Single-cell analysis of bacterial growth, cell size, and community structure in the Delaware estuary

Aquatic Microbial Ecology

Volumn 34, Issue 2, 2004, Pages 139-149

  Cottrell, Matthew T ^a   Kirchman, David L ^a  

^a UNIVERSITY OF DELAWARE   (United States)

Author keywords

Cytophaga; Leucine; Microautoradiography; Proteobacteria; Thymidine

Indexed keywords

ALPHAPROTEOBACTERIA; BACTERIA (MICROORGANISMS); BETAPROTEOBACTERIA; CYTOPHAGA; PROTEOBACTERIA;

EID: 4143134295     PISSN: 09483055     EISSN: None     Source Type: Journal    
DOI: 10.3354/ame034139     Document Type: Article

References (59)

1. Amann RI, Binder BJ, Olson RJ, Chisholm SW, Devereux R, Stahl DA (1990) Combination of 16S ribosomal-RNA-targeted oligonucleotide probes with flow-cytometry for analyzing mixed microbial populations. Appl Environ Microbiol 56:1919-1925
2. Beardsley C, Pernthaler J, Wosniok W, Amann R (2003) Are readily culturable bacteria in coastal North Sea waters suppressed by selective grazing mortality? Appl Environ Microbiol 69:2624-2630
3. Bouvier TC, del Giorgio PA (2002) Compositional changes in free-living bacterial communities along a salinity gradient in two temperate estuaries. Limnol Oceanogr 47:453-470
4. Bouvier T, del Giorgio PA (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
5. Carman KR (1993) Microautoradiographic detection of microbial activity. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Handbook of methods in aquatic microbial ecology. Lewis Publishers, Boca Raton, FL, p 397-404
6. Chin-Leo G, Kirchman DL (1990) Unbalanced growth in natural assemblages of marine bacterioplankton. Mar Ecol Prog Ser 63:1-8
7. Cotner JB, Ammerman JW, Peele ER, Bentzen E (1997) Phosphorus-limited bacterioplankton growth in the Sargasso Sea. Aquat Microb Ecol 13:141-149
8. Cottrell MT, Kirchman DL (2000) Natural assemblages of marine proteobacteria and members of the Cytophaga-Flavobacter cluster consuming low- and high- molecular-weight dissolved organic matter. Appl Environ Microbiol 66:1692-1697
9. Cottrell MT, Kirchman DL (2003) Contribution of major bacterial groups to bacterial biomass production (thymidine and leucine incorporation) in the Delaware estuary. Limnol Oceanogr 48:168-178
10. Crump BC, Armbrust EV, Baross JA (1999) Phylogenetic analysis of particle-attached and free-living bacterial communities in the Columbia River, its estuary, and the adjacent coastal ocean. Appl Environ Microbiol 65:3192-3204
11. del Giorgio PA, Bouvier TC (2002) Linking the physiologic and phylogenetic successions in free-living bacterial communities along an estuarine salinity gradient. Limnol Oceanogr 47:471-486
12. Ducklow HW (2000) Bacterial production and biomass in the oceans. In: Kirchman DL (ed) Microbial ecology of the oceans. Wiley, New York, p 85-120
13. Eilers H, Pernthaler J, Amann R (2000a) Succession of pelagic marine bacteria during enrichment: a close look at cultivation-induced shifts. Appl Environ Microbiol 66:4634-4640
14. Eilers H, Pernthaler J, Glöckner FO, Amann R (2000b) Culturability and in situ abundance of pelagic bacteria from the North Sea. Appl Environ Microbiol 66:3044-3051
15. Fisher TR, Lee KY, Berndt H, Benitez JA, Norton MM (1998) Hydrology and chemistry of the Choptank River basin. Water Air Soil Pollut 105:387-397
16. Fuhrman JA, Noble RT (1995) Viruses and protists cause similar bacterial mortality in coastal seawater. Limnol Oceanogr 40:1236-1242
17. Fuhrman JA, Suttle CA (1993) Viruses in marine planktonic systems. Oceanography 6:50-62
18. Glöckner FO, Fuchs BM, Amann R (1999) Bacterioplankton compositions of lakes and oceans: a first comparison based on fluorescence in situ hybridization. Appl Environ Microbiol 65:3721-3726
19. Gonzalez JM, Sherr EB, Sherr BF (1990) Size-selective grazing on bacteria by natural assemblages of estuarine flagellates and ciliates. Appl Environ Microbiol 56:583-589
20. Gonzalez JM, Kiene RP, Moran MA (1999) Transformation of sulfur compounds by an abundant lineage of marine bacteria in the alpha-subclass of the class proteobacteria. Appl Environ Microbiol 65:3810-3819
21. Granger J, Price NM (1999) The importance of siderophores in iron nutrition of heterotrophic marine bacteria. Limnol Oceanogr 44:541-555
22. Hahn MW, Höfle MG (1999) Flagellate predation on a bacterial model community: interplay of size-selective grazing, specific bacterial cell size, and bacterial community composition. Appl Environ Microbiol 65:4863-4872
23. Hahn MW, Höfle MG (2001) Grazing of protozoa and its effect on populations of aquatic bacteria. FEMS Microbiol Ecol 35:113-121
24. Harvey HR, Mannino A (2001) The chemical composition and cycling of particulate and macromolecular dissolved organic matter in temperate estuaries as revealed by molecular organic tracers. Org Geochem 32:527-542
25. Hennes KP, Suttle CA, Chan AM (1995) Fluorescently labeled virus probes show that natural virus populations can control the structure of marine microbial communities. Appl Environ Microbiol 61:3623-3627
26. Hoch MP, Kirchman DL (1993) Seasonal and interannual variability in bacterial production and biomass in a temperate estuary. Mar Ecol Prog Ser 98:283-295
27. Hopkinson CS, Buffam I, Hobbie J, Vallino J and 11 others (1998) Terrestrial inputs of organic matter to coastal ecosystems: an intercomparison of chemical characteristics and bioavailability. Biogeochemistry 43:211-234
28. Hutchins DA, Campbell BJ, Cottrell MT, Takeda S (2001) Response of marine bacterial community composition to iron additions in three iron-limited regimes. Limnol Oceanogr 46:1535-1545
29. Jürgens K, Güde H (1994) The potential importance of grazing-resistant bacteria in planktonic systems. Mar Ecol Prog Ser 112:169-188
30. Jürgens K, Arndt H, Rothhaupt KO (1994) Zooplankton-mediated changes of bacterial community structure. Microb Ecol 27:27-42
31. Karner M, Fuhrman JA (1997) Determination of active marine bacterioplankton: a comparison of universal 16S rRNA probes, autoradiography, and nucleoid staining. Appl Environ Microbiol 63:1208-1213
32. Kim G, Scudlark JR, Church TM (2000) Atmospheric wet deposition of trace elements to Chesapeake and Delaware bays. Atmos Environ 34:3437-3444
33. Kirchman DL (2002) The ecology of Cytophaga-Flavobacteria in aquatic environments. FEMS Microbiol Ecol 39:91-100
34. Kirchman DL, Meon B, Cottrell MT, Hutchins DA, Weeks D, Bruland KW (2000) Carbon versus iron limitation of bacterial growth in the California upwelling regime. Limnol Oceanogr 45:1681-1688
35. Kirchman DL, Yu LY, Cottrell MT (2003) Diversity and abundance of uncultured Cytophaga-like bacteria in the Delaware estuary. Appl Environ Microbiol 69:6587-6596
36. Malmstrom RR, Kiene RP, Kirchman DL (in press) Identification and enumeration of bacteria assimilating dimethylsulfoniopropionate (DMSP) in the North Atlantic and Gulf of Mexico. Limnol Oceanogr
37. Manz W, Amann R, Ludwig W, Wagner M, Schleifer KH (1992) Phylogenetic oligodeoxynucleotide probes for the major subclasses of proteobacteria - problems and solutions. Syst Appl Microbiol 15:593-600
38. Manz W, Amann R, Ludwig W, Vancanneyt M, Schleifer KH (1996) Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum Cytophaga-Flavobacter-Bacteroides in the natural environment. Microbiology 142:1097-1106
39. Martinez J, Smith DC, Steward GF, Azam F (1996) Variability in ectohydrolytic enzyme activities of pelagic marine bacteria and its significance for substrate processing in the sea. Aquat Microb Ecol 10:223-230
40. Morita RY (1997) Bacteria in oligotrophic environments: starvation-survival lifestyle, Chapman & Hall, New York
41. Murray AG, Jackson GA (1992) Viral dynamics - a model of the effects of size, shape, motion and abundance of single-celled planktonic organisms and other particles. Mar Ecol Prog Ser 89:103-116
42. Paerl HW, Zehr JP (2000) Marine nitrogen fixation. In: Kirchman DL (ed) Microbial ecology of the oceans. Wiley, New York, p 387-426
43. Pernthaler J, Sattler B, Simek K, Schwarzenbacher A, Psenner R (1996) Top-down effects on the size-biomass distribution of a freshwater bacterioplankton community. Aquat Microb Ecol 10:255-263
44. Pernthaler J, Posch T, Simek K, Vrba J and 5 others (2001) Predator-specific enrichment of actinobacteria from a cosmopolitan freshwater clade in mixed continuous culture. Appl Environ Microbiol 67:2145-2155
45. Ruimy R, Breittmayer V, Boivin V, Christen R (1994) Assessment of the state of activity of individual bacterial cells by hybridization with a ribosomal-RNA-targeted fluorescently labeled oligonucleotide probe. FEMS Microbiol Ecol 15:207-213
46. Sherr BF, Sherr EB, McDaniel J (1992) Effect of protistan grazing on the frequency of dividing cells in bacterioplankton assemblages. Appl Environ Microbiol 58:2381-2385
47. Sieracki ME, Viles CL, Webb KL (1989) Algorithm to estimate cell biovolume using image analyzed microscopy. Cytometry 10:551-557
48. Šimek K, Vrba J, Pernthaler J, Posch T, Hartman P, Nedoma J, Psenner R (1997) Morphological and compositional shifts in an experimental bacterial community influenced by protists with contrasting feeding modes. Appl Environ Microbiol 63:587-595
49. Šimek K, Pernthaler J, Weinbauer MG, Hornak K, Dolan JR, Nedoma J, Masin M, Amann R (2001) Changes in bacterial community composition and dynamics and viral mortality rates associated with enhanced flagellate grazing in a mesoeutrophic reservoir. Appl Environ Microbiol 67:2723-2733
50. Strom SL (2000) Bacterivory: interactions between bacteria and their grazers. In: Kirchman DL (ed) Microbial ecology of the oceans. Wiley, New York, p 351-386
51. Tabor PS, Neihof RA (1984) Direct determination of activities for microorganisms of Chesapeake Bay populations. Appl Environ Microbiol 48:1012-1019
52. Tortell PD, Maldonado MT, Granger J, Price NM (1999) Marine bacteria and biogeochemical cycling of iron in the oceans. FEMS Microbiol Ecol 29:1-11
53. Ward BB (1996) Nitrification and denitrification: probing the nitrogen cycle in aquatic environments. Microb Ecol 32:247-261
54. Ward BB (2000) Nitrification and the marine nitrogen cycle. In: Kirchman DL (ed) Microbial ecology of the oceans. Wiley, New York, p 426-454
55. Weinbauer MG, Höfle MG (1998a) Significance of viral lysis and flagellate grazing as factors controlling bacterioplankton production in a eutrophic lake. Appl Environ Microbiol 64:431-438
56. Weinbauer MG, Höfle MG (1998b) Size-specific mortality of lake bacterioplankton by natural virus communities. Aquat Microb Ecol 15:103-113
57. Wommack KE, Colwell RR (2000) Virioplankton: viruses in aquatic ecosystems. Microbiol Mol Biol Rev 64:69-114
58. Zarda B, Hahn D, Chatzinotas A, Schonhuber W, Neef A, Amann RI, Zeyer J (1997) Analysis of bacterial community structure in bulk soil by in situ hybridization. Arch Microbiol 168:185-192
59. Zubkov MV, Fuchs BM, Archer SD, Kiene RP, Amann R, Burkill PH (2001) Linking the composition of bacterioplankton to rapid turnover of dissolved dimethylsulphoniopropionate in an algal bloom in the North Sea. Environ Microbiol 3:304-311