Archaeal uptake of enantiomeric amino acids in the meso- and bathypelagic waters of the North Atlantic

Limnology and Oceanography

Volumn 51, Issue 1 I, 2006, Pages 60-69

  Teira, Eva ^a,b   Van Aken, Hendrik ^a   Veth, Cornelis ^a   Herndl, Gerhard J ^a  

^a ROYAL NETHERLANDS INSTITUTE FOR SEA RESEARCH   (Netherlands)

^b UNIVERSITY OF VIGO   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; BIOLOGICAL UPTAKE; NUTRIENT CYCLING; PROKARYOTE;

ATLANTIC OCEAN; ATLANTIC OCEAN (NORTH);

ARCHAEA; BACTERIA (MICROORGANISMS); CRENARCHAEOTA; EURYARCHAEOTA; PROKARYOTA;

EID: 32944469326     PISSN: 00243590     EISSN: None     Source Type: Journal    
DOI: 10.4319/lo.2006.51.1.0060     Document Type: Article

References (43)

1. AKEN, H. M. v. 2000a. The hydrography of the mid-latitude Northeast Atlantic ocean: I, the deep water masses. Deep-Sea Res. I 47: 757-788.
2. _. 2000b. The hydrography of the mid-latitude Northeast Atlantic ocean: II, the intermediate water masses. Deep-Sea Res. I 47: 789-824.
3. AMANN, R. I., W. LUDWIG, AND K. H. SCHLEIFER. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59: 143-169.
4. AMON, R. M. W., H.-P. FITZNAR, AND R. BENNER. 2001. Linkages among the bioreactivity, chemical composition, and diagenetic state of marine organic matter. Limnol. Oceanogr. 46: 287-297.
5. BANO, N., S. RUFFIN, B. RANSOM, AND J. T. HOLLIBAUGH. 2004. Phylogenetic composition of Arctic Ocean archaeal assemblages and comparison with Antarctic assemblages. Appl. Environ. Microbiol. 70: 781-789.
6. BOUVIER, T., AND P. A. DEL GIORGIO. 2003. Factors influencing the detection of bacterial cells using fluorescence in situ hybridization (FISH): A quantitative review of published reports. FEMS Microbiol. Ecol. 44: 3-15.
7. 2 upset the current balance? Science 278: 1582-1588.
8. CHURCH, M. J., E. F. DELONG, H. W. DUCKLOW, M. B. KARNER, C. M. PRESTON, AND D. M. KARL. 2003. Abundance and distribution of planktonic Archaea and Bacteria in the waters west of the Antarctic Peninsula. Limnol. Oceanogr. 48: 1893-1902.
9. COTTRELL, M. T., AND D. L. KIRCHMAN. 2000. Community composition of marine bacterioplankton determined by 16S rRNA gene clone libraries and fluorescence in situ hybridization. Appl. Environ. Microbiol. 66: 5116-5122.
10. AND _. 2003. Contribution of major bacterial groups to bacterial biomass production (thymidine and leucine incorporation) in the Delaware estuary. Limnol. Oceanogr. 48: 168-178.
11. CRUMP, B. C., AND J. A. BAROSS. 2000. Archaeaplankton in the Columbia River, its estuary and the adjacent coastal ocean, USA. FEMS Microbiol. Ecol. 31: 231-239.
12. DELONG, E. F., L. T. TAYLOR, T. L. MARSH, AND C. M. PRESTON. 1999. Visualization and enumeration of marine planktonic Archaea and Bacteria by using polyribonucleotide probes and fluorescent in situ hybridization. Appl. Environ. Microbiol. 65: 5554-5563.
13. _, K. Y. WU, B. B. PRÉZELIN, AND R. V. M. JOVINE. 1994. High abundance of Archaea in Antarctic marine picoplankton. Nature 371: 695-697.
14. DITTMAR, T., H. P. FITZNAR, AND G. KATTNER. 2001. Origin and biogeochemical cycling of organic nitrogen in the eastern Arctic Ocean as evident from D- and L-amino acids. Geochim. Cosmochim. Acta 65: 4103-4114.
15. DOBROLYUBOV, S. A., S. S. LAPPO, E. G. MOROZOV, AND A. V. SOKOV. 2003. Water transport through the Charlie-Gibbs fracture zone. Dokl.-Earth Sci. Sect. 391A: 903-905.
16. DUFOUR, P. H., AND J.-P. TORRÉTON. 1996. Bottom-up and top-down control of bacterioplankton from eutrophic to oligotrophic sites in the tropical northeastern Atlantic Ocean. Deep-Sea Res. I 43: 1305-1320.
17. FUHRMAN, J. 1987. Close coupling between release and uptake of dissolved free amino acids in seawater studied by an isotope dilution approach. Mar. Ecol. Prog. Ser. 37: 45-52.
18. GIOVANNONI, S., AND M. RAPPÉ. 2000. Evolution, diversity, and molecular ecology of marine prokaryotes, p. 47-84. In D. L. Kirchman [ed.], Microbial ecology of the oceans. Wiley-Liss.
19. HANSELL, D. A., AND C. A. CARLSON. 1998. Deep-ocean gradients of dissolved organic carbon. Nature 395: 443-453.
20. _, AND H. W. DUCKLOW. 2003. Bacterioplankton distribution and production in the bathypelagic ocean: Directly coupled to particulate organic carbon export? Limnol. Oceanogr. 48: 150-156.
21. HERNDL, G. J., T. REINTHALER, E. TEIRA, H. VAN AKEN, C. VETH, A. PERNTHALER, AND J. PERNTHALER. 2005. Contribution of Archaea to total prokaryotic production in the deep Atlantic Ocean. Appl. Environ. Microbiol. 71: 2303-2309.
22. KANDLER, O. 1994. Cell wall biochemistry in Archaea and its physical implications. J. Biol. Phys. 20: 165-169.
23. _, AND H. KONIG. 1998. Cell walls polymers in Archaea (Archaeabacteria). Cell Mol. Life Sci. 54: 305-308.
24. KARNER, M. B., E. F. DELONG, AND D. M. KARL. 2001. Archaeal dominance in the mesopelagic zone of the Pacific Ocean. Nature 409: 507-510.
25. LONG, Z., J. LEE, T. OKAMOTO, AND OTHERS. 2001. Occurrence of D-amino acids and a pyridoxal 5′-phosphate-dependent aspartate racemase in the acidothermophilic archaeon, Thermoplasma acidophilum. Biochem. Biophys. Res. Commun. 281: 317-321.
26. LÓPEZ-GARCÍA, P., A. LÓPEZ-LÓPEZ, D. MOREIRA, AND F. RODRÍGUEZ-VALERA. 2001. Diversity of free-living prokaryotes from a deep-sea site at the Antarctic Polar Front. FEMS Microbiol. Ecol. 36: 193-202.
27. MASSANA, R., L. T. TAYLOR, A. E. MURRAY, K. Y. WU, W. H. JEFFREY, AND E. F. DELONG. 1998. Vertical distribution and temporal variation of marine planktonic archaea in the Gerlache Strait, Anctartica, during early spring. Limnol. Oceanogr. 43: 607-617.
28. MATSUMOTO M., H. HOMMA, Z. LONG, AND OTHERS. 1999. Occurrence of free amino acids and aspartate racemases in hyperthermophilic archaea. J. Bacteriol. 181: 6560-6563.
29. MOESENEDER, M. M., C. WINTER, AND G. J. HERNDL. 2001. Horizontal and vertical complexity of attached and free-living bacteria of the eastern Mediterranean Sea, determined by 16S rDNA and 16S rRNA fingerprints. Limnol. Oceanogr. 46: 95-107.
30. NAGATA, T., H. FUKUDA, R. FUKUDA, AND I. KOIKE. 2000. Bacterioplankton distribution and production in deep Pacific waters: Large-scale geographic variations and possible coupling with sinking particle fluxes. Limnol. Oceanogr. 45: 426-435.
31. _, B. MEON, AND D. L. KIRCHMAN. 2003. Microbial degradation of peptidoglycan in seawater. Limnol. Oceanogr. 48: 745-754.
32. NAGATA, Y., T. FUJIWARA, K. KAWAGUCHI-NAGATA, Y. FUKUMORI, AND T. YAMANAKA. 1998. Occurrence of peptidyl D-amino acids in soluble fractions of several eubacteria, archaea and eukaryotes. Biochim. Biophys. Acta 1379: 76-82.
33. _, K. TANAKA, T. IIDA, AND OTHERS. 1999. Occurrence of D-amino acids in a few archaea and dehydrogenase activities in hyperthermophile Pyrobaculum islandicum. Biochim. Biophys. Acta 1435: 160-166.
34. OUVERNEY, C. C., AND J. A. FUHRMAN. 2000. Marine planktonic Archaea take up amino acids. Appl. Environ. Microbiol. 66: 4829-4833.
35. PATCHING, J. W., AND D. EARDLY. 1997. Bacterial biomass and activity in the deep waters of the eastern Atlantic - evidence of a barophilic community. Deep-Sea Res. I 44: 1655-1670.
36. PÉREZ, M. T., C. PAUSZ, AND G. J. HERNDL. 2003. Major shift in bacterioplankton utilization of enantiomeric amino acids between surface waters and the ocean's interior. Limnol. Oceanogr. 48: 755-763.
37. PERNTHALER, A., C. M. PRESTON, J. PERNTHALER, E. F. DELONG, AND R. AMANN. 2002. Comparison of fluorescently labeled oligonucleotide and polynucleotide probes for the detection of pelagic marine Bacteria and Archaea. Appl. Environ. Microbiol. 68:661-667.
38. SCHLEIFER, K. H., AND O. KANDLER. 1972. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol. Rev. 36: 407-477.
39. SUTTLE, C. A., A. M. CHAN, AND J. A. FUHRMAN. 1991. Dissolved free amino acids in the Sargasso Sea: Uptake and respiration rates, turnover times, and concentration. Mar. Ecol. Prog. Ser. 70: 189-199.
40. TANAKA, T., AND F. RASSOULZADEGAN. 2004. Vertical and seasonal variations of bacterial abundance and production in the mesopelagic layer of the NW Mediterranean Sea: Bottom-up and top-down controls. Deep-Sea Res. I 51: 531-544.
41. TEIRA, E., T. REINTHALER, A. PERNTHALER, J. PERNTHALER, AND G. J. HERNDL. 2004. Combining catalyzed reporter deposition-fluorescence in situ hybridization and microautoradiography to detect substrate utilization by Bacteria and Archaea in the deep ocean. Appl. Environ. Microbiol. 70: 4411-4414.
42. WILLIAMS, P. J. LEB. 2000. Heterotrophic bacteria and the dynamics of dissolved organic material, p. 153-200. In D. L. Kirchman [ed.], Microbial ecology of the oceans. Wiley-Liss.
43. YOHDA, M., I. ENDO, Y. ABE, T. OHTA, T. IIDA, T. MARUYAMA, AND Y. KAGAWA. 1996. Gene for aspartate racemase from the sulfur-dependent hyperthermophilic archaeum, Desulfurococcus strain SY. J. Biol. Chem. 271: 22,017-22,021.