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Publications

Books

Larkum, AWD, Orth, RJ & Duarte, CM 2006, Seagrasses: Biology, ecology and conservation.
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Chapters

Larkum, A, Drew, E & Ralph, PJ 2006, 'Photosynthesis and Metabolism in Seagrasses at the Cellular Level' in Larkum, AWD, Orth, RJ & Dyarte, CM (eds), Seagrasses:Biology, Ecology and Conservation, Springer, Dordrecht, The Netherlands, pp. 323-345.
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Ralph, PJ, Tomasko, D, Moore, KA, Seddon, S & Macinnis-Ng, CM 2006, 'Human impacts on seagrasses: Eutrophication, sedimentation and contamination' in Larkum, AWD, Orth, RJ & Duarte, CM (eds), Seagrasses: Biology, Ecology and Conservation, Springer, The Netherlands, pp. 567-593.
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Journal articles

Andrews, M, Raven, JA, Lea, PJ & Sprent, JI 2006, 'A role for shoot protein in shoot-root dry matter allocation in higher plants', ANNALS OF BOTANY, vol. 97, no. 1, pp. 3-10.
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Ashworth, J, Havranek, JJ, Duarte, CM, Sussman, D, Monnat, RJ, Stoddard, BL & Baker, D 2006, 'Computational redesign of endonuclease DNA binding and cleavage specificity', NATURE, vol. 441, no. 7093, pp. 656-659.
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Belli, SI, Smith, NC & Ferguson, DJ 2006, 'The coccidian oocyst a tough nut to crack!', Trends In Parasitology, vol. 22, no. 9, pp. 416-423.
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Ben-Dov, E, Shapiro, OH, Siboni, N & Kushmaro, A 2006, 'Advantage of using inosine at the 3 ' termini of 16S rRNA gene universal primers for the study of microbial diversity', APPLIED AND ENVIRONMENTAL MICROBIOLOGY, vol. 72, no. 11, pp. 6902-6906.
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Charles, AL, Markich, SJ & Ralph, PJ 2006, 'Toxicity of uranium and copper individually, and in combination, to a tropical freshwater macrophyte (Lemna aequinoctialis)', Chemosphere, vol. 62, no. 8, pp. 1224-1233.
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Dela-Cruz, J, Pritchard, T, Gordon, G & Ajani, PA 2006, 'The use of periphyton as a means of assessing impacts of point source inorganic nutrient pollution in south-eastern Australia.', Freshwater Biology, vol. 51, no. 5, pp. 951-972.
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Doblin, MA & Dobbs, FC 2006, 'Setting a size-exclusion limit to remove toxic dinoflagellate cysts from ships ballast water', Marine Pollution Bulletin, vol. 52, no. 3, pp. 259-263.
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Doblin, MA, Baines, SB, Cutter, LS & Cutter, GA 2006, 'Sources and biogeochemical cycling of particulate selenium in the San Francisco Bay estuary', Estuarine Coastal And Shelf Science, vol. 67, no. 4, pp. 681-694.
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Doblin, MA, Thompson, P, Revill, A, Butler, E, Blackburn, S & Hallegraeff, GM 2006, 'Vertical migration of the toxic dinoflagellate Gymnodinium catenatum under different concentrations of nutrients and humic substances in culture', Harmful algae, vol. 5, no. 6, pp. 665-677.
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Doubell, MJ, Seuront, L, Seymour, JR, Patten, NL & Mitchell, JG 2006, 'High-Resolution Fluorometer for Mapping Microscale Phytoplankton Distributions', Applied and Environmental Microbiology, vol. 72, no. 6, pp. 4475-4478.
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Finkel, ZV, Quigg, A, Raven, JA, Reinfelder, JR, Schofield, OE & Falkowski, PG 2006, 'Irradiance and the elemental stoichiometry of marine phytoplankton', LIMNOLOGY AND OCEANOGRAPHY, vol. 51, no. 6, pp. 2690-2701.
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Handy, SM, Coyne, KJ, Portune, KJ, Demir, E, Doblin, MA, Hare, CE, Cary, SC & Hutchins, DA 2006, 'Erratum: Evaluating vertical migration behavior of harmful raphidophytes in the Delaware Inland Bays utilizing quantitative real-time PCR (Aquatic Microbial Ecology (2005) 40, (121-132))', Aquatic Microbial Ecology, vol. 42, no. 3, p. 311.

Hill, R & Ralph, PJ 2006, 'Photosystem II Heterogeneity of in hospite Zooxanthellae in Scleractinian Corals Exposed to Bleaching Conditions', Photochemistry and Photobiology, vol. 82, no. 6, pp. 1577-1585.
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Jones, H, Ostrowski, M & Scanlan, DJ 2006, 'A suppression subtractive hybridization approach reveals niche-specific genes that may be involved in predator avoidance in marine Synechococcus isolates', APPLIED AND ENVIRONMENTAL MICROBIOLOGY, vol. 72, no. 4, pp. 2730-2737.
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Kevekordes, K, Holland, D, Häubner, N, Jenkins, S, Koss, R, Roberts, S, Raven, JA, Scrimgeour, CM, Shelly, K, Stojkovic, S & Beardall, J 2006, 'Inorganic carbon acquisition by eight species of Caulerpa (Caulerpaceae, Chlorophyta)', Phycologia, vol. 45, no. 4, pp. 442-449.
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Kilminster, KL, Walker, DI, Thompson, PA & Raven, JA 2006, 'Limited nutritional benefit to the seagrass Halophila ovalis, in culture, following sediment organic matter enrichment', ESTUARINE COASTAL AND SHELF SCIENCE, vol. 68, no. 3-4, pp. 675-685.
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Kohler-Rink, S & Kuhl, M 2006, 'The chemical microenvironment of the symbiotic planktonic foraminifer Orbulina universa', Marine Biology Research, vol. 1, no. 1, pp. 68-78.
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Kramarsky-Winter, E, Harel, M, Siboni, N, Ben Dov, E, Brickner, I, Loya, Y & Kushmaro, A 2006, 'Identification of a protist-coral association and its possible ecological role', MARINE ECOLOGY PROGRESS SERIES, vol. 317, pp. 67-73.
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Leegood, R, Granum, E, Brown, K & Raven, J 2006, 'Single-cell C4 photosynthesis in marine diatoms?', COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY, vol. 143, no. 4, pp. S160-S161.

Montechiaro, F, Hirschmugl, CJ, Raven, JA & Giordano, M 2006, 'Homeostasis of cell composition during prolonged darkness', PLANT CELL AND ENVIRONMENT, vol. 29, no. 12, pp. 2198-2204.
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Moore, CM, Suggett, DJ, Hickman, AE, Kim, Y, Tweddle, JF, Sharples, J, Geider, RJ & Holligan, PM 2006, 'Phytoplankton photoacclimation and photoadaptation in response to environmental gradients in a shelf sea', Limnology And Oceanography, vol. 51, no. 2, pp. 936-949.
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Murray, SA, Hoppenrath, M, Larsen, J & Patterson, DJ 2006, 'Bysmatrum teres sp. nov., a new sand-dwelling dinoflagellate from north-western Australia', Phycologia, vol. 45, no. 2, pp. 161-167.
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Murray, SA, Hoppenrath, M, Preisfeld, A, Larsen, J, Yoshimatsu, S, Toriumi, S & Patterson, DJ 2006, 'Phylogenetics of Rhinodinium broomeense gen. et sp. nov., a peridinoid, sand-dwelling dinoflagellate (Dinophyceae)', Journal of Phycology, vol. 42, pp. 934-942.
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O'Meara, T, Green, BJ, Sercombe, J & Tovey, E 2006, 'Measurement of personal exposure to outdoor aeromycota in northern New South Wales, Australia', vol. 13, no. 2, pp. 225-234.

Oren A, Pri-El N, Shapiro O & Siboni, N 2006, 'Buoyancy studies in natural communities of square gas-vacuolate archaea in saltern crystallizer ponds', Saline Systems, vol. 2.
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Patten, NL, Seymour, JR & Mitchell, JG 2006, 'Flow cytometric analysis of virus-like particles and heterotrophic bacteria within coral-associated reef water', Journal of the Marine Biological Association of the United Kingdom, vol. 86, no. 3, pp. 563-566.
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Pernice, M, Deutsch, JS, Andouche, A, Boucher-Rodoni, R & Bonnaud, L 2006, 'Unexpected variation of Hox genes' homeodomains in cephalopods', MOLECULAR PHYLOGENETICS AND EVOLUTION, vol. 40, no. 3, pp. 872-879.
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Quigg, A, Kevekordes, K, Raven, JA & Beardall, J 2006, 'Limitations on microalgal growth at very low photon fluence rates: the role of energy slippage', PHOTOSYNTHESIS RESEARCH, vol. 88, no. 3, pp. 299-310.
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Raven, JA 2006, 'Aquatic viruses: the emerging story', JOURNAL OF THE MARINE BIOLOGICAL ASSOCIATION OF THE UNITED KINGDOM, vol. 86, no. 3, pp. 449-451.
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Raven, JA 2006, 'Sensing inorganic carbon: CO2 and HCO3-.', The Biochemical journal, vol. 396, no. 2.
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Raven, JA & Beardall, J 2006, 'Chlorophyll fluorescence and ecophysiology: seeing red?', NEW PHYTOLOGIST, vol. 169, no. 3, pp. 449-451.
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Raven, JA & Cockell, CS 2006, 'Influence on photosynthesis of starlight, moonlight, planetlight, and light pollution (reflections on photosynthetically active radiation in the universe)', ASTROBIOLOGY, vol. 6, no. 4, pp. 668-675.
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Raven, JA & Karley, AJ 2006, 'Carbon sequestration: Photosynthesis and subsequent processes', CURRENT BIOLOGY, vol. 16, no. 5, pp. R165-R167.
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Restrepo, JI, Garces, D, Montoya, A, Restrepo Coupe, N & Giddings, J 2006, 'Simulation of water levels and water diversions in a subtropical coastal wetland', Journal of Coastal Research, vol. 22, no. 2, pp. 339-349.
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Ryan, KG, Hegseth, E, Martin, A, Davy, S, O'Toole, R, Ralph, PJ, McMinn, A & Thorn, C 2006, 'Comparison of the microalgal community within fast ice two sites along the Ross Sea coast, Antarctia', Antarctic Science, vol. 18, no. 4, pp. 583-594.
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Seery, CR, Gunthorpe, L & Ralph, PJ 2006, 'Herbicide impact on Hormosira banksii gametes measured by fluorescence and germination bioassays', Environmental Pollution, vol. 140, no. 1, pp. 43-51.
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Seymour, JR, Seuront, L, Doubell, MJ, Waters, RL & Mitchell, JG 2006, 'Microscale patchiness of virioplankton', Journal of the Marine Biological Association of the United Kingdom, vol. 86, no. 3, pp. 551-561.
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Steunou, A, Bhaya, D, Bateson, MM, Melendrez, MC, Ward, DM, Brecht, E, Peters, JW, Kuhl, M & Grossman, AR 2006, 'In situ analysis of nitrogen fixation and metabolic switching in unicellular thermophilic cyanobacteria inhabiting hot spring microbial mats', Proceedings of the National Academy of Sciences, vol. 103, no. 7, pp. 2398-2403.
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Suggett, DJ, Maberly, SC & Geider, RJ 2006, 'Gross photosynthesis and lake community metabolism during the spring phytoplankton bloom', Limnology And Oceanography, vol. 51, no. 5, pp. 2064-2076.
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Suggett, DJ, Moore, CM, Maranon, E, Omachi, C, Varela, RA, Aiken, J & Holligan, PM 2006, 'Photosynthetic electron turnover in the tropical and subtropical Atlantic Ocean', Deep Sea Research Part II: Topical Studies in Oceanography, vol. 53, no. 14-16, pp. 1573-1592.
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Theobald, S, Raven, J, Tolhurst, R, Makwiza, I & Taegtmeyer, M 2006, 'Public health approach to HIV treatment in resource-poor settings.', Lancet (London, England), vol. 368, no. 9541, p. 1064.
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Ulstrup, K, Berkelmans, R, Ralph, PJ & van Oppen, MJ 2006, 'Variation in bleaching sensitivity of two coral species across a latitudinal gradient on the Great Barrier Reef: the role of zooxanthellae', Marine Ecology Progress Series, vol. 314, pp. 135-148.
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Ulstrup, K, Ralph, PJ, Larkum, A & Kuhl, M 2006, 'Intra-colonial variability in light acclimation of zooxanthellae in coral tissues of Pocillopora damicornis Received:', Marine Biology, vol. 149, pp. 1325-1335.
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Ward, DM, Bateson, MM, Ferris, MJ, Kuhl, M, Wieland, A, Koeppel, A & Cohan, FM 2006, 'Cyanobacterial ecotypes in the microbial mat community of Mushroom Spring (Yellowstone National Park, Wyoming) as species-like units linking microbial community composition, structure and function', Philosophical Transactions of the Royal Society B, vol. 361, no. 1475, pp. 1997-2008.
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Wieland, A & Kuhl, M 2006, 'Regulation of photosynthesisand oxygen consumption ina hypersaline cyanobacterialmat (Camargue, France)byirradiance, temperatureandsalinity', F E M S Microbiology Ecology, vol. 55, no. 2, pp. 195-210.
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Willhelm, S, Carberry, M, Eldridge, M, Poorvin, L, Saxton, M & Doblin, MA 2006, 'Marine and Freshwater Cyanophages in a Laurentian Great Lake: Evidence from Infectivity Assays and Molecular Anayses of g20 genes', Applied and Environmental Microbiology, vol. 72, no. 7, pp. 4957-4963.
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Conferences

Edwards, D, Li, CS & Raven, JA 2004, 'Tracheids in an early vascular plant: a tale of two branches', BOTANICAL JOURNAL OF THE LINNEAN SOCIETY, Symposium on Don Kaplans Legacy - Influencing Teaching and Research, BLACKWELL PUBLISHING, Snowbird, UT, pp. 115-130.
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Humphreys, WF, Seymour, JR & Mitchell, JG 2006, 'Stratification of microbial communities in an anchialine sinkhole', Romania.

Salih, A, Wiedenmann, J, Matz, M, Larkum, AW & Cox, G 2006, 'Photoinduced activation of GFP-like proteins in tissues of REEF corals', Progress in Biomedical Optics and Imaging - Proceedings of SPIE.
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Seymour, JR & Stocker, R 2006, 'The causes and implications of microscale patchiness in the ocean studied using microfluidics.', United States.

Stocker, R, Seymour, JR & Marcos, M 2006, 'Microfluidics for studying microbial ecology', United States.

Sutherland, D & Hawes, I 2006, 'Inland Antarctic aquatic ecosystems – algal communities across environmental gradients', Antarctica New Zealand conference.

Reports

Biggs, B, Sutherland, D, Unwin, M & Kilroy, C 2006, Resuming the Mararoa River diversion into the Waiau Arm, Lake Manapouri: recommendations and associated monitoring programmes, Christchurch.

Spigel, B, Sorrell, B & Sutherland, D 2006, Waiau Arm Water Quality Study: September 2004 – May 2005, Christchurch.

Other

Biggs, B, Unwin, M & Sutherland, D 2006, 'Strategy for trialling rediversion of the Mararoga River into Lake Manapouri and associated monitoring programme'.