-278.
61. Hayes M.K., Taylor G.T., Astor Y., Scranton M.I. Vertical distributions of thiosulfate and sulfite in the Cariaco Basin. Limnol. Oceanogr. 2006, 51:280-287.
62. Hinrichs K.-U., Summons R.E., Orphan V., Sylva S.P., Hayes J.M. Molecular and isotopic analysis of anaerobic methane-oxidizing communities in marine sediments. Org. Geochem. 2000, 31:1685-1701.
63. Hinrichs K.-U., Hmelo L.R., Sylva S.P. Molecular fossil record of elevated methane levels in late Pleistocene coastal waters. Science 2003, 299:1214-1217.
64. Ho T.-Y., Scranton M.I., Taylor G.T., Varela R., Thunell R.C., Muller-Karger F. Acetate cycling in the water column of the Cariaco Basin: seasonal and vertical variability and implication for carbon cycling. Limnol. Oceanogr. 2002, 47:1119-1128.
65. Ho T.-Y., Taylor G.T., Astor Y., Varela R., Muller-Karger F., Scranton M.I. Vertical and temporal variability of redox zonation in the water column of the Cariaco Basin: implications for organic carbon oxidation pathways. Mar. Chem. 2004, 86:89-104.
66. 13C of sedimentary carbon in eutrophic Lake Mendota (USA): new models for interpreting isotopic excursions in the sedimentary record. Geochim. Cosmochim. Acta 2001, 65:4321-4337.
67. Holzer G., Oró J., Tornabene T.G. Gas chromatographic-mass spectrometric analysis of neutral lipids from methanogenic and thermoacidophilic bacteria. J. Chromatogr. 1979, 18:795-809.
68. Hölzl G., Dörmann P. Structure and function of glycoglycerolipids in plants and bacteria. Prog. Lipid Res. 2007, 46:225-243.
69. Hopmans E.C., Schouten S., Pancost R.D., van der Meer M.T.J., Sinninghe Damsté J.S. Analysis of intact tetraether lipids in archaeal cell material and sediments by high performance liquid chromatography/atmospheric pressure chemical ionization mass spectrometry. Rapid Commun. Mass Spectrom. 2000, 14:585-589.
70. Hopmans E.C., Kienhuis M.V.M., Rattray J.E., Jaeschke A., Schouten S., Sinninghe Damsté J.S. Improved analysis of ladderane lipids in biomass and sediments using high-performance liquid chromatography/atmospheric pressure chemical ionization tandem mass spectrometry. Rapid Commun. Mass Spectrom. 2006, 20:2099-2103.
71. House C.H., Schopf J.W., Stetter K.O. Carbon isotopic fractionation by Archaeans and other thermophilic prokaryotes. Org. Geochem. 2003, 34:345-356.
72. Huguet C., Martens-Habbena W., Urakawa H., Stahl D.A., Ingalls A.E. Comparison of extraction methods for quantitative analysis of core and intact polar glycerol dialkyl glycerol tetraethers (GDGTs) in environmental samples. Limnol. Oceanogr.: Methods 2010, 8:127-145.
73. Jaeschke A., Hopmans E.C., Wakeham S.G., Schouten S., Sinninghe Damsté J.S. The presence of ladderane lipids in the oxygen minimum zone of the Arabian Sea indicates nitrogen loss though anammox. Limnol. Oceanogr. 2007, 52:780-786.
74. Jaeschke A., Hopmans E.C., Rooks C., Trimmer M., Nicholls J.C., Schouten S., Sinninghe Damsté J.S. Comparison of ladderane phospholipid and core lipids as indicators for anaerobic ammonium oxidation (anammox) in marine sediments. Geochim. Cosmochim. Acta 2009, 73:2077-2088.
75. Jannasch H.W., Wirsen C.O., Molyneaux S. Chemoautotropic sulfur oxidizing bacteria from the Black Sea. Deep-Sea Res. 1991, 38(Suppl. 2):S1105-S1120.
76. Jensen M.M., Kuypers M.M.M., Lavik G., Thamdrup B. Rates and regulation of anaerobic ammonium oxidation and denitrification in the Black Sea. Limnol. Oceanogr. 2008, 53:23-36.
77. Jost G., Martens-Habbena W., Falk Pollehne F., Schnetger B., Labrenz M. Anaerobic sulfur oxidation in the absence of nitrate dominates microbial chemoautotrophy beneath the pelagic chemocline of the eastern Gotland Basin, Baltic Sea. FEMS Microbiol. Ecol. 2010, 71:226-236.
78. Kawahara K., Kuraishi H., Zähringer U. Chemical structure and function of glycosphingolipids of Sphingomonas spp. and their distribution among members of the α-4 subclass of Proteobacteria. J. Ind. Microbiol. Biotechnol. 1999, 23:408-413.
79. Kaneda T. Iso-fatty and anteiso-fatty acids in bacteria-biosynthesis, function, and taxonomic significance. Microbiol. Rev. 1991, 55:288-302.
80. Kannenberg E.L., Poralla K. Hopanoid biosynthesis and function in bacteria. Naturwissen. 1999, 86:168-176.
81. Kates M. Glycolipids, phosphoglycolipids and sulfoglycolipids. In: Handbook of Lipid Research, vol. 6 1990, Plenum Press, New York, pp. 1-109.
82. Kato M., Muto Y., Tanaka-Bandoh K., Watanabe K., Ueno K. Sphingolipid composition in Bacteriodes species. Anaerobe 1995, 1:135-139.
83. Kato M., Sakai M., Adachi K., Ikemoto H., Sano H. Distribution of betaine lipids in marine algae. Phytochemistry 1996, 42:1341-1345.
84. Keeling R.F., Körtzinger A., Gruber N. Ocean deoxygenation in a warming world. Annu. Rev. Mar. Sci. 2010, 2:199-229.
85. Kerger B.D., Nichols P.D., Antworth C.P., Sand W., Bock E., Cox J.C., Langworthy T.A., White D.C. Signature fatty acids in the polar lipids of acid-producing Thiobacillus spp.: methoxy, cyclopropyl, alpha-hydroxy, cyclopropyl and branched and normal monoenoic fatty acids. FEMS Microbiol. Ecol. 1986, 38:67-77.
86. Khozin-Goldberg I., Cohen Z. The effect of phosphate starvation on the lipid and fatty acid composition of the fresh water eustigmatophyte Monodus subterraneus. Phytochemistry 2006, 67:696-701.
87. Kim Y.H., Yoo J.S., Kim M.S. Structural characterization of sulfoquinovosyl, monoglactosyl and digalactosyl diacylglycerols by FAB-CID-MS/MS. J. Mass Spectrom. 1997, 32:968-977.
88. Knoche H.W., Shively J.M. The structure of an ornithine containing lipid from Thiobacillus thiooxidans. J. Biol. Chem. 1972, 247:170-178.
89. Könneke M., Bernhard A.E., de la Torre J.R., Walker C.B., Waterbury J.B., Stahl D.A. Isolation of an autotrophic ammonia-oxidizing marine archaeon. Nature 2005, 437:543-546.
90. Koga Y., Morii H. Recent advances in structural research on ether lipids from archaea including comparative and physiological aspects. Biosci. Biotechnol. Biochem. 2005, 69:2019-2034.
91. Koga Y., Nakano M. A dendrogram of archaea based on lipid component parts composition and its relationship to rRNA phylogeny. Syst. Appl. Microbiol. 2008, 31:169-182.
92. Kohring L.L., Ringelberg D.B., Devereux R., Stahl D.A., Mittelman M.W., White D.C. Comparison of phylogenetic relationships based on phospholipid fatty acid profiles and ribosomal RNA sequence similarities among disimilatory sulfate-reducing bacteria. FEMS Microbiol. Lett. 1994, 119:303-308.
93. Koopmans M.P., Koster J., van Kaam-Peters H.M.E., Kenig F., Schouten S., Hartgers W., de Leeuw J.W., Sinninghe Damsté J.S. Diagenetic and catagenetic products of isorenieratene: molecular indicators for photic zone anoxia. Geochim. Cosmochim. Acta 1996, 60:4467-4496.
94. Künzler K., Eichenberger W. Betaine lipids and zwitterionic phospholipids in plants and fungi. Phytochemistry 1997, 46:883-892.
95. Kuypers M.M.M., Blokker P., Erbacher J., Kinkel H., Pancost R.D., Schouten S., Sinninghe Damsté J.S. Massive expansion of marine archaea during a mid-Cretaceous oceanic anoxic event. Science 2001, 293:92-94.
96. Kuypers M.M.M., Lavik G., Woebken D., Schmid M., Fuchs B.M., Amann R., Jørgensen B.B., Jetten M.S.M. Massive nitrogen loss from the Benguela upwelling system through anaerobic ammonium oxidation. Proc. Natl. Acad. Sci. USA 2005, 102:6478-6483.
97. Lam P., Jansen M.M., Lavik G., McGinnis D.F., Müller B., Schubert C., Amann R., Thamdrup B., Kuypers M.M.M. Linking crenarchaeal and bacteria nitrification to anammox in the Black Sea. Proc. Natl. Acad. Sci. USA 2007, 104:7104-7109.
98. Lam P., Kuypers M.M.M. Microbial nitrogen cycling processes in oxygen minimum zones. Annu. Rev. Mar. Sci. 2011, 2011(3):317-345.
99. Lee S., Kang Y.-C., Fuhrman J.A. Imperfect retention of natural bacterioplankton cells by glass fiber filters. Mar. Ecol. Prog. Ser. 1995, 119:285-290.
100. Legendre P., Legendre L. Numerical Ecology 1998, Elsevier, New York.
101. Leininger S., Urich T., Schloter M., Schwark L., Qi J., Nicol G.W., Prosser J.I., Schuster S.C., Schleper C. Archaea predominate among ammonia-oxidizing prokaryotes in soils. Nature 2006, 442:806-809.
102. Li X., Taylor G.T., Astor Y., Scranton M.I. Relationship of sulfur speciation to hydrographic conditions and chemoautotrophic production in the Cariaco Basin. Mar. Chem. 2008, 112:53-64.
103. Li X.N., Taylor G.T., Astor Y., Varela R., Scranton M.I. The conundrum between chemoautotrophic production and reductant and oxidant supply: a case study from the Cariaco Basin. Deep-Sea Res. I 2012, 61:1-10.
104. Lin X., Wakeham S.G., Putnam I.F., Astor Y.M., Scranton M.I., Chistoserdov A.Y., Taylor G.T. Vertical distributions of prokaryotic assemblages in the anoxic Cariaco Basin and Black Sea compared using fluorescent in situ hybridization (FISH) techniques. Appl. Environ. Microbiol. 2006, 72:2679-2690.
105. Lin X., Scranton M.I., Varela R., Chistoserdov A., Taylor G.T. Compositional responses of bacterial communities to redox gradients and grazing in the anoxic Cariaco Basin. Aquat. Microb. Ecol. 2007, 47:57-72.
106. Lin X., Scranton M.I., Chistoserdov A.Y., Verela R., Taylor G.T. Spatiotemporal dynamics of bacterial populations in the anoxic Cariaco Basin. Limnol. Oceanogr. 2008, 53:37-51.
107. Lin Y.-S., Lipp J., Yoshinaga M.Y., Lin S.-H., Marcus Elvert M., Hinrichs K.-U. Intramolecular stable carbon isotopic analysis of archaeal glycosyl tetraether lipids. Rapid Commun. Mass Spectrom. 2010, 24:2817-2826.
108. Lipp J.S., Morono Y., Inagaki F., Hinrichs K.-U. Significant contribution of Archaea to extant biomass in marine subsurface sediments. Nature 2008, 454:991-994.
109. Lipp J.S., Hinrichs K.-U. Structural diversity and fate of intact polar lipids in marine sediments. Geochim. Cosmochim. Acta 2009, 73:6816-6833.
110. López-Lara I.M., Sohlenkamp C., Geiger O. Membrane lipids in plant-associated bacteria: their biosyntheses and possible functions. Mol. Plant-Microbe Interact. 2003, 16:567-579.
111. Lorenzoni L., Thunell R.C., Benitez-Nelson C.R., Hollander D., Martinez N., Tappa E., Varela R., Astor Y., Muller-Karger F.E. The importance of subsurface nepheloid layers in transport and delivery of sediments to the eastern Cariaco Basin,Venezuela. Deep-Sea Res. 2009, 56:2249-2262.
112. Lorenzoni L., Hua C., Varela R., Glenda Arias G., Laurencia Guzma'n L., Muller-Karger F. Bio-optical characteristics of Cariaco Basin (Caribbean Sea) waters. Cont. Shelf Res. 2011, 31:582-593. 10.1016/j.csr.2010.12.013.
113. Madrid V.M., Taylor G.T., Scranton M.I., Chistoserdov A.Y. Phylogenetic diversity of bacterial and archaeal communities in the anoxic zone of the Cariaco Basin. Appl. Environ. Microbiol. 2001, 67:1663-1674.
114. Maechler, M., Rousseeuw, P., Struyf, A., Hubert, M., 2005. Cluster analysis basics and extensions; unpublished.
115. Makula R.A., Finnerty W.R. Isolation and characterization of an ornithine-containing lipid from Desulfovibrio gigas. J. Bacteriol. 1975, 123:523-529.
116. Makula R.A. Phospholipid composition of methane-oxidizing bacteria. J. Bacteriol. 1978, 134:771-777.
117. Martens-Habbena W., Berube P.M., Urakawa H., de la Torre J.R., Stahl D.A. Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria. Nature 2009, 471:976-979.
118. Matos A.R., Pham-Thi A.-T. Lipid deacylating enzymes in plants: old activities, new genes. Plant Physiol. Biochem. 2009, 47:491-503.
119. McCaffrey M.A., Farrington J.W., Repeta D.J. Geochemical implication of the lipid composition of Thioploca spp. from the Peru upwelling region-15°. Org. Geochem. 1989, 14:61-68.
120. McCune B., Grace J.B. Analysis of Ecological Communities 2002, MjM Software Design, Gleneden Beach, OR.
121. Meyer K.M., Kump L.R. Ocean euxinia in earth history: causes and consequences. Annu. Rev. Earth Planet. Sci. 2008, 36:251-288.
122. Minchin P.R. An evaluation of the relative robustness of techniques for ecological ordination. Vegetatio 1987, 69:89-107.
123. Muller-Karger F., Varela R., Thunell.R., Astor Y., Zhang H., Luerssen R., Hu C. Processes of coastal upwelling and carbon flux in the Cariaco Basin. Deep-Sea Res. II 2004, 51:927-943.
124. Nelson D.C., Jannasch H.W. Chemoautotrophic growth of a marine Beggiatoa in sulfide-gradient cultures. Arch. Microbiol. 1983, 136:262-269.
125. Nelson D.C., Jørgensen B.B., Revsbech N.P. Growth pattern and yield of a chemoautotrophic Beggiatoa sp. in oxygen-sulfide microgradients. Appl. Environ. Microbiol. 1986, 52:225-233.
126. Neunlist S., Rohmer M. The hopanoids of "Methylosinus trichosporium": aminobacteriohopanetriol and aminobacteriohopanetetrol. J. Gen. Microbiol. 1985, 131:1363-1367.
127. Neunlist S., Rohmer M. Novel hopanoids from the methylotrophic bacteria Methylococcus capsulatus and Methylomonas methanica. Biochem. J. 1985, 231:635-639.
128. Neunlist S., Holst O., Rohmer M. Prokaryotic triterpenoids: the hopanoids of the purple non-sulphur bacterium Rhodomicrobium vannielii: an aminotriol and its aminoacyl derivatives, N-tryptophanyl and N-ornithinyl aminotriol. Eur. J. Biochem. 1985, 147:561-568.
129. Neunlist S., Bisseret P., Rohmer M. The hopanoids of the purple non-sulfur bacteria Rhodopseudomonas palustris and Rhodopseudomonas acidophila. Eur. J. Biochem. 1988, 171:245-252.
130. Nishihara M., Yokota K., Kito M. Lipid molecular species composition of thylakoid membranes. Biochim. Biophys. Acta 1980, 617:12-19.
131. Oksanen J., Kindt R., O'Hara R.B., 2005. vegan: community Ecology Package version 1.6-10. http://cc.oulu.fi.
132. Olsen I., Jantzen E. Sphingolipids in bacteria and fungi. Anaerobe 2001, 7:103-112.
133. Ourisson G., Rohmer M., Poralla K. Prokaryotic hopanoids and other polyterpenoid sterol surrogates. Annu. Rev. Microbiol. 1987, 41:301-333.
134. Pancost R.D., Hopmans E.C., Sinninghe Damsté J.S., MEDINAUT Shipboard Scientific Party Archaeal lipids in Mediterranean cold seeps: molecular proxies for anaerobic methane oxidation. Geochim. Cosmochim. Acta 2001, 65:1611-1627.
135. Park B.-J., Park S.-J., Yoon D.-N., Schouten S., Sinninghe Damsté J.S., Rhee S.-K. Cultivation of autotrophic ammonium-oxidizing archaea from marine sediments in coculture with sulfur-oxidizing bacteria. Appl. Environ. Microbiol. 2010, 76:7575-7587.
136. Parkes R.J., Taylor J. The relationship between fatty acid distributions and bacterial respiratory types in contemporary marine sediments. Estuarine Coastal Shelf Sci. 1983, 16:173-189.
137. Passow U. Formation of transparent exopolymer particles, TEP, from dissolved precursor material. Mar. Ecol. Prog. Ser. 2000, 192:1-11.
138. Passow U., Shipe R.F., Murray A., Pak D.K., Brzezinski M.A., Alldredge A.L. The origin of transparent exopolymer particles (TEP) and their role in the sedimentation of particulate matter. Cont. Shelf Res. 2001, 21:327-346.
139. Pearson A., Huang Z., Ingalls A.I., Romanek C.S., Wiegel J., Freeman K.H., Smittenberg R.H., Zhang C.L. Nonmarine crenarchaeol in Nevada hot springs. Appl. Environ. Microbiol. 2004, 70:5229-5237.
140. Pearson A., Rusch D.B. Distribution of microbial terpenoid lipid cyclases in the global ocean metagenome. ISME J. 2009, 3:352-363.
141. Percy D., Li V., Taylor G.T., Astor Y., Scranton M.I. Controls on iron, manganese and intermediate oxidation state sulfur compounds in the Cariaco Basin. Mar. Chem. 2008, 111:47-62.
142. Pernthaler A., Pernthaler J., Amann R. Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria. Appl. Environ. Microbiol. 2002, 68:3094-3101.
143. Pitcher A., Schouten S., Sinninghe Damsté J.S. In situ production of crenarchaeol in two California hot springs. Appl. Environ. Microbiol. 2009, 75:4443-4451.
144. Pitcher A., Nicolas Rychlik N., Hopmans E.C., Spieck E., Rijpstra W.I.C., Jort Ossebaar J., Stefan Schouten S., Wagner M., Sinninghe Damsté J.S. Crenarchaeol dominates the membrane lipids of Candidatus Nitrososphaera gargensis, a thermophilic group I.1b Archaeon. ISME J. 2010, 4:542-552.
145. Pitcher A., Laura Villanueva L., Hopmans E.C., Schouten S., Reichart G.-J., Sinninghe Damsté J.S. Niche segregation of ammonia-oxidizing Archaea and anammox bacteria in the Arabian Sea oxygen minimum zone as determined by a combined intact polar lipid and gene-based approach. ISME J. 2011, 5:1-9.
146. Pitcher A., Hopmans E.C., Mosier A.C., Park S.-J., Rhee S.-K., Francis C.A., Schouten S., Sinninghe Damsté J.S. Core and intact polar glycerol dibiphytanyl glyceryl tetraether lipids in ammonium-oxidizing Archaea enriched from marine and estuarine sediments. Appl. Environ. Microbiol. 2011, 77:3468-3477.
147. Pomeroy L.R. The ocean's food web, a changing paradigm. BioScience 1974, 24:499-504.
148. Popendorf K.J., Lomas M.W., Van Mooy B.A.S. Microbial sources of intact polar diacylglycerolipids in the Western North Atlantic Ocean. Org. Geochem. 2011, 42:803-811.
149. 13C of NBS 22 oil. Rapid Commun. Mass Spectrom. 2004, 17:2483-2487.
150. Microbial Lipids 1988, Academic Press, New York. C. Ratledge, S.G. Wilkinson (Eds.).
151. Rattray J.E., Vossenberg J., Hopmans E.C., Kartal B., van Niftrik L., Rijpstra W.I.C., Strous M., Jetten M.S.M., Schouten S., Sinninghe Damsté J.S. Ladderane lipid distribution in four genera of anammox bacteria. Arch. Microbiol. 2008, 190:51-66.
152. Rattray J.E., van de Vossenberg J., Jaeschke A., Hopmans E.C., Wakeham S.G., van Niftrik L., Lavik G., Kuypers M.M.M., Strous M., Jetten M.S.M., Schouten S., Sinninghe Damsté J.S. Impact of temperature on ladderane lipid distribution in anammox bacteria. Appl. Environ. Microbiol. 2010, 76:1596-1703.
153. Reeburgh W.S. "Soft spots" in the global methane budget. Microbial Growth on C1 Compounds 1996, 334-342. Kluwer Academic Publishing, Dordrecht. M.E. Lindstrom, F.R. Tabita (Eds.).
154. Repeta D.J. A high resolution historical record of Holocene anoxygenic primary production in the Black Sea. Geochim. Cosmochim. Acta 1993, 57:4331-4342.
155. Repeta D.J., Simpson D.J., Jørgensen B.B., Jannasch H.W. Evidence for anoxygenic photosynthesis from the distribution of bacteriochlorophylls in the Black Sea. Nature 1989, 342:69-72.
156. Repeta D.J., Simpson D.J. The distribution and recycling of chlorophyll, bacteriochlorophyll and carotenoids in the Black Sea. Deep-Sea Res. 1991, 38(Suppl. 2):S969-S984.
157. Riekhof W.R., Andre A., Benning C. Two enzymes, BtaA and BtaB, are sufficient for betaine lipid synthesis in bacteria. Arch. Biochem. Biophys. 2005, 441:96-105.
158. Rieley G. Derivatization of organic compounds prior to gas chromatographic-combustion-isotope ratio mass spectrometric analysis: identification of isotope fractionation processes. Analyst 1994, 119:915-919.
159. Risatti J.B., Rowland S.J., Yon D.A., Maxwell J.R. Stereochemical studies of acyclic isoprenoid-XII. Lipids of methanogenic bacteria and possible contributions to sediments. Advances in Organic Geochemistry 1983. Org. Geochem. 1984, 6:93-104.
160. Rohmer M.P., Bouvier-Nave P., Ourisson G. Distribution of hopanoid triterprenes in prokaryotes. J. Gen. Microbiol. 1984, 130:1137-1150.
161. Rohmer M., Sutter B., Sahm H. Bacterial sterol surrogates - Biosynthesis of the side-chain of bacteriohopanetetrol and of a carbocyclic pseudopentose from C-13-labeled glucose in Zymomonas Mobilis. J. Chem. Soc. Chem. Commun. 1989, 1471-1472.
162. Rossel P.E., Lipp J.S., Fredricks H.F., Arnds J., Boetius A., Elvert M., Hinrichs K.-U. Intact polar lipids of anaerobic methanotrophic archaea and associated bacteria. Org. Geochem. 2008, 39:992-999.
163. Ruby E.G., Jannasch H.W., Deuser W.G. Fractionation of stable carbon isotopes during chemoautotrophic growth of sulfur-oxidizing bacteria. Appl. Environ. Microbiol. 1987, 53:1940-1943.
164. Rütters H., Sass H., Cypionka H., Rullkötter J. Phospholipid analysis as a tool to study complex microbial communities in marine sediments. J. Microbiol. Methods 2002, 48:149-160.
165. Sáenz J., Summons R., Eglinton T.I., Wakeham S.G. Distribution of bacteriohopanepolyols in marine anoxic environments: new constraints on the provenance of hopanoids in the marine geologic record. Org. Geochem. 2011, 42:1322-1351. 10.1016/j.orggeochem.2011.08.016.
166. Sakata S., Hayes J.M., Rohmer M., Hooper A.B., Seemann M. Stable carbon-isotopic compositions of lipids isolated from the ammonia-oxidizing chemoautotroph Nitrosomonas europaea. Org. Geochem. 2008, 39:1725-1734.
167. Schmid M., Walsh K., Webb R.,.W.I.C., Rijpstra W.I.C., van de Pas-Schoonen K.T., Verbruggen M.J., Hill T., Moffett B., Fuerst J., Schouten S., Sinninghe Damste' J.S., Harris J., Shaw P., Jetten M.S.M., Strous M. Candidatus"Scalindua brodae," sp. nov., Candidatus"Scalindua wagneri," sp. nov.: two new species of anaerobic ammonium oxidizing bacteria. Syst. Appl. Microbiol. 2003, 26:529-538.
168. Schouten S., van der Maarel M.J.E.C., Huber R., Sinninghe Damsté J.S. 2,6,10,15,19-Pentamethylicosenes in Methanolobus bombayensis, a marine methanogenic archaeon, and in Methanosarcina mazei. Org. Geochem. 1997, 26:409-414.
169. Schouten S., Strous M., Kuypers M.M.M., Rijpstra W.I.C., Baas M., Schubert C.J., Jetten M.S.M., Sinninghe Damsté J.S. Stable carbon isotopic fractionations associated with inorganic carbon fixation by anaerobic ammonium-oxidizing bacteria. Appl. Environ. Microbiol. 2004, 70:375-388.
170. Schouten S., van der Meer M.T.J., Hopmans E., Rijpstra W.I., Reysenbach A.-L., Ward D.M., Sinninghe Damsté J.S. Archaeal and bacterial glycerol dialkyl glycerol tetraether lipids in hot springs of Yellowstone National Park. Appl. Environ. Microbiol. 2007, 73:6181-6191.
171. Schouten S., Hopmans E.C., Baas M., Boumann H., Standfest S., Könneke M., Stahl D.A., Sinninghe Damsté J.S. Intact membrane lipids of Candidatus Nitrosopumilus maritimus, a cultivated representative of the cosmopolitan mesophilic Group I Crenarchaeota. Appl. Environ. Microbiol. 2008, 74:2433-2440.
172. Schouten S., Middelburg J.J., Hopmans E.C., Sinninghe Damsté J.S. Fossilization and degradation of intact polar lipids in deep subsurface sediments: a theoretical approach. Geochim. Cosmochim. Acta 2010, 74:3806-3814.
173. Schubotz F., Wakeham S.G., Lipp J.S., Fredricks H.F., Hinrichs K.-U. Detection of microbial biomass by intact membrane lipid analysis in the water column and surface sediments of the Black Sea. Environ. Microbiol. 2009, 11:2720-2734.
174. Schubotz F., Lipp J., Elvert M., Kasten S., Zabel M., Prieto- Mollar X., Bohrmann G., Hinrichs K.-U. Petroleum degradation and associated microbial signatures at the Chapopote asphalt volcano, Southern Gulf of Mexico. Geochim. Cosmochim. Acta 2011, 75:4377-4398.
175. Scranton M.I. Temporal variations in the methane content of the Cariaco Trench. Deep-Sea Res. 1988, 35:1511-1523.
176. Scranton M.I., Astor Y., Bohrer R., Ho T.-H., Muller-Karger F. Controls on temporal variability of the geochemistry of the deep Cariaco Basin. Deep-Sea Res. 2001, 48:1605-1625.
177. Scranton M.I., McIntyre M., Astor Y., Taylor G.T., Muller-Karger F., Fanning K. Temporal variability in the nutrient chemistry of the Cariaco Basin. Past and Present Water Column Anoxia. NATO Science Series 2006, 139-160. Springer, The Netherlands. L.N. Neretin (Ed.).
178. Sherr E.B., Sherr B.F. High rates of consumption of bacteria by pelagic ciliates. Nature 1987, 325:710-711.
179. Shively J.M., Knoche H.W. Isolation of an ornithine-containing lipid from Thiobacillus thiooxidans. J. Bacteriol. 1969, 98:829-830.
180. Siegenthaler P.A. Molecular organization of acyl lipids in photosynthetic membranes of higher plants. Lipids in Photosynthesis: Structure, Function and Genetics. Advances in Photosynthesis and Respiration 1998, 6:71-77. Springer, Kluwer Academic Publishers, Dordrecht, The Netherlands.
181. Sinninghe Damsté J.S., Wakeham S.G., Kohnen M.E.L., Hayes J.M., de Leeuw J.W. A 6,000-year sedimentary record of chemocline excursions in the Black Sea. Nature 1993, 362:827-829.
182. Sinninghe Damsté J.S., Strous M., Rijpstra W.I.C., Hopmans E.C., Geenevasen J.A.J., van Duin A.C.T., van Niftrik L.A., Jetten M.S.M. Linearly-concatenated cyclobutane lipids form a dense bacterial membrane. Nature 2002, 419:708-712.
183. Sinninghe Damsté J.S., Hopmans E.C., Schouten S., van Duin A.C.T., Geenevasen J.A.J. Crenarchaeol: the characteristic core glycerol dibiphytanyl glycerol tetraether membrane lipid of cosmopolitan pelagic crenarchaeota. J. Lipid Res. 2002, 43:1641-1651.
184. Sinninghe Damsté J.S., Rijpstra W.I.C., Hopmans E.C., Prahl F.G., Wakeham S.G., Schouten S. Distribution of membrane lipids of planktonic crenarchaeota in the Arabian Sea. Appl. Environ. Microbiol. 2002, 68:2997-3002.
185. Sinninghe Damsté J.S., Kuypers M.M.M., Schouten S., Schulte S., Rullkötter J. The lycopane/C31 n-alkane ratio as a proxy to assess palaeoxicity during sediment deposition. Earth Planet. Sci. Lett. 2003, 209:215-236.
186. Sinninghe Damsté J.S., Rijpstra W.I.C., Schouten S., Fuerst J.A., Jetten M.S.M., Strous M. The occurrence of hopanoids in planctomycetes: implications for the sedimentary biomarker record. Org. Geochem. 2004, 35:561-566.
187. Sinninghe Damsté J.S., Rijpstra W.I.C., Geenevasen J.A.J., Strous M., Jetten M.S.M. Structural identification of ladderane and other membrane lipids of planctomycetes capable of anaerobic ammonium oxidation (anammox). FEBS J. 2005, 272:4270-4283.
188. Spang A., Hatzenpichler R., Brochier-Armanet C., Rattei T., Tischler P., Spieck E., Streit W., Stahl D.A., Wagner M., Christa Schleper C. Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota. Trends Microbiol. 2010, 18:331-340.
189. Stoeck T., Taylor G.T., Epstein S.S. Novel eukaryotes from the permanently anoxic Cariaco Basin (Caribbean Sea). Appl. Environ. Microbiol. 2003, 69:5656-5663.
190. Strous M., van Gerven E., Kuenen J.G., Jetten M. Effects of aerobic and microaerobic conditions on anaerobic ammonium-oxidizing (Anammox) sludge. Appl. Environ. Microbiol. 1997, 63:2446-2448.
191. Strous M., Fuerst J.A., Kramer E.H., Logemann S., Muyzer G., van de Pas-Schoonen K.T., Webb R., Kuenen J.G., Jetten M.S. Missing lithotroph identified as new planctomycete. Nature 1999, 29:446-449.
192. Sturt H.F., Summons R.E., Smith K., Elvert M., Hinrichs K.U. Intact polar membrane lipids in prokaryotes and sediments deciphered by high-performance liquid chromatography/electrospray ionization multistage mass spectrometry-new biomarkers for biogeochemistry and microbial ecology. Rapid Commun. Mass Spectrom. 2004, 18:617-628.
193. Summons R.E., Jahnke L.L., Hope J.M., Logan G.A. 2-Methylhopanoids as biomarkers for cyanobacterial oxygenic photosynthesis. Nature 1999, 400:554-557.
194. Tahara Y., Kawazu M. Isolation of glucuronic acid-containing glycosphingolipid from Zymomonas mobilis. Biosci. Biotechnol. Biochem. 1994, 58:586-587.
195. Talbot H.M., Watson D.F., Murrell J.C., Carter J.F., Farrimond P. Analysis of intact bacteriohopanepolyols from methylotrophic bacteria by reversed-phase high-performance liquid chromatography-atmospheric pressure chemical ionisation mass spectrometry. J. Chromatogr. A 2001, 921:175-185.
196. Talbot H.M., Summons R., Jahnke L.L., Farrimond P. Characteristic fragmentation of bacteriohopanepolyols during atmospheric pressure chemical ionisation liquid chromatography/ion trap mass spectrometry. Rapid Commun. Mass Spectrom. 2003, 17:2788-2796.
197. Talbot H.M., Squier A.H., Keely B.J., Farrimond P. Atmospheric pressure chemical ionisation reversed-phase liquid chromatography/ion trap mass spectrometry of intact bacteriohopanepolyols. Rapid Commun. Mass Spectrom. 2003, 17:728-737.
198. Talbot H.M., Watson D.F., Pearson E.J., Farrimond P. Diverse biohopanoid compositions of non-marine sediments. Org. Geochem. 2003, 34:1353-1371.
199. Talbot H.M., Farrimond P. Bacterial populations recorded in diverse sedimentary biohopanoid distributions. Org. Geochem. 2007, 38:1212-1225.
200. Talbot H.M., Rohmer M., Farrimond P. Rapid structural elucidation of composite bacterial hopanoids by atmospheric pressure chemical ionisation liquid chromatography/ion trap mass spectrometry. Rapid Commun. Mass Spectrom. 2007, 21:880-892.
201. Talbot H.M., Rohmer M., Farrimond P. Structural characterisation of unsaturated bacterial hopanoids by atmospheric pressure chemical ionisation liquid chromatography/ion trap mass spectrometry. Rapid Commun. Mass Spectrom. 2007, 21:1613-1622.
202. Talbot H.M., Summons R., Jahnke L., Cockell S.C., Rohmer M., Farrimond P. Cyanobacterial bacteriohopanepolyol signatures from cultures and natural environmental settings. Org. Geochem. 2008, 39:232-263.
203. Taylor G.T., Iabichella M., Ho T.-Y., Scranton M.I., Thunell R.C., Muller-Karger F., Varela R. Chemoautotrophy in the redox transition zone of the Cariaco Basin: a significant midwater source of organic carbon production. Limnol. Oceanogr. 2001, 46:148-163.
204. Taylor G.T., Iabichella-Armas M., Varela R., Muller-Karger F., Lin X., Scranton M.I. Microbial ecology of the Cariaco Basin's oxic/anoxic interface: the U.S.-Venezuelan CARIACO times series program. Past and Present Water Column Anoxia. NATO Science Series 2006, 473-499. Springer, The Netherlands. L.N. Neretin (Ed.).
205. Taylor J., Parkes R.J. Cellular fatty acids of the sulphate-reducing bacteria, Desulfobacter sp., Desulfolobus sp., and Desulfovibrio desulfuricans. J. Gen. Microbiol. 1983, 129:1-7.
206. Thiel V., Peckman J., Seifert R., Wehrung P., Reitner J., Michaelis W. Highly isotopically depleted isoprenoids: molecular markers for ancient methane venting. Geochim. Cosmochim. Acta 1999, 63:3959-3966.
207. Thiele O.W., Biswas C.J., Hunneman D.D. Isolation and characterization of an ornithine-containing lipid from Paracoccus denitrificans. Eur. J. Biochem. 1980, 105:267-274.
208. Thiele O.W., Oulevey J., Hunneman D.H. Ornithine-containing lipids in Thiobacillus A2 and Achromobacter sp. Eur. J. Biochem. 1984, 139:131-135.
209. Thunell R.C., Varela R., Llano M., Collister J., Muller-Karger F., Bohrer R. Organic carbon fluxes, degradation, and accumulation in an anoxic basin: sediment trap results from the Cariaco Basin. Limnol. Oceanogr. 2000, 45:300-308.
210. Thunell R., Benitez-Nelson C., Varela R., Astor Y., Muller-Karger F. Particulate organic carbon fluxes along upwelling-dominated continental margins: rates and mechanisms. Global Biogeochem. Cycles 2007, 21:GB1022. 10.1029/2006GB002793.
211. Tornabene T.G., Langworthy T.A. Diphytanyl and diphytanyl glycerol ether lipids of methanogenic Archaebacteria. Science 1979, 203:51-53.
212. Turich C.H., Freeman K.H., Bruns M.A., Conte M., Jones A.D., Wakeham S.G. Lipids of marine Archaea: patterns and provenance in the water column. Geochim. Cosmochim. Acta 2007, 71:3272-3291. Erratum to Turich, C., Freeman, K.H., Bruns, M.A., Conte, M., Jones, A.D., Wakeham, S.G., 2007. Lipids of marine Archaea: Patterns and provenance in the water column and sediments. Geochim. Cosmochim. Acta 72,3287-3288.
213. Turner J.T. Zooplankton fecal pellets, marine snow and sinking phytoplankton blooms. Aquat. Microb. Ecol. 2002, 27:57-102.
214. Tuttle J.H., Jannasch H.W. Sulfide and thiosulfate-oxidizing bacteria in anoxic marine basins. Mar. Biol. 1973, 20:64-70.
215. Van Mooy B.A.S., Fredricks H.F., Pedler B.E., Dyhrman T., Karl D.M., Koblízek M., Lomas M.W., Mincer T.J., Moore L.R., Moutin T., Rappé M.S., Webb E.A. Phytoplankton in the ocean use non-phosphorus lipids in response to phosphorus scarcity. Nature 2009, 458:69-72.
216. Van Mooy B.A.S., Rocap G., Fredricks H., Evans C.T., Devol A.H. Sulfolipids dramatically decrease phosphorus demand by picocyanobacteria in oligotrophic marine environments. Proc. Natl. Acad. Sci., USA 2006, 103:8607-8612.
217. Van Mooy B.A.S., Fredricks H. Bacterial and eukaryotic intact polar lipids in the eastern subtropical South Pacific: water column distribution, planktonic sources, and fatty acid composition. Geochim. Cosmochim. Acta 2010, 74:6499-6516.
218. Wada H., Murata N. Membrane lipids in cyanobacteria. Lipids in Photosynthesis: Structure, Function and Genetics 1998, 65-81. Kluwer Academic Press. P.-A. Siegenthaler, N. Murata (Eds.).
219. Wakeham S.G. Algal and bacterial hydrocarbons in suspended particulate matter and interfacial sediment of the Cariaco Trench. Geochim. Cosmochim. Acta 1990, 54:1325-1336.
220. Wakeham S.G., Freeman K.H., Pease T.K., Hayes J.M. A photoautotrophic source for lycopane in marine water columns and sediments. Geochim. Cosmochim. Acta 1993, 57:159-165.
221. Wakeham S.G., Lewis C.M., Hopmans E.C., Schouten S., Sinninghe Damsté J.S. Archaea mediate anaerobic oxidation of methane in deep euxinic waters of the Black Sea. Geochim. Cosmochim. Acta 2003, 67:1359-1374.
222. Wakeham S.G., Hopmans E., Schouten S., Sinninghe Damsté J.S. Archaeal lipids and anaerobic oxidation of methane in euxinic water columns: a comparative study of the Black Sea and Cariaco Basin. Chem. Geol. 2004, 205:427-442.
223. Wakeham S.G., Amann R., Freeman K.H., Hopmans E.C., Jørgensen B.B., Putnam I.F., Schouten S., Sinninghe Damsté J.S., Talbot H.M., Woebken D. Microbial ecology of the stratified water column of the Black Sea as revealed by a comprehensive biomarker study. Org. Geochem. 2007, 38:2070-2097.
224. Wakeham S.G., Turich C., Taylor G.T., Podlaska A., Scranton M.I., Li X.N., Varela R., Astor Y. Mid-chain methoxylated fatty acids within the chemocline of the Cariaco Basin: a chemoautotrophic source?. Org. Geochem. 2010, 41:498-512.
225. Ward B.B., Kilpatrick K.A., Novelli P.C., Scranton M.I. Methane oxidation and methane fluxes in the ocean surface layer and deep anoxic waters. Nature 1987, 327:226-229.
226. Ward B.B., Devol A.H., Rich J.J., Chang B.X., Bulow S.E., Naik H., Pratihary A., Jayakumar A. Denitrification as the dominant nitrogen loss process in the Arabian Sea. Nature 2009, 461:78-81.
227. Watson, D.F., 2002. Environmental Distribution and Sedimentary Fate of Hopanoid Biological Marker Compounds. Ph.D. Dissertation, University of Newcastle, UK.
228. Weijers J.W.H., Schouten S., Spaargaren O.C., Sinninghe Damste' J.S. Occurrence and distribution of tetraether membrane lipids in soils: implications for the use of the TEX86 proxy and the BIT index. Org. Geochem. 2006, 37:1680-1693.
229. Welander P.V., Hunter R.C., Zhang L., Sessions A.L., Summons R.E., Newman D.K. Hopanoids play a role in membrane integrity and pH homeostasis in Rhodopseudomonas palustris TIE-1. J. Bacteriol. 2009, 191:6145-6156.
230. Werne J.P., Hollander D.J. Balancing supply and demand: controls on carbon isotope fractionation in the Cariaco Basin (Venezuela) Younger Dryas to present. Mar. Chem. 2004, 92:275-293.
231. White D.C., Davis W.M., Nickels J.S., King J.D., Bobbie R.J. Determination of the sedimentary microbial biomass by extractable lipid phosphate. Oecologia 1979, 40:51-62.
232. Wishner K.F., Gelfman C., Gowing M.M., Outram D.M., Rapien M., Williams R.L. Vertical zonation and distributions of calanoid copepods through the lower oxycline of the Arabian Sea oxygen minimum zone. Prog. Oceanogr. 2008, 78:163-191.
233. Woodworth M., Goni M., Tappa E., Tedesco K., Thunell R., Astor Y., Varela R., Diaz-Ramos R.J., Muller-Karger F. Oceanographic controls on the carbon isotopic compositions of sinking particles from the Cariaco Basin. Deep-Sea Res. I 2004, 51:1955-1974.
234. 86 paleothermometry. Paleoceanography 2005, 20:PA3013. 10,1029/2004PA001110.
235. Wuchter C., Abbas B., Coolen M.J.L., Herfort L., van Bleijswijk J., Timmers P., Strous M., Teira E., Herndl G.J., Middelburg J.J., Schouten S., Sinninghe Damsté J.S. Archaeal nitrification in the ocean. Proc. Natl. Acad. Sci. USA 2006, 103:12317-12322.
236. Zhang C.L., Li Y., Ye Q., Fong J., Peacock A.D., Blunt E., Fang J., Lovley D.R., White D.C. Carbon isotope signatures of fatty acids in Geobacter metallireducens and Shewanella algae. Org. Geochem. 2003, 19:17-28.
237. Zhang C.L., Huang Z., Cantu J., Pancost R.D., Brigmon R.L., Lyons T.W., Sassen R. Lipid biomarkers and carbon isotope signatures of a microbial (Beggiatoa) mat associated with gas hydrates in the Gulf of Mexico. Appl. Environ. Microbiol. 2005, 71:2106-2112.
238. Zhang Y.-M., Rock C.O. Membrane lipid homeostasis in bacteria. Nat. Rev. Microbiol. 2008, 6:222-233.