The response of bacterial groups to changes in available iron in the Eastern subtropical Pacific Ocean

Journal of Experimental Marine Biology and Ecology

Volumn 348, Issue 1-2, 2007, Pages 11-22

  Eldridge, Melanie L ^a   Cadotte, Marc W ^b   Rozmus, Alison E ^a   Wilhelm, Steven W ^a  

^a UNIVERSITY OF TENNESSEE   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

'Equatorial Pacific'; Bacteria; Diversity; HNLC; Iron; T RFLP

Indexed keywords

ABUNDANCE; BEHAVIORAL RESPONSE; CHLOROPHYLL; COMMUNITY STRUCTURE; IRON; MICROBIAL COMMUNITY; PHYTOPLANKTON; SPECIES DIVERSITY; SPECIES RICHNESS;

PACIFIC OCEAN; PACIFIC OCEAN (EAST); PACIFIC OCEAN (EQUATORIAL);

BACTERIA (MICROORGANISMS);

EID: 34250890083     PISSN: 00220981     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jembe.2007.02.018     Document Type: Article

References (53)

1. Behrenfeld M.J., and Kolber Z.S. Widespread iron limitation of phytoplankton in the South Pacific Ocean. Science 283 (1999) 840-843
2. Boyd P.W., Watson A.J., Law C.S., Abraham E.R., Trull T., Murdoch R., Bakker D.C.E., Bowie A.R., Buesseler K.O., Chang H., Charette M., Croot P., Downing K., Frew R., Gall M., Hadfield M., Hall J., Harvey M., Jameson G., Laroche J., Liddicoat M., Ling R., Maldonado M.T., McKay R.M., Nodder S., Pickmere S., Pridmore R., Rintoul S., Safi K., Sutton P., Strzepek R., Tanneberger K., Turner S., Waite A., and Zeldis J. A mesoscale phytoplankton bloom in the polar Southern Ocean stimulated by iron fertilization. Nature 407 (2000) 695-702
3. Bruland K.W., Rue E.L., and Smith G.J. Iron and macronutrients in coastal upwelling regimes off central California: implications for extensive blooms of large diatoms. Limnol. Oceanogr. 46 (2001) 1661-1674
4. Butler A. Acquisition and utilization of transition metal ions by marine organisms. Science 281 (1998) 207-210
5. Chase J.M., and Leibold M.A. Ecological Niches: Linking Classical and Contemporary Approaches (2003), University of Chicago Press, Chicago
6. Chin K.J., Lukow T., Stubner S., and Conrad R. Structure and function of the methanogenic archaeal community in stable cellulose-degrading enrichment cultures at two different temperatures (15 °C and 30 °C). FEMS Microbiol. Ecol. 30 (1999) 313-326
7. Church M.J., Hutchins D.A., and Ducklow H.W. Limitation of bacterial growth by dissolved organic matter and iron in the Southern Ocean. Appl. Environ. Microbiol. 66 (2000) 455-466
8. Clement B.G., Kehl L.E., DeBord K.L., and Kitts C.L. Terminal restriction fragment patterns (TRFPs), a rapid, PCR-based method for the comparison of complex bacterial communities. J. Microbiol. Methods 31 (1998) 135-142
9. Coale K.H., Johnson K.S., Fitzwater S.E., Gordon R.M., Tanner S., Chavez F.P., Ferioli L., Sakamoto C., Rogers P., Millero F., Steinberg P., Nightingale P., Cooper D., Cochlan W.P., Landry M.R., Constantinou J., Rollwagen G., Trasvina A., and Kudela R. A massive phytoplankton bloom induced by an ecosystem-scale iron fertilization experiment in the equatorial Pacific Ocean. Nature 383 (1996) 495-501
10. Cochlan W.P. The heterotrophic bacterial response during a mesoscale iron enrichment experiment (IronEx II) in the eastern equatorial Pacific Ocean. Limnol. Oceanogr. 46 (2001) 428-435
11. Cottrell M.T., and Kirchman D.L. 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 (2000) 1692-1697
12. del Giorgio P.A., and Duarte C.M. Respiration in the open ocean. Nature 420 (2002) 379-384
13. Denaro R., D'Auria G., Di Marco G., Genovese M., Troussellier M., Yakimov M.M., and Giuliano L. Assessing terminal restriction fragment length polymorphism suitability for the description of bacterial community structure and dynamics in hydrocarbon-polluted marine environments. Environ. Microbiol. 7 (2005) 78-87
14. Ducklow H.W. Ocean biogeochemical fluxes: new production and export of organic matter from the upper ocean. Rev. Geophys. 33 (1995) 1271-1276 (Suppl)
15. Dunbar J., Ticknor L.O., and Kuske C.R. Phylogenetic specificity and reproducibility and new method for analysis of terminal restriction fragment profiles of 16S rRNA genes from bacterial communities. Appl. Environ. Microbiol. 67 (2001) 190-197
16. Eldridge M.L., Trick C.G., Alm M.B., DiTullio G.R., Rue E.L., Bruland K.W., Hutchins D.A., and Wilhelm S.W. Response of the marine phytoplankton community to a manipulation of bioavailable iron in HNLC waters of the subtropical Pacific Ocean. Aquat. Microb. Ecol. 34 (2004) 75-91
17. Hall T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41 (1999) 95-98
18. Hobbie J.E., Daley R.J., and Jasper S. Use of nucleopore filters for counting bacteria by fluorescence microscopy. Appl. Environ. Microbiol. 33 (1977) 1225-1228
19. Hutchins D.A. Iron and the marine phytoplankton community. Prog. Phycol. Res. 1 (1995) 1-48
20. Hutchins D.A., Campbell B.J., and Cottrell M.T. Response of marine bacterial community composition to iron additions in three iron-limited regimes. Limnol. Oceanogr. 46 (2001) 1535-1545
21. Hutchinson G.E. The paradox of the plankton. Am. Nat. 95 (1961) 137-145
22. Johnson D.E. Applied Multivariate Methods for Data Analysts (1998), Duxbury Press, Pacific Grove
23. Kaplan C.W., and Kitts C.L. Variation between observed and true terminal restriction fragment length is dependent on true TRF length and purine content. J. Microbiol. Methods 54 (2003) 121-125
24. Kaplan C.W., Astaire J.C., Sanders M.E., Reddy B.S., and Kitts C.L. 16S ribosomal DNA terminal restriction fragment pattern analysis of bacterial communities in feces of rats fed Lactobacillus acidophilus NCFM. Appl. Environ. Microbiol. 67 (2001) 1935-1939
25. Kemp P.F., and Aller J.Y. Bacterial diversity in aquatic and other environments: what 16S rDNA libraries can tell us. FEMS Microbiol. Ecol. 47 (2004) 161-177
26. Kirchman D.L., Meon B., Cottrell M.T., Hutchins D.A., Weeks D., and Bruland K.W. Carbon versus iron limitation of bacterial growth in the California upwelling regime. Limnol. Oceanogr. 45 (2000) 1681-1688
27. Kumar S., Tamura K., and Nei M. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief. Bioinform. 5 (2004) 150-163
28. Lane D.J. 16S/23S rRNA sequencing. In: Stackebrandt E., and Goodfellow M. (Eds). Nucleic Acid Techniques in Bacterial Systematics (1991), John Wiley & Sons, New York
29. Laws E.A., DiTullio G.R., Carder K.L., Betzer P.R., and Hawes S. Primary production in the deep blue sea. Deep Sea Res. 37 (1990) 715-730
30. Liu W., Marsh T.L., Cheng H., and Forney L.J. Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63 (1997) 4516-4522
31. Lukow T., Dunfield P.F., and Liesack W. Use of the T-RFLP technique to assess spatial and temporal changes in the bacterial community within an agricultural soil planted with transgenic and non-transgenic potato plants. FEMS Microbiol. Ecol. 32 (2000) 241-247
32. Marsh T.L. Culture-independent microbial community analysis with terminal restriction fragment length polymorphism. Methods Enzymol. 397 (2005) 308-329
33. Martin J.H., Coale K.H., Johnson K.S., Fitzwater S.E., Gordon R.M., Tanner S.J., Hunter C.N., Elrod V.A., Nowicki J.L., Coley T.L., Barber R.T., Lindley S., Watson A.J., Van Scoy K., Law C.S., Liddicoat M.I., Ling R., Stanton T., Stockel J., Collins C., Anderson A., Bidigare R., Ondrusek M., Latasa M., Millero F.J., Lee K., Yao W., Zhang J.Z., Friederich G., Sakamoto C., Chavez F., Buck K., Kolber Z., Greene R., Falkowski P., Chisholm S.W., Hoge F., Swift R., Yungel J., Turner S., Nightingale P., Hatton A., Liss P., and Tindale N.W. Testing the iron hypothesis in ecosystems of the equatorial Pacific Ocean. Nature 371 (1994) 123-129
34. McKay R.M.L., Wilhelm S.W., Hall J., Hutchins D.A., Mioni C.E., Al-Rshaidat M.M., Porta D., and Boyd P.W. The impact of phytoplankton on the biogeochemical cycling of Fe in sub Antarctic waters southeast of New Zealand: Observations from the FeCycle study. Glob. Biogeochem. Cycles 19 (2005) GB4S24 10.1029/2005GB002482
35. Mioni C.E., Handy S.M., Ellwood M.J., Twiss M.R., McKay R.M.L., Boyd P.W., and Wilhelm S.W. Tracking a natural shift in bioavailable Fe in a marine system: a first estimate using a heterotrophic bacterial bioreporters. Glob. Biogeochem. Cycles 19 (2005) GB4S25 10.1029/2005GB002476
36. Moeseneder M.M., Arrieta J.M., Muyzer G., Winter C., and Herndl G.J. Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 65 (1999) 3518-3525
37. Morita R.Y. Psychrophilic bacteria. Bacteriol. Rev. 39 (1975) 144-167
38. Naeem S., and Li S.B. Biodiversity enhances ecosystem reliability. Nature 390 (1997) 507-509
39. Osborn A.M., Moore E.R.B., and Timmis K. An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial community structure and dynamics. Environ. Microbiol. 2 (2000) 39-50
40. Pakulski J.D., Coffin R.B., Kelley C.A., Holder S.L., Downer R., Aas P., Lyons M.M., and Jeffrey W.H. Iron stimulation of Antarctic bacteria. Nature 383 (1996) 133-134
41. Poorvin L., Rinta-Kanto J.M., Hutchins D.A., and Wilhelm S.W. Viral release of Fe and its bioavailability to marine plankton. Limnol. Oceanogr. 49 (2004) 1734-1741
42. Sambrook J., and Russell D.W. Molecular Cloning: A Laboratory Manual. 3rd ed (2001), Cold Spring Harbor Press, Cold Spring Harbor
43. Thompson J.D., Higgins D.G., and Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22 (1994) 4673-4680
44. Tilman D., Knops J., Wedin D., Reich P., Ritchie M., and Siemann E. The influence of functional diversity and composition on ecosystem processes. Science 277 (1997) 1300-1302
45. Tortell P.D., Maldonado M.T., and Price N.M. The role of heterotrophic bacteria in iron-limited ocean ecosystems. Nature 383 (1996) 330-332
46. van der Maarel M.J.E.C., Artz R.R.E., Haanstra R., and Forney L.J. Association of marine Archea with the digestive tracts of two marine fish species. Appl. Environ. Microbiol. 64 (1998) 2894-2898
47. Weaver R.S., Kirchman D.L., and Hutchins D.A. Utilization of iron/organic ligand complexes by marine bacterioplankton. Aquat. Microb. Ecol. 31 (2003) 227-239
48. Weithoff G. The concepts of 'plant functional types' and 'functional diversity' in lake phytoplankton - a new understanding of phytoplankton ecology?. Freshw. Biol. 48 (2003) 1669-1675
49. Wells M. Manipulating iron availability in nearshore waters. Limnol. Oceanogr. 44 (1999) 1002-1008
50. Wilhelm S.W. The ecology of cyanobacteria in iron-limited environments: a review of physiology and implications for aquatic environments. Aquat. Microb. Ecol. 9 (1995) 295-303
51. Wilhelm S.W., and Trick C.G. Iron-limited growth of cyanobacteria: multiple siderophore production is a common response. Limnol. Oceanogr. 39 (1994) 1979-1984
52. Wohl D.L., Arora A., and Gladstone J.R. Functional redundancy supports biodiversity and ecosystem function in a closed and constant environment. Ecology 85 (2004) 1534-1540
53. Yachi S., and Loreau M. Biodiversity and ecosystem productivity in a fluctuating environment: the insurance hypothesis. Proc. Natl. Acad. Sci. U. S. A. 96 (1999) 1463-1468