Cryptic oxygen cycling in anoxic marine zones

Proceedings of the National Academy of Sciences of the United States of America

Volumn 114, Issue 31, 2017, Pages 8319-8324

  Garcia Robledo, Emilio ^a,f   Padilla, Cory C ^b   Aldunate, Montserrat ^c   Stewart, Frank J ^b   Ulloa, Osvaldo ^c   Paulmier, Aurélien ^d   Gregori, Gerald ^e   Revsbech, Niels Peter ^a  

^a AARHUS UNIVERSITY   (Denmark)

^b GEORGIA INSTITUTE OF TECHNOLOGY   (United States)

^c UNIVERSITY OF CONCEPCIÓN   (Chile)

^d CNRS   (France)

^e AIX MARSEILLE UNIVERSITY   (France)

^f UNIVERSITY OF CÁDIZ   (Spain)

Author keywords

Aerobic metabolism; Metatranscriptomics; Oxygen minimum zone; Prochlorococcus; Secondary chlorophyll maximum

Indexed keywords

AMMONIA MONOOXGYNEASE; CARBON; CHLOROPHYLL; DISSOLVED OXYGEN; MESSENGER RNA; NITRATE REDUCTASE; NITRITE; OXIDOREDUCTASE; OXYGEN; SULFATE; UNCLASSIFIED DRUG; NITROGEN;

AEROBIC METABOLISM; ANOXIC MARINE ZONE; ARTICLE; BIOGEOCHEMICAL CYCLING; CARBON FIXATION; CHLOROPHYLL CONTENT; COASTAL WATERS; GENE EXPRESSION; MICROBIAL COMMUNITY; NONHUMAN; OXIDATION; OXYGEN CONSUMPTION; PHOTOSYNTHESIS; PRIORITY JOURNAL; PROCHLOROCOCCUS; REDUCTION (CHEMISTRY); ANAEROBIC GROWTH; AQUATIC SPECIES; CARBON CYCLE; GREENHOUSE EFFECT; METABOLISM; MEXICO; MICROFLORA; NITRIFICATION; PERU; PHYSIOLOGY; SEA;

ANAEROBIOSIS; AQUATIC ORGANISMS; CARBON CYCLE; CHLOROPHYLL; GLOBAL WARMING; MEXICO; MICROBIOTA; NITRIFICATION; NITROGEN; OCEANS AND SEAS; OXYGEN; PERU; PHOTOSYNTHESIS; PROCHLOROCOCCUS;

EID: 85026748088     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1619844114     Document Type: Article

References (40)

1. Paulmier A, Ruiz-Pino D (2009) Oxygen minimum zones (OMZs) in the modern ocean. Prog Oceanogr 80:113–128.
2. Revsbech NP, Thamdrup B, Dalsgaard T, Canfield DE (2011) Construction of STOX oxygen sensors and their application for determination of O2 concentrations in oxygen minimum zones. Research on Nitrification and Related Processes, Methods in Enzymology, ed Klotz MG (Elsevier, San Diego), Part A, Vol 486, pp 325–341.
3. Thamdrup B, Dalsgaard T, Revsbech NP (2012) Widespread functional anoxia in the oxygen minimum zone of the Eastern South Pacific. Deep Sea Res Part I Oceanogr Res Pap 65:36–45.
4. Tiano L, et al. (2014) Oxygen distribution and aerobic respiration in the north and south eastern tropical Pacific oxygen minimum zones. Deep Sea Res Part I Oceanogr Res Pap 94:173–183.
5. Ulloa O, Canfield DE, DeLong EF, Letelier RM, Stewart FJ (2012) Microbial oceanography of anoxic oxygen minimum zones. Proc Natl Acad Sci USA 109:15996–16003.
6. Bristow LA, et al. (2017) N2 production rates limited by nitrite availability in the Bay of Bengal oxygen minimum zone. Nat Geosci 10:24–29.
7. Canfield DE, et al. (2010) A cryptic sulfur cycle in oxygen-minimum-zone waters off the Chilean coast. Science 330:1375–1378.
8. Ganesh S, et al. (2015) Size-fraction partitioning of community gene transcription and nitrogen metabolism in a marine oxygen minimum zone. ISME J 9:2682–2696.
9. Codispoti L, et al. (2001) The oceanic fixed nitrogen and nitrous oxide budgets: Moving targets as we enter the anthropocene? Sci Mar 65:85–105.
10. Dalsgaard T, Thamdrup B, Farias L, Revsbech NP (2012) Anammox and denitrification in the oxygen minimum zone of the eastern South Pacific. Limnol Oceanogr 57: 1331–1346.
11. Babbin AR, Keil RG, Devol AH, Ward BB (2014) Organic matter stoichiometry, flux, and oxygen control nitrogen loss in the ocean. Science 344:406–408.
12. Stewart FJ, Ulloa O, DeLong EF (2012) Microbial metatranscriptomics in a permanent marine oxygen minimum zone. Environ Microbiol 14:23–40.
13. Kalvelage T, et al. (2015) Aerobic microbial respiration in oceanic oxygen minimum zones. PLoS One 10:e0133526.
14. Lavin P, González B, Santibáñez JF, Scanlan DJ, Ulloa O (2010) Novel lineages of Prochlorococcus thrive within the oxygen minimum zone of the eastern tropical South Pacific. Environ Microbiol Rep 2:728–738.
15. Goericke R, Olson RJ, Shalapyonok A (2000) A novel niche for Prochlorococcus sp in low-light suboxic environments in the Arabian Sea and the Eastern Tropical North Pacific. Deep Sea Res Part I Oceanogr Res Pap 47:1183–1205.
16. Cepeda-Morales J, Beier E, Gaxiola-Castro G, Lavín M, Godínez V (2009) Effect of the oxygen minimum zone on the second chlorophyll maximum in the Eastern Tropical Pacific off Mexico. Cienc Mar 35:389–403.
17. Bristow LA, et al. (2016) Ammonium and nitrite oxidation at nanomolar oxygen concentrations in oxygen minimum zone waters. Proc Natl Acad Sci USA 113: 10601–10606.
18. Morris RL, Schmidt TM (2013) Shallow breathing: Bacterial life at low O(2). Nat Rev Microbiol 11:205–212.
19. Gong X, Garcia-Robledo E, Schramm A, Revsbech NP (2015) Respiratory kinetics of marine bacteria exposed to decreasing oxygen concentrations. Appl Environ Microbiol 82:1412–1422.
20. Johnson Z, et al. (1999) Energetics and growth kinetics of a deep Prochlorococcus spp. population in the Arabian Sea. Deep Sea Res Part II Top Stud Oceanogr 46:1719–1743.
21. Moore LR, Chisholm SW (1999) Photophysiology of the marine cyanobacterium Prochlorococcus: Ecotypic differences among cultured isolates. Limnol Oceanogr 44: 628–638.
22. Tsementzi D, et al. (2016) SAR11 bacteria linked to ocean anoxia and nitrogen loss. Nature 536:179–183.
23. Kalvelage T, et al. (2013) Nitrogen cycling driven by organic matter export in the South Pacific oxygen minimum zone. Nat Geosci 6:228–234.
24. Devol AH, Hartnett HE (2001) Role of the oxygen-deficient zone in transfer of organic carbon to the deep ocean. Limnol Oceanogr 46:1684–1690.
25. Escribano R, et al. (2004) Biological and chemical consequences of the 1997–1998 El Niño in the Chilean coastal upwelling system: A synthesis. Deep Sea Res Part II Top Stud Oceanogr 51:2389–2411.
26. Ward BB (2013) Oceans. How nitrogen is lost. Science 341:352–353.
27. Gilly WF, Beman JM, Litvin SY, Robison BH (2013) Oceanographic and biological effects of shoaling of the oxygen minimum zone. Annu Rev Mar Sci 5:393–420.
28. Revsbech NP, et al. (2009) Determination of ultra-low oxygen concentrations in oxygen minimum zones by the STOX sensor. Limnol Oceanogr Methods 7:371–381.
29. Lebaron P, Parthuisot N, Catala P (1998) Comparison of blue nucleic acid dyes for flow cytometric enumeration of bacteria in aquatic systems. Appl Environ Microbiol 64: 1725–1730.
30. Grégori G, Denis M, Seorbati S, Citterio S (2001) Resolution of viable and membrane-compromised free bacteria in aquatic environments by flow cytometry. Curr Protoc Cytom 11:11.15.1–11.15.7.
31. Tiano L, Garcia-Robledo E, Revsbech NP (2014) A new highly sensitive method to assess respiration rates and kinetics of natural planktonic communities by use of the switchable trace oxygen sensor and reduced oxygen concentrations. PLoS One 9: e105399.
32. Garcia-Robledo E, Borisov S, Klimant I, Revsbech NP (2016) Determination of respiration rates in water with sub-micromolar oxygen concentrations. Front Marine Sci 3:244.
33. Lehner P, et al. (2015) LUMOS—A sensitive and reliable optode system for measuring dissolved oxygen in the nanomolar range. PLoS One 10:e0128125.
34. Telling J, et al. (2010) Measuring rates of gross photosynthesis and net community production in cryoconite holes: A comparison of field methods. Ann Glaciol 51: 153–162.
35. Jassby A, Platt T (1976) Mathematical formulation of the relationship between photosynthesis and light for phytoplankton. Limnol Oceanogr 21:540–547.
36. Padilla CC, et al. (2016) NC10 bacteria in marine oxygen minimum zones. ISME J 10: 2067–2071.
37. Schmieder R, Lim YW, Edwards R (2012) Identification and removal of ribosomal RNA sequences from metatranscriptomes. Bioinformatics 28:433–435.
38. Buchfink B, Xie C, Huson DH (2015) Fast and sensitive protein alignment using DIAMOND. Nat Methods 12:59–60.
39. Kanehisa M, Goto S (2000) KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res 28:27–30.
40. Huson DH, Mitra S, Ruscheweyh H-J, Weber N, Schuster SC (2011) Integrative analysis of environmental sequences using MEGAN4. Genome Res 21:1552–1560.