Functional variation among polysaccharide-hydrolyzing microbial communities in the Gulf of Mexico

Marine Chemistry

Volumn 138-139, Issue , 2012, Pages 13-20

  Steen, Andrew D ^a   Ziervogel, Kai ^a   Ghobrial, Sherif ^a   Arnosti, Carol ^a  

^a University of North Carolina at Chapel Hill   (United States)

Author keywords

Extracellular enzymes; Gulf of Mexico; Microbial loop; Polysaccharides

Indexed keywords

BACTERIUM; BIOSPHERE; ENZYME ACTIVITY; GENOME; GLUCOSE; HYDROLYSIS; METABOLISM; MICROBIAL COMMUNITY; POLYSACCHARIDE; SHALLOW WATER; SPECIES DIVERSITY;

ATLANTIC OCEAN; GULF OF MEXICO;

BACTERIA (MICROORGANISMS);

EID: 84862607318     PISSN: 03044203     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.marchem.2012.06.001     Document Type: Article

References (46)

1. Alderkamp A.-C., van Rijssel M., Bolhuis H. Characterization of marine bacteria and the activity of their enzyme systems involved in degradation of the algal storage glucan laminarin. FEMS Microbiol. Ecol. 1997, 59:108-117.
2. Amon R.M.W., Benner R. Combined neutral sugars as indicators of the diagenetic state of dissolved organic matter in the Arctic Ocean. Deep-Sea Res. I 2003, 50:151-169.
3. Araki T., Hashikawa S., Morishita T. Cloning, sequencing, and expression in Escherichia coli of the new gene encoding b-1,3-xylanase from a marine bacterium, Vibrio sp. strain XY-214. Appl. Environ. Microbiol. 2000, 66(4):1741-1743.
4. Arnosti C. A new method for measuring polysaccharide hydrolysis rates in marine environments. Org. Geochem. 1996, 25(1-2):105-115.
5. Arnosti C. Fluorescent derivatization of polysaccharides and carbohydrate-containing biopolymers for measurement of enzyme activities in complex media. J. Chromatogr. B 2003, 793(1 SU):181-191.
6. Arnosti C. Microbial extracellullar enzymes and the marine carbon cycle. Ann. Rev. Mar. Sci. 2011, (3):401-425.
7. Arnosti C., Repeta D.J. Extracellular enzyme activity in anaerobic bacterial cultures: evidence of pullulanase activity among mesophilic marine bacteria. Appl. Environ. Microbiol. 1994, 60(3):840-846.
8. Arnosti C., Durkin S., Jeffrey W. Patterns of extracellular enzymatic activities among pelagic microbial communities: implications for cycling of dissolved organic carbon. Aquat. Microb. Ecol. 2005, 38:135-145.
9. Arnosti C., Steen A.D., Ziervogel K., Ghobrial S., Jeffrey W.H. Latitudinal gradients in degradation of marine dissolved organic carbon. PLoS One 2011, 6(12):e28900.
10. Baltar F., et al. Prokaryotic extracellular enzymatic activity in relation to biomass production and respiration in the meso- and bathypelagic waters of the (sub)tropical Atlantic. Environ. Microbiol. 2009, 11(8):1998-2014.
11. Baltar F., et al. High dissolved extracellular enzymatic activity in the deep central Atlantic Ocean. Aquat. Microb. Ecol. 2010, 58:287-302.
12. Bauer M., et al. Whole genome analysis of the marine Bacteroidetes Gramella forsetii reveals adaptations to degradation of polymeric organic matter. Environ. Microbiol. 2006, 8(12):2201-2213.
13. Benner R. Chemical composition and reactivity. Biogeochemistry of Dissolved Organic Matter 2002, 59-90. Academic Press, New York. D. Hansell, C.A. Carlson (Eds.).
14. Campbell B.J., Yu L., Heidelberg J.F., Kirchman D.L. Activity of abundant and rare bacteria in a coastal ocean. Proc. Natl. Acad. Sci. U. S. A. 2011, 108(31):12776-12781.
15. Carlson C.A., et al. Interactions among dissolved organic carbon, microbial processes, and community structure in the mesopelagic zone of the northwestern Sargasso Sea. Limnol. Oceanogr. 2004, 49(4):1073-1083.
16. Carlson C.A., et al. Dissolved organic carbon export and subsequent remineralization in the mesopelagic and bathypelagic realms of the North Atlantic basin. Deep-Sea Res. II Top. Stud. Oceanogr. 2010, 57(16):1433-1445.
17. DeLong E.F., Karl D.M. Genomic perspectives in microbial oceanography. Nature 2005, 437:336-342.
18. Elifantz H., Waidner L.A., Michelou V.K., Cottrell M.T., Kirchman D.L. Diversity and abundance of glycosyl hydrolase family 5 in the North Atlantic Ocean. FEMS Microbiol. Ecol. 2008, 63:316-327.
19. Fuhrman J.A., et al. A latitudinal diversity gradient in planktonic marine bacteria. Proc. Natl. Acad. Sci. U. S. A. 2008, 105(22):7774-7778.
20. Galand P.E., Casamayor E.O., Kirchman D.L., Lovejoy C. Ecology of the rare microbial biosphere. Proc. Natl. Acad. Sci. 2009, 106(52):22427-22432.
21. Glabe C.G., Harty P.K., Rosen S.D. Preparation and properties of fluroescent polysaccharides. Anal. Biochem. 1983, 130:287-294.
22. Glöckner F.O., et al. Complete genome sequence of the marine planctomycete Pirellula sp. strain 1. Proc. Natl. Acad. Sci. U. S. A. 2003, 100(14):8298-8303.
23. Herndl G.J., et al. Regulation of aquatic microbial processes: the 'microbial loop' of the sunlit surface waters and the dark ocean dissected. Aquat. Microb. Ecol. 2008, 53(1):59-68.
24. Hewson I., Steele J.A., Capone D.G., Fuhrman J.A. Temporal and spatial scales of variation in bacterioplankton assemblages of oligotrophic surface waters. Mar. Ecol. Prog. Ser. 2006, 311:67-77.
25. Hutcheson S., Zhang H., Suvorov M. Carbohydrase systems of Saccharophagus degradans degrading marine complex polysaccharides. Mar. Drugs 2011, 9:645-665.
26. Keith S.C., Arnosti C. Extracellular enzyme activity in a river-bay-shelf transect: variations in polysaccharide hydrolysis rates with substrate and size class. Aquat. Microb. Ecol. 2001, 24(3):243-253.
27. Kirchman D.L. Leucine incorporation as a measure of biomass production by heterotrophic bacteria. Handbook of Methods in Aquatic Microbial Ecology 1993, 509-512. Lewis Publishers, Washington, D.C. P.F. Kemp, B.F. Sherr, B.E. Sherr, J.J. Cole (Eds.).
28. Kirchman D.L., et al. Glucose fluxes and concentrations of dissolved combined neutral sugars (polysaccharides) in the Ross Sea and Polar Front Zone, Antarctica. Deep-Sea Res. II 2001, 48:4179-4197.
29. Kirchman D.L., Dittel A.I., Findlay S.E.G., Fischer D. Changes in bacterial activity and community structure in response to dissolved organic matter in the Hudson River, New York. Aquat. Microb. Ecol. 2004, 35:243-257.
30. Konstantinidis K.T., Braff J., Karl D.M., DeLong E.F. Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at Station ALOHA in the North Pacific subtropical gyre. Appl. Environ. Microbiol. 2009, 75(16):5345-5355.
31. Long R.A., Azam F. Microscale patchiness of bacterioplankton assemblage richness in seawater. Aquat. Microb. Ecol. 2001, 26:103-113.
32. McCarthy M., Hedges J.I., Benner R. Major biochemical composition of dissolved high molecular weight organic matter in seawater. Mar. Chem. 1996, 55:281-297.
33. Morris R.M., et al. Temporal and spatial response of bacterioplankton lineages to annual convective overturn at the Bermuda Atlantic Time-series Study site. Limnol. Oceanogr. 2005, 50(5):1687-1696.
34. Mou X., Sun S., Edwards R.A., Hodson R.E., Moran M.A. Bacterial carbon processing by generalist species in the coastal ocean. Nature 2008, 451:708-713.
35. Painter T.J. Algal Polysaccharides. The Polysaccharides 1983, 195-285. Academic Press, New York. G.O. Aspinall (Ed.).
36. Pakulski J.D., Benner R. Abundance and distribution of carbohydrates in the ocean. Limnol. Oceanogr. 1994, 39(4):930-940.
37. Rich J.H., Ducklow H.W., Kirchman D.L. Concentrations and uptake of neutral monosaccharides along 140°W in the equatorial Pacific: contribution of glucose to heterotrophic bacterial activity and the DOM flux. Limnol. Oceanogr. 1996, 41(6):595-604.
38. Skoog A., Benner R. Aldoses in various size fractions of marine organic matter: implications for carbon cycling. Limnol. Oceanogr. 1997, 42(8):1803-1813.
39. Skoog A., Biddanda B., Benner R. Bacterial utilization of dissolved glucose in the upper water column of the Gulf of Mexico. Limnol. Oceanogr. 1999, 44(7):1625-1633.
40. Sogin M.L., et al. Microbial diversity in the deep sea and the underexplored "rare biosphere". Proc. Natl. Acad. Sci. 2006, 103(32):12115-12120.
41. Steen A.D., Hamdan L.J., Arnosti C. Dynamics of dissolved carbohydrates in the Chesapeake Bay: insights from enzyme activities, concentrations, and microbial metabolism. Limnol. Oceanogr. 2008, 53(3):936-947.
42. Steen A.D., Ziervogel K., Arnosti C. Comparison of multivariate microbial datasets with the Shannon index: an example using enzyme activity from diverse marine environments. Org. Geochem. 2010, 41(9):1019-1021.
43. Wang X., Cai Y., Guo L. Preferential removal of dissolved carbohydrates during estuarine mixing in the Bay of Saint Louis in the northern Gulf of Mexico. Mar. Chem. 2010, 119:130-138.
44. Weiner R.M., et al. Complete genome sequence of the complex carbohydrate-degrading marine bacterium, Saccharophagus degradans strain 2-40(T). Plos Genet. 2008, 4(5):e1000087.
45. Yooseph S., et al. Genomic and functional adaptation in surface ocean planktonic prokaryotes. Nature 2010, 468(7320):60-66.
46. Ziervogel K., Steen A.D., Arnosti C. Changes in the spectrum and rates of extracellular enzyme activities in seawater following aggregate formation. Biogeosciences 2010, 7:1007-1015.