1932

Abstract

Fixed nitrogen limits primary productivity in many parts of the global ocean, and it consequently plays a role in controlling the carbon dioxide content of the atmosphere. The concentration of fixed nitrogen is determined by the balance between two processes: the fixation of nitrogen gas into organic forms by diazotrophs, and the reconversion of fixed nitrogen to nitrogen gas by denitrifying organisms. However, current sedimentary denitrification rates are poorly constrained, especially in permeable sediments, which cover the majority of the continental margin. Also, anammox has recently been shown to be an additional pathway for the loss of fixed nitrogen in sediments. This article briefly reviews sedimentary fixed nitrogen loss by sedimentary denitrification and anammox, including in sediments in contact with oxygen-deficient zones. A simple extrapolation of existing rate measurements to the global sedimentary denitrification rate yields a value smaller than many existing measurement-based estimates but still larger than the rate of water column denitrification.

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2015-01-03
2024-06-23
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Literature Cited

  1. Alkhatib M, Lehmann MF, Del Giorgio PA, Voss M. 2012. The nitrogen isotope effect of benthic remineralization-nitrification-denitrification coupling in an estuarine environment. Biogeosciences 9:1633–46 [Google Scholar]
  2. Aller RC. 1980. Diagenetic processes near the sediment-water interface of Long Island Sound. I. Decomposition and nutrient element geochemistry (S, N, P). Adv. Geophys. 22:235–348 [Google Scholar]
  3. Aller RC, Hall PO, Rude PD, Aller JY. 1998. Biogeochemical heterogeneity and suboxic diagenesis in hemipelagic sediments of the Panama Basin. Deep-Sea Res. I 45:133–65 [Google Scholar]
  4. Altabet MA, Pilskain C, Thunell R, Pride C, Sigman D. et al. 1999. The nitrogen isotope biogeochemistry of sinking particles from the margin of the Eastern North Pacific. Deep-Sea Res. I 46:655–79 [Google Scholar]
  5. Anschutz P, Sundby B, Lefrançois L, Luther GW III, Mucci A. 2000. Interactions between metal oxides and species of nitrogen and iodine in bioturbated marine sediments. Geochim. Cosmochim. Acta 64:2751–63 [Google Scholar]
  6. Barford CC, Montoya JP, Altabet MA, Mitchell R. 1999. Steady-state nitrogen isotope effects of N2 and N2O production in Paracoccus denitrificans. Appl. Environ. Microbiol. 65:989–94 [Google Scholar]
  7. Berelson WM, McManus J, Coale KH, Johnson KS, Burdige D. et al. 2003. A time series of benthic flux measurements from Monterey Bay, CA. Cont. Shelf Res. 23:457–81 [Google Scholar]
  8. Berelson WM, McManus J, Coale KH, Johnson KS, Kilgore T. et al. 1996. Biogenic matter diagenesis on the sea floor: a comparison between two continental margin transects. J. Mar. Res. 54:731–62 [Google Scholar]
  9. Berg P, Risgaard-Petersen N, Sysgaard S. 1998. Interpretation of measured concentration profiles in sediment pore water. Limnol. Oceanogr. 43:1500–10 [Google Scholar]
  10. Bernhard JM, Edgecomb VP, Casciotti KL, McIlvin MR, Beaudoin DJ. 2012. Denitrification likely catalyzed by endobionts in an allogromiid foraminifer. ISME J. 6:951–60 [Google Scholar]
  11. Bohlen L, Dale AW, Sommer S, Mosch T, Hensen C. et al. 2011. Benthic nitrogen cycling traversing the Peruvian oxygen minimum zone. Geochim. Cosmochim. Acta 75:6094–111 [Google Scholar]
  12. Boudreau BP. 1997. Diagenetic Models and Their Implementation New York: Springer [Google Scholar]
  13. Brandes JA, Devol AH. 1997. Isotopic fractionation of oxygen and nitrogen in coastal marine sediments. Geochim. Cosmochim. Acta 61:1793–802 [Google Scholar]
  14. Brandes JA, Devol AH. 2002. A global marine-fixed nitrogen isotopic budget: implications for Holocene nitrogen cycling. Glob. Biogeochem. Cycles 16:1120 [Google Scholar]
  15. Brandes JA, Devol AH, Yoshinari T, Jayakumar DA, Naqvi SW. 1998. Isotopic composition of nitrate in the central Arabian Sea and eastern tropical North Pacific: a tracer for mixing and nitrogen cycles. Limnol. Oceanogr. 43:1680–89 [Google Scholar]
  16. Brandsma J, van de Vossenberg J, Risgaard-Petersen N, Schmid MC, Engström P. et al. 2011. A multi-proxy study of anaerobic ammonium oxidation in marine sediments of the Gullmar Fjord, Sweden. Environ. Microbiol. Rep. 3:360–66 [Google Scholar]
  17. Brin LD, Giblin AE, Rich JJ. 2014. Environmental controls of anammox and denitrification in southern New England estuarine and shelf sediments. Limnol. Oceanogr. 59:851–60 [Google Scholar]
  18. Broecker WS, Henderson GM. 1998. The sequence of events surrounding Termination II and their implications for the cause of glacial-interglacial CO2 changes. Paleoceanography 4:352–64 [Google Scholar]
  19. Burdige DJ. 2006. Geochemistry of Marine Sediments Princeton, NJ: Princeton Univ. Press [Google Scholar]
  20. Capone DG, Bronk DA, Mulholland MR, Carpenter EJ. 2008. Nitrogen in the Marine Environment Amsterdam: Elsevier, 2nd ed.. [Google Scholar]
  21. Capone DG, Zehr JP, Paerl HW, Bergman B, Carpenter EJ. 1997. Trichodesmium, a globally significant marine cyanobacterium. Science 276:1221–29 [Google Scholar]
  22. Cardenas MB, Cook PL, Jiang H, Traykovski P. 2008. Constraining denitrification in permeable wave-influenced marine sediment using linked hydrodynamic and biogeochemical modeling. Earth Planet. Sci. Lett. 275:127–37 [Google Scholar]
  23. Cardoso RB, Sierra-Alvarez R, Rowlette P, Flores ER, Gómez J, Field JA. 2006. Sulfide oxidation under chemolithoautotrophic denitrifying conditions. Biotechnol. Bioeng. 95:1148–57 [Google Scholar]
  24. Chang BX, Devol AH. 2009. Seasonal and spatial patterns of sedimentary denitrification rates in the Chukchi Sea. Deep-Sea Res. II 56:1339–50 [Google Scholar]
  25. Chong LS, Prokopenko MG, Berelson WM, Townsend-Small A, McManus J. 2012. Nitrogen cycling within suboxic and anoxic sediments from the continental margin of western North America. Mar. Chem. 128:13–25 [Google Scholar]
  26. Cline JD, Kaplan IR. 1975. Isotopic fractionation of dissolved nitrate during denitrification in the eastern tropical North Pacific Ocean. Mar. Chem. 3:271–99 [Google Scholar]
  27. Codispoti LA. 1989. Phosphorus versus nitrogen limitation of new and export production. Productivity of the Oceans: Present and Past WH Berger, VS Smetacek, G Wefer 377–94 New York: Wiley and Sons [Google Scholar]
  28. Codispoti LA. 1997. The limits to growth. Nature 387:237–38 [Google Scholar]
  29. Codispoti LA. 2007. An oceanic fixed nitrogen sink exceeding 400 Tg N a−1 versus the concept of homeostasis in the fixed-nitrogen inventory. Biogeosciences 4:233–53 [Google Scholar]
  30. Codispoti LA, Brandes JA, Christensen JP, Devol AH, Naqvi SW. et al. 2001. The oceanic fixed nitrogen and nitrous oxide budgets: moving targets as we enter the Anthropocene?. Sci. Mar. 65:85–105 [Google Scholar]
  31. Codispoti LA, Yoshinari T, Devol AH. 2005. Suboxic respiration in the oceanic water-column. Respiration in Aquatic Ecosystems PA del Giorgio, PJLB Williams 225–47 Oxford, UK: Blackwell Sci. [Google Scholar]
  32. Cook PL, Wenzhøfer F, Glud RN, Janssen F, Huettel M. 2007. Benthic solute exchange and carbon mineralization in two shallow subtidal sandy sediments: effect of advective pore-water exchange. Limnol. Oceanogr. 52:1943–63 [Google Scholar]
  33. Crutzen PJ. 2002. Geology of mankind. Nature 415:23 [Google Scholar]
  34. Dalsgaard T, Canfield DE, Petersen J, Thamdrup B, Acuña-González J. 2003. N2 production by the anammox reaction in the anoxic water column of Golfo Dulce, Costa Rica. Nature 422:606–8 [Google Scholar]
  35. Dalsgaard T, Thamdrup B, Canfield DE. 2005. Anaerobic ammonium oxidation (anammox) in the marine environment. Res. Microbiol. 156:457–64 [Google Scholar]
  36. Delwiche CC, Steyn PL. 1970. Nitrogen isotope fractionation in soils and microbial reactions. Environ. Sci. Technol. 4:929–35 [Google Scholar]
  37. Deutsch C, Sigman DM, Thunell RC, Meckler AN, Haug GH. 2004. Isotopic constraints on glacial/interglacial changes in the oceanic nitrogen budget. Glob. Biogeochem. Cycles 18:GB4012 [Google Scholar]
  38. Devol AH. 2008. Denitrification including anammox. See Capone et al. 2008 263–301
  39. Devol AH, Christensen JP. 1993. Benthic fluxes and nitrogen cycling in sediments of the continental margin of the eastern North Pacific. J. Mar. Res. 51:345–72 [Google Scholar]
  40. DeVries T, Deutsch C, Primeau F, Chang B, Devol A. 2012. Global rates of water-column denitrification derived from nitrogen gas measurements. Nat. Geosci. 5:547–50 [Google Scholar]
  41. Dong LF, Sobey MN, Smith CJ, Rusmana I, Phillips W. et al. 2011. Dissimilatory reduction of nitrate to ammonium, not denitrification or anammox, dominates benthic nitrate reduction in tropical estuaries. Limnol. Oceanogr. 56:279–91 [Google Scholar]
  42. Emery KO. 1968. Relict sediments on continental shelves of the world. AAPG Bull. 52:445–64 [Google Scholar]
  43. Engstrøm P, Dalsgaard T, Hulth S, Aller RC. 2005. Anaerobic ammonium oxidation by nitrite (anammox): implications for N2 production in coastal marine sediments. Geochim. Cosmochim. Acta 69:2057–65 [Google Scholar]
  44. Engstrøm P, Penton CR, Devol AH. 2009. Anaerobic ammonium oxidation in deep-sea sediments off the Washington margin. Limnol. Oceanogr. 54:1643–52 [Google Scholar]
  45. Falkowski PG. 1997. Evolution of the nitrogen cycle and its influence on the biological sequestration of CO2 in the ocean. Nature 387:272–75 [Google Scholar]
  46. Fernandes SO, Bharathi PA, Bonin PC, Michotey VS. 2010. Denitrification: an important pathway for nitrous oxide production in tropical mangrove sediments (Goa, India). J. Environ. Qual. 39:1507–16 [Google Scholar]
  47. Fossing H, Gallardo VA, Jørgensen BB, Hüttel M, Nielsen LP. et al. 1995. Concentration and transport of nitrate by the mat-forming sulphur bacterium Thioploca. Nature 374:713–15 [Google Scholar]
  48. Froelich PN, Klinkhammer GP, Bender MA, Luedtke NA, Heath G. et al. 1979. Early oxidation of organic matter in pelagic sediments of the equatorial Atlantic: suboxic diagenesis. Geochim. Cosmochim. Acta 43:1075–90 [Google Scholar]
  49. Fulweiler RW, Nixon SW, Buckley BA, Granger SL. 2007. Reversal of the net dinitrogen gas flux in coastal marine sediments. Nature 448:180–82 [Google Scholar]
  50. Galloway JN, Townsend AR, Erisman JW, Bekunda M, Cai Z. et al. 2008. Transformation of the nitrogen cycle: recent trends, questions, and potential solutions. Science 320:889–92 [Google Scholar]
  51. Gao H, Matyka M, Liu B, Khalili A, Kostka JE. et al. 2012. Intensive and extensive nitrogen loss from intertidal permeable sediments of the Wadden Sea. Limnol. Oceanogr. 57:185–98 [Google Scholar]
  52. Gardner WS, McCarthy MJ, An S, Sobolex D, Sell KS. et al. 2006. Nitrogen fixation and dissimilatory nitrate reduction to ammonium (DNRA) support nitrogen dynamics in Texas estuaries. Limnol. Oceanogr. 51:558–68 [Google Scholar]
  53. Gihring TM, Canion A, Riggs A, Huettel M, Kostka JE. 2010a. Denitrification in shallow, sublittoral Gulf of Mexico permeable sediments. Limnol. Oceanogr. 55:43–54 [Google Scholar]
  54. Gihring TM, Lavik G, Kuypers MM, Kostka JE. 2010b. Direct determination of nitrogen cycling rates and pathways in Arctic fjord sediments (Svalbard, Norway). Limnol. Oceanogr. 55:740–52 [Google Scholar]
  55. Glock N, Schönfeld J, Eisenhauer A, Hensen C, Mallon J. et al. 2013. The role of benthic foraminifera in the benthic nitrogen cycle of the Peruvian oxygen minimum zone. Biogeosciences 10:4767–83 [Google Scholar]
  56. Glud RN, Blackburn N. 2002. The effects of chamber size on benthic oxygen uptake measurements: a simulation study. Ophelia 56:23–31 [Google Scholar]
  57. Glud RN, Holby O, Hoffmann F, Canfield DE. 1998. Benthic mineralization and exchange in Arctic sediments (Svalbard, Norway). Mar. Ecol. Prog. Ser. 173:237–51 [Google Scholar]
  58. Glud RN, Thamdrup B, Stahl H, Wenzhøefer F, Glud A. et al. 2009. Nitrogen cycling in a deep ocean margin sediment (Sagami Bay, Japan). Limnol. Oceanogr. 54:3723–34 [Google Scholar]
  59. Granger J, Prokopenko MG, Sigman DM, Mordy CW, Morse ZM. et al. 2011. Coupled nitrification-denitrification in sediment of the eastern Bering Sea shelf leads to 15N enrichment of fixed N in shelf waters. J. Geophys. Res. 116:C11006 [Google Scholar]
  60. Granger J, Sigman DM, Lehmann MF, Tortell PD. 2008. Nitrogen and oxygen isotope fractionation during dissimilatory nitrate reduction by denitrifying bacteria. Limnol. Oceanogr. 53:2533–45 [Google Scholar]
  61. Gruber N. 2004. Dynamics of the marine nitrogen cycle and its influence on atmospheric CO2 variation. Carbon-Climate Interactions M Follows, T Oguz 97–148 New York: Wiley and Sons [Google Scholar]
  62. Gruber N. 2008. The marine nitrogen cycle: overview and challenges. See Capone et al. 2008 1–50
  63. Gruber N, Galloway JN. 2008. An Earth-system perspective of the global nitrogen cycle. Nature 451:293–96 [Google Scholar]
  64. Gruber N, Sarmiento JL. 1997. Global patterns of marine nitrogen fixation and denitrification. Glob. Biogeochem. Cycles 11:235–66 [Google Scholar]
  65. Hall SJ. 2002. The continental shelf benthic ecosystem: current status, agents for change and future prospects. Environ. Conserv. 29:350–74 [Google Scholar]
  66. Hammond DE, Cummins KM, McManus J, Berelson WM, Smith G. et al. 2004. Methods for measuring benthic nutrient flux on the California margin: comparing shipboard core incubations to in situ lander results. Limnol. Oceanogr. Methods 2:146–59 [Google Scholar]
  67. Hartnett HE, Devol AH. 2003. Role of a strong oxygen-deficient zone in the preservation and degradation of organic matter: a carbon budget for the continental margins of northwest Mexico and Washington. Geochim. Cosmochim. Acta 67:247–64 [Google Scholar]
  68. Hietanen S, Kuparinen J. 2008. Seasonal and short-term variation in denitrification and anammox at a coastal station on the Gulf of Finland, Baltic Sea. Hydrobiologia 596:67–77 [Google Scholar]
  69. Høgslund S, Nielsen JL, Nielsen LP. 2010. Distribution, ecology and molecular identification of Thioploca from Danish brackish water sediments. FEMS Microbiol. Ecol. 73:110–20 [Google Scholar]
  70. Høgslund S, Revsbech NP, Cedhagen T, Nielsen LP, Gallardo VA. 2008. Denitrification, nitrate turnover, and aerobic respiration by benthic foraminiferans in the oxygen minimum zone off Chile. J. Exp. Mar. Biol. Ecol. 359:85–91 [Google Scholar]
  71. Høgslund S, Revsbech NP, Kuenen JG, Jørgensen BB, Gallardo VA. et al. 2009. Physiology and behaviour of marine Thioploca. ISME J. 3:647–57 [Google Scholar]
  72. Horak RE, Whitney H, Shull DH, Mordy CW, Devol AH. 2013. The role of sediments on the Bering Sea shelf N cycle: insights from measurements of benthic denitrification and benthic DIN fluxes. Deep-Sea Res. II 94:95–105 [Google Scholar]
  73. Huettel M, Berg P, Kostka JE. 2014. Benthic exchange and biogeochemical cycling in permeable sediments. Annu. Rev. Mar. Sci. 6:23–51 [Google Scholar]
  74. Huettel M, Rush A. 2000. Transport and degradation of phytoplankton in permeable sediment. Limnol. Oceanogr. 45:534–49 [Google Scholar]
  75. Huettel M, Ziebis W, Forster S. 1996. Flow-induced uptake of particulate matter in permeable sediments. Limnol. Oceanogr. 41:2309–22 [Google Scholar]
  76. Huettel M, Ziebis W, Forster S, Luther GW III. 1998. Advective transport affecting metal and nutrient distributions and interfacial fluxes in permeable sediments. Geochim. Cosmochim. Acta 62:613–31 [Google Scholar]
  77. Jantti H, Stange F, Leskinen E, Hietanen S. 2011. Seasonal variation in nitrification and nitrate-reduction pathways in coastal sediments in the Gulf of Finland, Baltic Sea. Aquat. Microb. Ecol. 63:171–81 [Google Scholar]
  78. Jeffreys RM, Levin LA, Lamont PA, Woulds C, Whitcraft CR. et al. 2012. Living on the edge: single-species dominance at the Pakistan oxygen minimum zone boundary. Mar. Ecol. Prog. Ser. 470:79–99 [Google Scholar]
  79. Jensen MM, Kuypers MM, Lavik G, Thamdrup B. 2008. Rates and regulation of anaerobic ammonium oxidation and denitrification in the Black Sea. Limnol. Oceanogr. 53:23–36 [Google Scholar]
  80. Jensen MM, Lam P, Revsbech NP, Nagel B, Gaye B. et al. 2011. Intensive nitrogen loss over the Omani Shelf due to anammox coupled with dissimilatory nitrite reduction to ammonium. ISME J. 5:1660–70 [Google Scholar]
  81. Jørgensen BB, Gallardo VA. 1999. Thioploca spp.: filamentous sulfur bacteria with nitrate vacuoles. FEMS Microbiol. Ecol. 28:301–13 [Google Scholar]
  82. Joye SB, Anderson IC. 2008. Nitrogen cycling in coastal sediments. See Capone et al. 2008 868–915
  83. Kalvelage T, Jensen MM, Contreras S, Revsbech NP, Lam P. et al. 2011. Oxygen sensitivity of anammox and coupled N-cycle processes in oxygen minimum zones. PLoS ONE 6:e29299 [Google Scholar]
  84. Kalvelage T, Lavik G, Lam P, Contreras S, Arteaga L. et al. 2013. Nitrogen cycling driven by organic matter export in the South Pacific oxygen minimum zone. Nat. Geosci. 6:228–34 [Google Scholar]
  85. Kana TM, Darkangelo C, Hunt MD, Oldham JB, Bennett GE. et al. 1994. Membrane inlet mass-spectrometer for rapid high-precision determination of N2, O2, and Ar in environmental water samples. Anal. Chem. 66:4166–70 [Google Scholar]
  86. Kartal B, Maalcke WJ, de Almeida NM, Cirpus I, Gloerich J. et al. 2011. Molecular mechanism of anaerobic ammonium oxidation. Nature 479:127–30 [Google Scholar]
  87. Kessler AJ, Glud RN, Cardenas MB, Larsen M, Bourke MF. et al. 2012. Quantifying denitrification in rippled permeable sands through combined flume experiments and modeling. Limnol. Oceanogr. 57:1217–32 [Google Scholar]
  88. Kristensen E. 2000. Organic matter diagenesis at the oxic/anoxic interface in coastal marine sediments, with emphasis on the role of burrowing animals. Hydrobiologia 426:1–24 [Google Scholar]
  89. Kristensen E, Jensen MH, Andersen TK. 1985. The impact of polychaete (Nereis virens Sars) burrows on nitrification and nitrate reduction in estuarine sediments. J. Exp. Mar. Biol. Ecol. 85:75–91 [Google Scholar]
  90. Kritee K, Sigman DM, Granger J, Ward BB, Jayakumar A. et al. 2012. Reduced isotope fractionation by denitrification under conditions relevant to the ocean. Geochim. Cosmochim. Acta 92:243–59 [Google Scholar]
  91. Kuenen JG. 2008. Anammox bacteria: from discovery to application. Nat. Rev. Microbiol. 6:320–26 [Google Scholar]
  92. Lam P, Kuypers M. 2011. Microbial nitrogen cycling processes in oxygen minimum zones. Annu. Rev. Mar. Sci. 3:317–45 [Google Scholar]
  93. Lehmann MF, Barnett B, Gélinas Y, Gilbert D, Maranger RJ. et al. 2009. Aerobic respiration and hypoxia in the lower St. Laurence Estuary: Stable isotope ratios of dissolved oxygen constrain oxygen sink partitioning. Limnol. Oceanogr. 54:2157–69 [Google Scholar]
  94. Lehmann MF, Bernasconi SM, McKenzie JA, Barbieri A, Simona M. et al. 2004. Seasonal variation of the δ13C and δ15N of particulate and dissolved carbon and nitrogen in Lake Lugano: constraints on biogeochemical cycling in a eutrophic lake. Limnol. Oceanogr. 49:415–29 [Google Scholar]
  95. Lehmann MF, Sigman DM, McCorkle DC, Granger J, Hoffman S. et al. 2007. The distribution of nitrate 15N/14N in marine sediments and the impact of benthic nitrogen loss on the isotopic composition of oceanic nitrate. Geochim. Cosmochim. Acta 71:5384–404 [Google Scholar]
  96. Mariotti A, Leclerc A, Germon JC. 1982. Nitrogen isotope fractionation associated with the NO2→ N2O step of denitrification in soils. Can. J. Soil Sci. 62:227–41 [Google Scholar]
  97. Meysman FJ, Galaktionov OS, Cook PL, Janssen FJ, Huettel M. et al. 2007. Quantifying biologically and physically induced flow and tracer dynamics in permeable sediments. Biogeosciences 4:627–46 [Google Scholar]
  98. Meysman FJ, Galaktionov OS, Gribsholt B, Middelburg JJ. 2006. Bioirrigation in permeable sediments: advective pore-water transport induced by burrow ventilation. Limnol. Oceanogr. 51:142–56 [Google Scholar]
  99. Meysman FJ, Galaktionov OS, Middelburg JJ. 2005. Irrigation patterns in permeable sediments induced by burrow ventilation: a case study of Arenicola marina. Mar. Ecol. Prog. Ser. 303:195–212 [Google Scholar]
  100. Middelburg JJ, Soetaert K, Herman PM, Heip CH. 1996. Denitrification in marine sediments: a model study. Glob. Biogeochem. Cycles 10:661–73 [Google Scholar]
  101. Na T, Gribsholt B, Galaktionov OS, Lee T, Meysman FJ. 2008. Influence of advective bio-irrigation on carbon and nitrogen cycling in sandy sediments. J. Mar. Res. 66:691–722 [Google Scholar]
  102. Neubacher EC, Parker RE, Trimmer M. 2011. Short-term hypoxia alters the balance of the nitrogen cycle in coastal sediments. Limnol. Oceanogr. 56:651–65 [Google Scholar]
  103. Nicholls JC, Trimmer M. 2009. Widespread occurrence of the anammox reaction in esturaine sediments. Aquat. Microb. Ecol. 55:1564–616 [Google Scholar]
  104. Nielsen LP. 1992. Denitrification in sediment determined from nitrogen isotope pairing. FEMS Microbiol. Ecol. 86:357–62 [Google Scholar]
  105. Piña-Ochoa E, Høgslund S, Geslin E, Cedhagen T, Revsbech NP. et al. 2010. Widespread occurrence of nitrate storage and denitrification among Foraminifera and Gromiida. Proc. Natl. Acad. Sci. USA 107:1148–53 [Google Scholar]
  106. Prokopenko MG, Hammond DE, Berelson WM, Bernhard JM, Stodd L, Douglas R. 2006. Nitrogen cycling in the sediments of Santa Barbara basin and Eastern Subtropical North Pacific: nitrogen isotopes, diagenesis and possible chemosymbiosis between two lithotrophs (Thioploca and Anammox)—“riding on a glider.”. Earth Planet. Sci. Lett. 242:186–204 [Google Scholar]
  107. Prokopenko MG, Hirst MB. Brabandere L, Lawrence DJ, Berelson WM. , De et al. 2013. Nitrogen losses in anoxic marine sediments driven by Thioploca–anammox bacterial consortia. Nature 500:194–98 [Google Scholar]
  108. Prokopenko MG, Sigman DM, Berelson WM, Hammond DE, Barnett B. et al. 2011. Denitrification in anoxic sediments supported by biological nitrate transport. Geochim. Cosmochim. Acta 75:7180–99 [Google Scholar]
  109. Rao AM, McCarthy MJ, Gardner WS, Jahnke RA. 2008. Respiration and denitrification in permeable continental shelf deposits on the South Atlantic Bight: N2:Ar and isotope pairing measurements in sediment column experiments. Cont. Shelf Res. 28:602–13 [Google Scholar]
  110. Rich JJ, Dale OR, Song B, Ward BB. 2008. Anaerobic ammonium oxidation (anammox) in Chesapeake Bay sediments. Microb. Ecol. 55:311–20 [Google Scholar]
  111. Riisgård HU, Banta GT. 1998. Irrigation and deposit feeding by the lugworm Arenicola marina, characteristics and secondary effects on the environment. A review of current knowledge. Vie Milieu 48:243–57 [Google Scholar]
  112. Risgaard-Petersen N, Langezaal AM, Ingvardsen S, Schmid MC, Jetten MS. et al. 2006. Evidence for complete denitrification in a benthic foraminifer. Nature 443:93–96 [Google Scholar]
  113. Risgaard-Petersen N, Nielsen LP, Rysgaard S, Dalsgaard T, Meyer RL. 2003. Application of the isotope pairing technique in sediments where anammox and denitrification co-exist. Limnol. Oceanogr. Methods 1:63–73 [Google Scholar]
  114. Rooks C, Schmid MC, Mehsana W, Trimmer M. 2012. The depth-specific significance and relative abundance of anaerobic ammonium-oxidizing bacteria in estuarine sediments (Medway Estuary, UK). FEMS Microbiol. Ecol. 80:19–29 [Google Scholar]
  115. Rysgaard S, Glud RN, Risgaard-Petersen N, Dalsgaard T. 2004. Denitrification and anammox activity in Arctic marine sediments. Limnol. Oceanogr. 49:1493–502 [Google Scholar]
  116. Rysgaard S, Risgaard-Petersen N, Nielsen LP, Revsbech NP. 1993. Nitrification and denitrification in lake and estuarine sediments measured by the 15N dilution technique and isotope pairing. Appl. Environ. Microbiol. 59:2093–98 [Google Scholar]
  117. Schulz HN, Brinkhoff T, Ferdelman TG, Mariné MH, Teske A. et al. 1999. Dense populations of a giant sulfur bacterium in Namibian shelf sediments. Science 284:493–95 [Google Scholar]
  118. Schulz HN, de Beer D. 2002. Uptake rates of oxygen and sulfide measured with individual Thiomargarita namibiensis cells by using microelectrodes. Appl. Environ. Microbiol. 68:5746–49 [Google Scholar]
  119. Schulz HN, Jørgensen BB, Fossing HA, Ramsing NB. 1996. Community structure of filamentous, sheath-building sulfur bacteria, Thioploca, spp., off the coast of Chile. Appl. Environ. Microbiol. 62:1855–62 [Google Scholar]
  120. Seitzinger SP, Giblin AE. 1996. Estimating denitrification in North Atlantic continental shelf sediments. Biogeochemistry 35:235–60 [Google Scholar]
  121. Seitzinger SP, Harrison JA, Böhlke JK, Bouwman AF, Lowrance R. et al. 2006. Denitrification across landscapes and waterscapes: a synthesis. Ecol. Appl. 16:2064–90 [Google Scholar]
  122. Shao M, Zhang T, Fang HH. 2010. Sulfur-driven autotrophic denitrification: diversity, biochemistry, and engineering applications. Appl. Microbiol. Biotechnol. 88:1027–42 [Google Scholar]
  123. Sigman DM, Casciotti KL, Andreani M, Barford C, Galanter M. et al. 2001. A bacterial method for the nitrogen isotopic analysis of nitrate in seawater and freshwater. Anal. Chem. 73:4145–53 [Google Scholar]
  124. Sørensen J. 1978a. Capacity for denitrification and reduction of nitrate to ammonia in a coastal marine sediment. Appl. Environ. Micriobiol. 35:301–5 [Google Scholar]
  125. Sørensen J. 1978b. Denitrification rates in marine sediment as measured by acetylene inhibition technique. Appl. Environ. Microbiol. 36:139–43 [Google Scholar]
  126. Strous M, Fuerst JA, Kramer EH, Logemann S, Muyzer G. et al. 1999. Missing lithotroph identified as new planctomycete. Nature 400:446–49 [Google Scholar]
  127. Suykens K, Schmidt S, Delille B, Harlay J, Chou L. et al. 2011. Benthic remineralization in the northwest European continental margin (northern Bay of Biscay). Cont. Shelf Res. 31:644–58 [Google Scholar]
  128. Syvitski J. 2012. Anthropocene: an epoch of our making. Glob. Change 78:12–15 [Google Scholar]
  129. Teixeira C, Magalhaes C, Joye SB, Bordalo AA. 2012. Potential rates and environmental controls of anaerobic ammonium oxidation in estuarine sediments. Aquat. Microb. Ecol. 66:23–32 [Google Scholar]
  130. Teske A, Jørgensen BB, Gallardo VA. 2009. Filamentous bacteria inhabiting the sheaths of marine Thioploca spp. on the Chilean continental shelf. FEMS Microbiol. Ecol. 68:164–72 [Google Scholar]
  131. Thamdrup B, Dalsgaard T. 2002. Production of N2 through anaerobic ammonium oxidation coupled to nitrate reduction in marine sediments. Appl. Environ. Microbiol. 68:1312–18 [Google Scholar]
  132. Thamdrup B, Dalsgaard T, Revsbech NP. 2012. Widespread functional anoxia in the oxygen minimum zone of the Eastern South Pacific. Deep-Sea Res. I 65:36–45 [Google Scholar]
  133. Thibodeau B, Lehmann MF, Kowarzyk J, Mucci A, Gélinas Y. et al. 2010. Benthic nutrient fluxes along the Laurentian Channel: impacts on the N budget of the St. Lawrence marine system. Estuar. Coast. Shelf Sci. 90:195–205 [Google Scholar]
  134. Tiedje JM. 1988. Ecology of denitrification and dissimilatory nitrate reduction to ammonium. Biology of Anaerobic Microorganisms AJB Zehnder 179–244 New York: Wiley and Sons [Google Scholar]
  135. Trimmer M, Engstrøm P. 2011. Distribution, activity and ecology of anammox bacteria in aquatic environments. Nitrification BB Ward, DJ Arp, MG Klotz 201–35 Washington, DC: Am. Soc. Microbiol. [Google Scholar]
  136. Trimmer M, Engstrøm P, Thamdrup B. 2013. Stark contrast in denitrification and anammox across the deep Norwegian Trench in the Skagerrak. Appl. Environ. Microbiol. 79:7381–89 [Google Scholar]
  137. Trimmer M, Nicholls JC. 2009. Production of nitrogen gas via anammox and denitrification in intact sediment cores along a continental shelf to slope transect in the North Atlantic. Limnol. Oceanogr. 54:577–89 [Google Scholar]
  138. Tyrell T. 1999. The relative influences of nitrogen and phosphorus on oceanic primary production. Nature 400:525–31 [Google Scholar]
  139. Voss M, Dippner JW, Montoya JP. 2001. Nitrogen isotope patterns in the oxygen-deficient waters of the Eastern Tropical North Pacific Ocean. Deep-Sea Res. I 48:1905–21 [Google Scholar]
  140. Ward BB. 2008. Nitrification in marine systems. See Capone et al. 2008 99–244
  141. Welsh DT. 2003. It's a dirty job but someone has to do it: the role of marine benthic macrofauna in organic matter turnover and nutrient recycling to the water column. Chem. Ecol. 19:321–42 [Google Scholar]
  142. Wenzhøfer F, Glud RN. 2004. Small-scale spatial and temporal variability in coastal benthic O2 dynamics: effects of fauna activity. Limnol. Oceanogr. 49:1471–81 [Google Scholar]
  143. Zumft WG. 1997. Cell biology and molecular basis of denitrification. Microbiol. Mol. Biol. Rev. 61:533–616 [Google Scholar]
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