PLUM ISLAND ECOSYSTEMS PUBLICATIONS
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PLUM ISLAND ECOSYSTEMS (PIE)
PUBLICATIONS TO DATE: Last updated February 4, 2002
Alderman, D., B.
Balsis, I.D. Buffam, R.H. Garritt, C.S. Hopkinson and J.J. Vallino. 1995.
Pelagic metabolism in the Parker River/Plum Island Sound Estuarine System.
Biological Bulletin 189:250-251
Allee, R.J., D. Brown, L. Deegan, M. Dethier,
R.G. Ford, T.F. Hourigan, J. Maragos, C. Schoch, K. Sealey, R. Twilley, M.P.
Weinstein, and M. Yoklavich. 2000. Marine
and Estuarine Ecosystem and Habitat Classification. U.S. Department of Commerce, National Oceanic and Atmospheric
Administration, National Marine Fisheries Service. NOAA Technical Memorandum NMFS-FSPO-43.
Balsis, B., D. Alderman, I.D. Buffam, R.H.
Garritt, C.S. Hopkinson and J.J. Vallino. 1995. Total system metabolism in the
Plum Island Sound estuary. Biol. Bull. 189:252-254.
Bredensteiner, K. C., C. J. Vorosmarty, W.
Wollheim, T. L. III, and E. Penfold. Submitted. Estimation of snowpack nutrient
storage and its role in seasonal nutrient flux to the Gulf of Maine coastal
zone. Estuaries.
Buchsbaum,
R.N. 1996. Resource protection in the Plum Island Sound/Rivers Ecosystem. Final
Project Report of the Plum Island Sound Minibay Project of the Massachusetts
Bay Program.
Buchsbaum, R., A. Cooper and J. LeBlanc.
1999. Conserving the Plum Island Sound/Rivers Ecosystem - A research
report and management plan. Produced
for the Massachusetts Bays Program and the Towns of Ipswich, Rowley and Newbury
by Massachusetts Audubon: North Shore Conservation Advocacy. 31 p.
Burgess,
P. 1999. Conservation and development in conflict. MS. Clark University.
Canfield,
S., L. Claessens, C. Hopkinson Jr., E. Rastetter and J. Vallino. 1999.
Long-term effect of municipal water use on the water budget of the
Ipswich River basin. Biol. Bull.
197:295-297.
Carini, S.S., N.B. Weston, C.S. Hopkinson, J.
Tucker, A.E. Giblin and J.J. Vallino. 1996. Gas exchange rates in the Parker
River estuary, Massachusetts. Biol. Bull. 191:333-334.
Chiaravalle, K., J.
Hughes, R. Javonillo, and L. Deegan.
1997. Tidal river riffle
habitats support high diversity and abundance of Gammaridean amphipods. Biol. Bull. 192:283-285.
Deegan, L.A.
1993. Nutrient and energy transport between estuaries and coastal marine
ecosystems by fish migration. Canadian J. Fish. Aquatic Sci. 50:74-79.
Deegan, L.A., J.
Finn, C.S. Hopkinson, B.J. Peterson, A.E. Giblin, B. Fry and J. Hobbie. 1995.
Flow model analysis of the effects of organic matter-nutrient interactions on
estuarine trophic dynamics. In- Dyer, K. and R. Orth (eds.), International
Symposium Series, Changes in fluxes in estuaries: implications from science to
management. Olsen and Olsen Publ., Fredensborg, DK. pages 273-281.
Deegan, L.A. and R.N. Buchsbaum. 1996. The
effect of habitat loss and degradation on fisheries. In: Buchsbaum, R.N., W.E.
Robinson, and J. Pederson (eds). The decline of fisheries resources in New
England: Evaluating the impact of overfishing, contamination, and habitat
degradation. Massachusetts Bays Program, University of Massachusetts Press.
Deegan, L.A. and Garritt, R.H. 1997. Evidence
for spatial variability in estuarine food webs. Mar. Ecol. Prog. Ser.
147:31-47.
Deegan, L.A., J.T. Finn, S.G. Ayvazian, C.A.
Ryder and J. Buonaccorsi. 1997. Development and validation of an estuarine
biotic integrity index. Estuaries. 20:601-617.
Deegan, L. A., and R.
N. Buchsbaum. The Effect of Habitat
Loss and Degradation on Fisheries. 1998.
In: R. N. Buchsbaum, W. E.
Robinson and J. Pederson (eds.), The decline of fisheries resources in New
England: Evaluating the impact of overfishing, contamination, and habitat
degradation. Mass. Bays Program. University of Massachusetts Press. In press.
Deegan , L.A., A.
Wright, J. Hughes, and E. Boynton. 1999. "Establishing the Food Web Links
Between Estuaries and Nearshore Fisheries of New England" NOAA Final
Report NA 76 FD 0106. 26 pp.
Deegan, L.A., J.E. Hughes, and R.A. Rountree.
2000. Salt marsh ecosystem support of marine transient species, pages 333 –
365. In- M. Weinstein and J. Kreeger (eds), Concepts and Controversies in Tidal
Marsh Ecology. Kluwer Academic Publisher, The Netherlands.
Deegan,
L. A., J. Kremer, T. Webler, and J. Brawley. 2001. The use of models in
integrated resource management in the coastal zone. In - Von Bodungen, B., and R. K. Turner
(eds.), Science and Integrated Coastal
Management. Berlin: Dahlem University
Press, in press.
Emeis, K.C., J.R. Benoit, L. Deegan, A.J. Gilbert, V. Lee, J.M. Glade, M.
Meybeck, S.B. Olsen, and B. von Bodungen.
Group 4: Unifying Concepts for
Integrated Coastal Management. In: Von Bodungen, B., and R. K. Turner,
eds. 2001. Science and Integrated Coastal Management Berlin: Dahlem University Press, in press.
Fisher, T. R., D. Correll, R. Costanza, J.
Hollibaugh, C. Hopkinson, R. Howarth, N. Rabalais, J. Richey, C. Vörösmarty and
R. Wiegert. 2000. Synthesizing drainage basin inputs to
coastal systems, pages 81-106. In – J. Hobbie (ed.)., Estuarine Science, a
synthetic approach to research and practice. Island Press, Washington, D.C. 539
p.
Fry, B., C.S. Hopkinson, A.L. Nolin and S.
Wainright. 1998. 13C/12C composition of marine dissolved organic carbon.
Chemical Geology. 152:113-118.
Fry, B., S. Saupe, M.A.J.
Hullar and B. J. Peterson. 1993. Platinum-catalyzed combustion of DOC in sealed
tubes for stable isotopic analysis. Marine Chemistry 41:187-193.
Fry, B., C.S. Hopkinson, A.L. Nolin, B.
Norrman and U. Zweifel. 1996. Long term decomposition of DOC from experimental
diatom blooms. Limnol. Oceanogr. 41:1344-1347.
Fry, B., E. Peltzer, C.S. Hopkinson, A.L.
Nolin and L. Redmond. 1996. Analysis of marine DOC using a reference dry
combustion method. Marine Chemistry 54:191-201.
Geyer, W. R., J. Morris, F. Prahl and D.
Jay. 2000. Interaction between physical processes and ecosystem structure: a
comparative approach, pages 177-210. In – J. Hobbie (ed.)., Estuarine Science,
a synthetic approach to research and practice. Island Press, Washington, D.C.
539 p.
Giblin, A.E.,
K.H. Foreman, and G.T. Banta. 1994. Biogeochemical processes and marine benthic
community structure, pages 37-44. In: Jones, C.G. and J.H. Lawton (eds.),
Linking Species and Ecosystems. Chapman and Hall, New York.
Giblin, A. E., N. Weston, G. Banta,
C. S. Hopkinson, and J. Tucker. In prep. The effect of salinity on nitrogen
dynamics in estuarine sediments.
Greenbaum,
A., and A. Giblin. 2000. Differences in properties of salt marsh sediment
between hayed and reference sites. Biol. Bull. 199(2):225-226.
Greenbaum, A. H. 2001. Long-term
fate of heavy metals in sediments of a Massachusetts salt marsh. Honors Thesis.
Wellesley College, Wellesley, MA.
Hansson, S., J.E. Hobbie, R. Elmgren, U.
Larsson, B. Fry and S. Johansson. 1997. The stable nitrogen isotope ratio as a
marker of food-web interactions and fish migration. Ecology. 78:2249-2257.
Hobbie, J.E. 1994. The state of the microbes:
a summary of a symposium honoring Lawrence Pomeroy. Microbial Ecology
28:113-116.
Hobbie, J.E.
2000. Estuarine Science, a
synthetic approach to research and practice. Island Press, Washington, D.C. 539
p.
Hobbie, J.E.
2000. Estuarine science: the key
to progress in coastal ecological research, pages 1-16. In – J. Hobbie (ed.).,
Estuarine Science, a synthetic approach to research and practice. Island Press,
Washington, D.C. 539 p.
Hobbie, J.E., S. Johansson, U. Larsson, and
B. Fry. Microbial use of DOC from land and sea. Manuscript in revision.
Holmes, R.M., A. Aminot, R. Kerouel, B.A.
Hooker and B.J. Peterson. 1999. A simple and precise method for measuring
ammonium in marine and freshwater ecosystems.
Can. J. Fish. Aq. Sci. 56:1801-1808.
Holmes,
R.M., B.J. Peterson, L. Deegan, J. Hughes, and B. Fry. 2000. Nitrogen
biogeochemistry in the oligohaline zone of a New England estuary. Ecology
81(2):416-432.
Hopkinson, C.S.
1992. A comparison of ecosystem dynamics in freshwater wetlands. Estuaries
15(4):549-562.
Hopkinson, C.S., L. Cifuentes, D. Burdige, S.
Fitzwater, D. Hansell, S. Henrichs, P. Kähler, I. Koike, T. Walsh and B.
Bergamaschi. 1993. The DON Controversy - A report. Marine Chemistry 41:23-36.
Hopkinson, C.S.,
and J.J. Vallino. 1994. Towards the development of generally-applicable models
of the microbial loop in aquatic ecosystems. Microbial Ecology 28(2):321-326.
Hopkinson, C.S.,
and J.J. Vallino. 1995. The relationship among man's activities in watersheds
and estuaries: a model of runoff effects on estuarine community metabolism.
Estuaries 18:598-621.
Hopkinson, C.S., B. Fry, and A.L.Nolin. 1997.
Stoichiometry of dissolved organic matter dynamics on the continental shelf of
the Northeastern U.S.A. Continental Shelf Research. 17:473-489.
Hopkinson, C.S., I. Buffam, J. Hobbie, J.
Vallino, M. Perdue, B. Eversmeyer, F. Prahl, J. Covert, R. Hodson, M.A. Moran,
E. Smith, J. Baross, B. Crump, S. Findlay, and D. Foreman. 1998. Terrestrial
inputs of organic matter to coastal ecosystems: an intercomparison of chemical
characteristics and bioavailability. Biogeochemistry. 43:211-234.
Hopkinson, C. S., A. E. Giblin,R.H. Garritt,
J. Tucker, and M.A.J. Hullar. 1998. The influence of the benthic boundary layer
on growth of pelagic bacteria. Aquat. Microb. Ecol. 16:109-118.
Hopkinson, C.S., A.E. Giblin, J. Tucker, and
R.H. Garritt. 1999. Benthic metabolism and nutrient cycling along an estuarine
salinity gradient. Estuaries 22(4):825-843.
Hopkinson, C. S., A. E. Giblin, and J. Tucker. 2001. Benthic metabolism and nutrient regeneration on the continental shelf off eastern Massachusetts, USA. Marine Ecology Progress Series.
Horowitz, J. 2001. Stable isotopic analysis of food webs in hayed and reference salt marshes. Honors Thesis. Hampshire College.
Howarth, R.W., D. Anderson, T. Church, H.
Greening, C. Hopkinson, W. Huber, N. Marcus, R. Naiman, K. Segerson, A.
Sharpley and W. Wiseman - Committee on the Causes and Management of Coastal
Eutrophication. 2000. Clean Coastal
Waters – Understanding and reducing the effects of nutrient pollution. Ocean
Studies Board and Water Science and Technology Board, Commission on
Geosciences, Environment, and Resources, National Research Council. National
Academy of Sciences, Washington, D.C. 405 p.
Hughes, J.E., L.A. Deegan, B.J.
Peterson, R.M. Holmes, and B. Fry. 2000. Nitrogen flow through the flood web in the
oligohaline zone of a New England estuary.
Ecology. 81:433-452.
Hullar, M. A. J., B. Fry, B. J. Peterson and
R. T. Wright. 1996. Microbial utilization of estuarine dissolved organic
carbon: a stable isotope tracer approach tested by mass balance. Applied and
Environmental Microbiology 62:2489-2493.
Ingram, K., C. S. Hopkinson, K. Bowman, R.H.
Garritt and J.J. Vallino. 1994. From watershed to estuary: assessment of
nutrient loading, retention and export from the Ipswich River Basin. Biol.
Bull. 187:277-278.
Javonillo, R., L.
Deegan, K. Chiarvalle, and J. Hughes.
1997. The importance of access
to salt-marsh surface to short-term growth of Fundulus heteroclitus in a New
England salt marsh. Biol. Bull. 193:288-289.
Jay, D.A., R.J. Uncles, J. Largier, W.R.
Geyer, J.J. Vallino and W.R. Boynton. 1997 A Review of Recent Developments in
Estuarine Scalar Flux Estimation. Estuaries. 20: 262-280.
Kirkby, R.,
L. Claessens, C. Hopkinson Jr., E. Rastetter, and J. Vallino. 2000. Modeling
the effects of land-use change on nitrogen biogeochemistry in the Ipswich
watershed, Massachusetts. Biol. Bull. 199(2):218-219.
Komarow, S., T. Young, L. Deegan and R.
Garritt. 1999. Influence of marsh flooding on the abundance
and growth of Fundulus heteroclitus
in salt marsh creeks. Biol. Bull.
197:299-300.
Kremer, J., W. Kemp, A. Giblin, I. Valiela,
S. Seitzinger and E. Hoffman.
2000. Linking biogeochemical processes
to higher trophic levels, pages 299-346. In – J. Hobbie (ed.)., Estuarine
Science, a synthetic approach to research and practice. Island Press,
Washington, D.C. 539 p.
Krest, J.M., W.S. Moore, L.R.
Gardner, and J.T. Morris. 2000. Marsh nutrient export supplied by ground water
discharge: Evidence from radium measurements.
Global Biogeochemical Cycles 14:167-176.
Lim, E. L., D. Caron and E. DeLong. 1996.
Development and field application of a quantitative method for examining
natural assemblages of protists with oligonucleotide probes. Applied and
Environmental Microbiology 62:1416-1423.
Menard, S. 1999. Land-use change
and regional growth in the Ipswich watershed basin. MS. Clark University.
Mendelssohn, I.A. and J.T.
Morris. 2001. Ecophysiological controls on the growth of Spartina alterniflora. In:
Concepts and Controversies in Tidal Marsh Ecology, N.P. Weinstein and D.A.
Kreeger (eds.), Kluwer Academic Publishers.
Monaghan, E. and A.E. Giblin. 1995. The
effects of coupling between the oxic and anoxic layers of sediment on nutrient
release to overlying water. Biol. Bull. 187:288-289.
Mondrup, T.
1999. Salinity effects on
nitrogen dynamics in estuarine sediment investigated by a plug-flux
method. Biol. Bull. 197:287-288.
Mondrup,
T. 2000. Salinity effects on tolerance and adaptation of estuarine nitrifying
bacteria investigated by a plug-flux method. MS. Roskilde University (Denmark).
Morlock, S., D. Taylor, A. Giblin, C.
Hopkinson and J. Tucker. 1997. Effect of salinity on the fate of inorganic
nitrogen in sediments of the Parker River Estuary, Massachusetts. Biol. Bull.
193:290-292.
Morris, J.T. 2000. Effects of sea
level anomalies on estuarine processes.
Pp. 107-127. In: J. Hobbie (ed.), Estuarine Science: A Synthetic
Approach to Research and Practice. Island Press. 539 pp.
Morris, J.T., P.V. Sundareshwar,
C.T. Nietch, B. Kjerfve, D.R. Cahoon. Homeostatic response of coastal wetlands
to rising relative sea level. Submitted.
Normann, B., U.
Zweifel, C.S. Hopkinson and B. Fry. 1995. Production and utilization of
dissolved organic carbon during an experimental bloom. Limnology and
Oceanography 40:898-907.
Pease, K.M., L. Claessens, C. Hopkinson, E.
Rastetter, J. Vallino and N. Kilham.
1999. Ipswich River nutrient
dynamics: Preliminary assessment of a simple nitrogen-processing model. Biol. Bull. 197:289-290.
Perring, A., M. Williams, C.
Hopkinson Jr., E. Rastetter, and J. Vallino. 2000. Solute dynamics in storm
flow of the Ipswich River Basin: effects of land use. Biol. Bull.
199(2):219-221.
Peterson, B.J.,
B. Fry, M.A.J. Hullar, S. Saupe and R.T. Wright. 1994. The distribution and
stable isotopic composition of dissolved organic carbon in estuaries. Estuaries
17:111-121.
Peterson, B.J. 1999. Stable isotopes as tracers of organic matter
input and transfer in benthic food webs: A review. Acta. Oecologia. 20:479-487.
Pontius Jr, R.G., L. Claessens,
C. Hopkinson Jr, A. Marzouk, E.B. Rastetter, L.C. Schneider, and J. Vallino.
2000. Scenarios of land-use
change and nitrogen release in the Ipswich watershed, Massachusetts, USA. In- Parks, B.O., K.M. Clarke, M.P. Crane, (eds.) Proceedings
of the 4th International Conference on Integrating Geographic Information
Systems and Environmental Modeling: Problems, Prospects, and Needs for
Research. University of Colorado, Cooperative Institute for Research in
Environmental Science, Boulder, CO.
Pontius, R. G. J. 2000.
Quantification error versus location error in comparison of categorical maps.
Photogrammetric Engineering & Remote Sensing 66:1011-1016.
Pontius, R. G. J., and L.
Schneider. 2001. Land-use change model validation by a ROC method for the Ipswich
watershed, Massachusetts, USA. Agriculture, Ecosystems & Environment
85:239-248.
Portnoy, J.W. and A.E. Giblin. 1997.
Biogeochemical effects of seawater restoration to diked salt marshes.
Ecological Applications. 7:1054-1063.
Portnoy, J.W. and A.E. Giblin. 1997. Effects
of historic tidal restrictions on salt marsh sediment chemistry.
Biogeochemistry. 36:275-303.
Raymond, P.A. and J.E. Bauer. 2000. Bacterial
utilization and transport of DOC in a temperate estuary: implications for
export to the coastal ocean. Aquat.
Microb. Ecol. 22:1-12
Raymond, P. A., J. E. Bauer, and J.
J. Cole. 2000. Atmospheric CO2 evasion, dissolved inorganic carbon production,
and net heterotrophy in the York River Estuary. Limnology and Oceanography 45:1707-1717.
Raymond, P. A., and J. E. Bauer.
2001. Riverine export of aged terrestrial organic matter to the North Atlantic
Ocean. Nature 409:497-500.
Raymond, P. A., and J. J. Cole.
2001. Gas exchange in rivers and estuaries: Choosing a gas transfer velocity.
Estuaries 24:269-274.
Raymond, P. A., and J. E. Bauer.
2001. DOC cycling in a temperate estuary: A mass balance approach using natural
14C and 13C isotopes. Limnology and Oceanography 46:655-667.
Raymond, P. A., and J. E. Bauer.
2001. Use of 14C and 13C natural abundances for evaluating riverine, estuarine,
and coastal DOC and POC sources and cycling: Review and Synthesis. Organic
Chemistry 32:469-485.
Schmitt,
C., N. Weston and C. Hopkinson. 1998. A preliminary evaluation of sedimentation
rates and species distribution in Plum Island Estuary, Massachusetts. Biol.
Bull. 195:232-233.
Schneider, L., and J. R. G.
Pontius. 2001. Modeling land-use change in the Ipswich watershed,
Massachusetts, USA. Agriculture, Ecosystems & Environment 85:83-94.
Seitzinger, S.P. and A.E. Giblin. 1996.
Estimating denitrification in North Atlantic continental shelf sediments.
Biogeochemistry 35:235-260.
Simenstad,C., S. Brandt, A. Chalmers, R.
Dame, L. Deegan, R. Hodson and E. Houde.
2000. Habitat-biotic interactions,
pages 427-460. In – J. Hobbie (ed.)., Estuarine Science, a synthetic approach
to research and practice. Island Press, Washington, D.C. 539 p.
Sweeney, J., L. Deegan and R. Garritt. 1998.
Population size and site fidelity of Fundulus heteroclitus in a macrotidal
saltmarsh creek. Biological Bulletin 195:238-239.
Tobias, C. R., S. A. Macko, I. C.
Anderson, E. A. Canuel, and J. W. Harvey. In press. Tracking the fate of a high
concentration groundwater nitrate plume through a fringing marsh: A combined
groundwater tracer and in situ isotope
enrichment study. Limnology and Oceanography.
Uhlenhopp, A. G., J.E. Hobbie and J.J.
Vallino. 1995. Effects of land use on the degradability of dissolved organic matter
in three watersheds of the Plum Island Sound estuary. Biol. Bull. 189:256-257.
Vallino, J.J., and G. Stephanopoulos. 1993.
Metabolic flux distributions in Corynebacterium glutamicum during growth and
lysine production. Biotechnology and Bioengineering 41:633-646.
Vallino, J.J.,
C.S. Hopkinson, and J.E. Hobbie. 1996. Modeling bacterial utilization of
dissolved organic matter: Optimization replaces Monod growth kinetics. Limnol.
Oceanogr. 41:1591-1609.
Vallino, J.J. and C.S. Hopkinson. 1998.
Estimation of dispersion and characteristic mixing times in Plum Island Sound
Estuary. Estuarine, Coastal and Shelf Science 46:333-350.
Vallino, J.J. 2000. Improving marine ecosystem models: use of data assimilation and
mesocosm experiments. J. Mar. Res. 58: 117-164.
Vörösmarty, C.J., C. Li, J. Sun, and Z. Dai.
1998. Emerging impacts of anthropogenic change on global river systems: The
Chinese example. In: J. Galloway and J. Melillo (eds.), Asian Change in the
Context of Global Change: Impacts of Natural and Anthropogenic Changes in Asia
on Global Biogeochemical Cycles, pp. 210-44. Cambridge: Cambridge
University Press.
Vörösmarty,
C. and B. Peterson. 2000. Macro-scale models of water and nutrient
flux to the coastal zone, pages 43-80. In – J. Hobbie (ed.)., Estuarine
Science, a synthetic approach to research and practice. Island Press,
Washington, D.C. 539 p.
Wainright, S. C. and C. S. Hopkinson. 1997.
Effects of sediment resuspension on organic matter processing in coastal
environments: a simulation model. J. Marine Systems. 11:353-368.
Weston, N.B., S.S. Carini, A.E. Giblin, G.T.
Banta, C.S. Hopkinson and J. Tucker. 1996. Estimating denitrification in
sediments of the Parker River estuary, Massachusetts. Biol. Bull. 191:334-335.
Weston, N., A. E. Giblin, G. Banta,
C. S. Hopkinson, and J. Tucker. In prep. The effects of varying salinity on the
ammonium exchange and ammonium losses of estuarine sediments.
Wikner, J., J.J. Vallino, G. Steward, D.C.
Smith and F. Azam. 1993. Nucleic acids from the host bacterium as a major
source of nucleotides for three marine bacteriophages. FEMS Microbiology
Ecology 12:237-248.
Young, T., S. Komarow, L. Deegan and R.
Garritt. 1999. Population size and summer home range of the
green crab, Carcinus maenus, in salt
marsh tidal creeks. Biol. Bull.
197:297-299.
