Abell J, McBride C, Hamilton DP. 2013. Lake Tutira: historic water quality, monitoring recommendations and management options. ERI Report No. 11. For Hawke's Bay Regional Council. Environmental Research Institute, University of Waikato, Hamilton. 39p. http://www.waikato.ac.nz/eri/research/publications

Abell J. 2013. Variability in nutrient loading to lake ecosystems and associated impacts on water quality.PhD thesis, University of Waikato, Hamilton. http://researchcommons.waikato.ac.nz/handle/10289/7698

Abell JM, Hamilton DP, Rutherford JC. 2013. Quantifying temporal and spatial variations in sediment, nitrogen and phosphorus transport in stream inflows to a large eutrophic lake. Environmental Science-Processes and Impacts 15 (6): 1137-1152. DOI: 10.1039/c3em00083d

Abell JM, Hamilton DP. 2013. Bioavailability of phosphorus transported during storm flow to a eutrophic, polymictic lake. New Zealand Journal of Marine and Freshwater Research 47 (4): 481-489. DOI: 10.1080/00288330.2013.792851

Ashraf S, Brabyn L, Hicks B. 2013. Introducing contrast and luminance normalisation to improve the quality of subtractive resolution merge technique. International Journal of Image and Data Fusion 4 (3): 230-251. DOI: 10.1080/19479832.2013.782072

Ashraf S, Brabyn L, Hicks BJ. 2013. Alternative solutions for determining the spectral band weights for the subtractive resolution merge technique. International Journal of Image and Data Fusion 4 (2): 105-125 [online 19 Aug 2011]. DOI: 10.1080/19479832.2011.607473

Baillie B, Hicks B, van den Heuvel MR, Kimberley M, Hogg I. 2013. The effects of wood on stream habitat and native fish assemblages in New Zealand. Ecology of Freshwater Fish 22 (4): 553-566. DOI: 10.1111/eff.12055

Bennett KR. 2013. Impacts of the Pliocene and Pleistocene glaciations on genetic diversity among New Zealand and Antarctic Arthropods. MSc thesis, University of Waikato, Hamilton. http://researchcommons.waikato.ac.nz/handle/10289/8441

Blair JM, Hicks BJ, Pitkethley R, Ling N, Ostrovsky I, Rowe DK. 2013. A bioenergetic assessment of the influence of stocking practices on rainbow trout (Oncorhynchus mykiss) growth and consumption in a New Zealand lake Freshwater Biology 58: 967-985 [online 16 Feb 2013). DOI:10.1111/fwb.12100

Blair JM, Ostrovsky I, Hicks BJ, Pitkethley RJ, Scholes P. 2013. Growth of rainbow trout (Oncorhynchus mykiss) in warm-temperate lakes: implications for environmental change.Canadian Journal of Fisheries and Aquatic Sciences 70 (5): 815-823. DOI: 10.1139/cjfas-2012-0409.

Brookes JD, O'Brien KR, Burford MA, Bruesewitz DA, Hodges BR, McBride C, Hamilton DP. 2013. Effects of diurnal vertical mixing and stratification on phytoplankton productivity in geothermal Lake Rotowhero, New Zealand. Inland Waters 3 (3): 369-376. DOI: 10.5268/IW-3.3.625

Clarke D, Paterson J, Hamilton D, Abell J, Moore R, Scarsbrook M, Thompson K, Bruere A. 2013. Overview of detainment bunds for mitigating diffuse source phosphorus and soil losses from pastoral farmland. IN: Currie LD and Christensen CL (ed.s). Accurate and efficient use of nutrients on farms. Occasional Report No. 26. Fertilizer and Lime Research Centre, Massey University, Palmerston North. 85 p. http: //flrc.massey.ac.nz/publications.html.

Clarke DT. 2013. The performance of Detainment Bunds (DBs) for attenuating phosphorus and sediment loss from pastoral farmland.MSc thesis, University of Waikato, Hamilton. http://researchcommons.waikato.ac.nz/handle/10289/7993

Collier KJ, Clapcott JE, David BO, Death RG, Kelly D, Leathwick JR, Young RG. 2013. Macroinvertebrate-pressure relationships in boatable New Zealand rivers: Influence of underlying environment and sampling substrate. River Research and Applications 29 (5): 645-659. DOI: 10.1002/rra.2564

Collier KJ, Clapcott JE, Duggan ID, Hamilton DP, Hamer M, Young RG. 2013. Spatial variation in structural and functional indicators in a large New Zealand river. River Research and Applications 29 (10): 1277-1290 [online: 2 OCT 2012].DOI:  10.1002/rra.2609

Collier KJ, Hamer MP. 2013. Ecological response differentials: an alternative benchmark to inform stream and river bioassessment. Freshwater Biology 58 (7): 1471-1483. DOI: 10.1111/fwb.12145

Collier KJ, Olsen AR. 2013. Monitoring network-design influence on assessment of ecological condition in wadeable streams. Marine and Freshwater Research 64 (2): 146-156. DOI: 10.1071/MF12267

de Villiers J. 2013. Assessment of injury to New Zealand native fish by boat electrofishing. MSc thesis, University of Waikato, Hamilton. http://researchcommons.waikato.ac.nz/handle/10289/7588

de Winton M, Jones H, Edwards T, Özkundakci D, Wells R, McBride C, Rowe D, Hamilton D, Clayton J, Champion P, Hofstra D. 2013. Review of best management practices for aquatic vegetation control in stormwater ponds, wetlands, and lakes . Auckland Council Technical Report TR2013/026. Prepared by NIWA and the University of Waikato for Auckland Council. http://www.aucklandcouncil.govt.nz/SiteCollectionDocuments/aboutcouncil/planspoliciespublications/technicalpublications/tr2013026reviewofbestmanagementpracticesforaquaticvegetationcontrolinstormwaterpondswetlandsandlakes.pdf

Elliott AH, Davies-Colley RJ, Parshotam A, Ballantine D. 2013. Load-based approaches for modelling visual clarity in streams at regional scale. Water Science and Technology 67 (5): 1092-1096. DOI: 10.2166/wst.2013.597

Górski K, Buijse AD, Winter HV, De Leeuw JJ, Compton TJ, Vekhov DA, Zolotarev DV, Verreth JAJ, Nagelkerke LAJ. 2013. Geomorphology and flooding shape fish distribution in a large-scale temperate floodplain. River Research and Applications 29 (10): 1226-1236 [online 8 Oct 2012]. DOI: 10.1002/rra.2610

Gorski K, Collier KJ, Duggan IC, Taylor CM, Hamilton DP. 2013. Connectivity and complexity of floodplain habitats govern zooplankton dynamics in a large temperate river system. Freshwater Biology 58 (7): 1458-1470 [online 3 May 2013]. DOI: 10.1111/fwb.12144

Hamilton DP, McBride CG, Özkundakci DSchallenberg M, Verburg P, de Winton M, Kelly D Hendy C, Ye W. 2013. Climate Change and Inland Waters. Impacts and Mitigation Approaches for Ecosystems and Society. IN: Goldman CR, Kumagai M, Robarts RD (ed.s). Climate Change and Inland Waters: Impacts and Mitigation for Ecosystems and Societies.

Hicks BJ, Bell DG, Duggan I, Wood S, Tempero G. 2013. Aquatic ecology of Lake Rotokare, Taranaki, and options for restoration. ERI report No. 14. For Rotokare Scenic Reserve Trust. Environmental Research Institute, University of Waikato, Hamilton.

Hicks BJ, Stichbury GA, Brabyn LK, Allan MG, Ashraf S.2013. Hindcasting water clarity from Landsat satellite images of unmonitored shallow lakes in the Waikato region, New Zealand. Environmental monitoring and assessment 185 (9): 7245-7261. DOI: 10.1007/s10661-013-3098-2

Hicks BJ, Tana R, Bell DG. 2013. Boat electrofishing surveys of fish populations in the Ohau Channel in 2011 and 2012. ERI Report No. 26. Client report prepared for Bay of Plenty Regional Council. Environmental Research Institute, Faculty of Science and Engineering, University of Waikato, Hamilton.

Hicks BJ, Tana R. 2013. Life history analysis of chinook salmon (Oncorhynchus tshawytscha) from lakes Mapourika and Paringa, West Coast, South Island, New Zealand, by otolith microchemistry. ERI Report No. 24. Client report prepared for West Coast Fish and Game Council.  Environmental Research Institute, Faculty of Science and Engineering, University of Waikato, Hamilton.

Hicks, B.J, Tempero, G. 2013. Boat electrofishing survey of Lake Puketirini, Waikato. ERI Report No. 40. Client report prepared for Genesis Energy Ltd. Environmental Research Institute, University of Waikato, Hamilton.

Jones H, Hamilton D, Muraoka K. 2013. Facilitating rafting on the Kaituna River: The effect of manipulating Lake Rotoiti outflow on the function of the Ohau diversion wall. ERI Report No. 23. Client report prepared for Bay of Plenty Regional Council. Environmental Research Institute, Faculty of Science and Engineering, University of Waikato, Hamilton. http://www.waikato.ac.nz/eri/research/publications

Jones HFE, Hamilton DP. 2013. Quantitative assessment of the Waikato River delta for fish habitat management: field survey, GIS and hydrodynamic modelling. ERI Report No. 27. Client report prepared for Waikato Regional Council. Environmental Research Institute, University of Waikato, Hamilton. http://www.waikato.ac.nz/eri/research/publications

Li W, Zhang C, Li Z, Liu J, Hicks B J, Zhang T. 2013. Effects of turbidity and light intensity on foraging success of juvenile mandarin fish Siniperca chuatsi (Basilewsky).Environmental Biology of Fishes 96 (8): 995-1002 [online 26 Jan 2013]. DOI: 10.1007/s10641-012-0096-0

Ling N. 2013. Sensitivity of Rotopiko Lakes fish and charophytes to rotenone. ERI Report No. 34. Client report prepared for the Department of Conservation. Environmental Research Institute, University of Waikato, Hamilton.

McDowell RM, Hamilton DP (eds).2013. Sources, Sinks and Fate of Nutrients from Agricultural Catchments [Special issue, Volume editors].Marine and Freshwater Research 64 (5). http://www.publish.csiro.au/pid/7208.htm

McDowell RW, Hamilton DP. 2013. Nutrients and eutrophication: introduction. Marine and Freshwater Research 64 (5): III-VI. DOI: 10.1071/MF13059

Morgan DKJ, Hicks BJ. 2013. A metabolic theory of ecology applied to temperature and mass dependence of N and P excretion by common carp. Hydrobiologia 705 (1): 135-145. DOI: 10.1007/s10750-012-1388-2

Morgan DKJ, Verbeek CJR, Rosentrater KA, Hicks BJ. 2013. The palatability of flavoured novel floating pellets made with brewer's spent grain to captive carp. New Zealand Journal of Zoology 40 (2): 170-174. DOI: 10.1080/03014223.2012.719912

Puddick J, Prinsep MR, Wood SA, Cary SC, Hamilton DP, Wilkins AL. 2013. Isolation and structure determination of two new hydrophobic microcystins from Microcystis sp.(CAWBG11). Phytochemistry Letters 6 (4): 575-581. DOI: 10.1016/j.phytol.2013.07.011

Puddick J, Prinsep MR, Wood SA, Miles CO, Rise F, Cary SC, Hamilton DP, Wilkins AL. 2013. Structural characterization of new microcystins containing tryptophan and oxidized tryptophan residues. Marine Drugs 11 (8): 3025-3045. DOI: 10.3390/md11083025

Puddick J. 2013. Spectroscopic Investigations of Oligopeptides from Aquatic Cyanobacteria: Characterisation of New Oligopeptides, Development of Microcystin Quantification Tools and Investigations into Microcystin Production.PhD thesis, University of Waikato, Hamilton. http://researchcommons.waikato.ac.nz/handle/10289/7289

Schallenberg M, de Winton MD, Verburg P, Kelly DJ, Hamill KD, Hamilton DP. 2013. Ecosystem Services of Lakes.IN: Dymond JR (ed.). Ecosystem services in New Zealand: conditions and trends. Lincoln, New Zealand: Manaaki Whenua Press. pp. 203-225. http://www.landcareresearch.co.nz/publications/books/ecosystem-services-in-new-zealand

Solomon CT, Bruesewitz DA, Richardson DC, Rose KC, Van de Bogert MC, Hanson PC, Kratz TK, Lagrget B, Adrian R, Babin BL, Chiu CY, Hamilton DP, Gaiser EE, Hendricks S, Istvánovics V, Laas A, O'Donnell DM, Pace ML, Ryder E, Staehr PA, Torgersen T, Vannie MJ, Weathers KC, Zhu G. 2013. Ecosystem respiration: Drivers of daily variability and background respiration in lakes around the globe. Limnology and Oceanography 58 (3): 849-866. DOI: 10.4319/lo.2013.58.3.0849

Tana R, Tempero G. 2013. Life-history of Lake Horowhenua common smelt: analysis of otolith chemistry and vertebral counts. ERI Report No. 16. Client report prepared for Horizons Regional Council. Environmental Research Institute, Faculty of Science and Engineering, University of Waikato, Hamilton. http://www.waikato.ac.nz/eri/research/publications

Tana R, Tempero G. 2013. Life-history of Lake Horowhenua common smelt: analysis of otolith chemistry and vertebral counts. ERI Report No. 22. Client report prepared for Horizons Regional Council. Environmental Research Institute, Faculty of Science and Engineering, University of Waikato, Hamilton.

Tonkin JD, Death RG, Collier KJ. 2013. Do productivity and disturbance interact to modulate macroinvertebrate diversity in streams? Hydrobiologia 701 (1): 159-172. DOI: 10.1007/s10750-012-1248-0

Valler TL. 2013. Sources and effects of catchment-derived bioavailable contaminants in Hamilton urban streams. MSc thesis, University of Waikato, Hamilton. http://researchcommons.waikato.ac.nz/handle/10289/7942

Weathers KC; Hanson PC, Arzberger PW; Brentrup J; Brookes JD; Carey CC; Gaiser EE; Hamilton DP; Hong GS; Ibelings BW; Istvanovics V; Jennings E; Kim B; Kratz TK; Lin F-P; Muraoka K; O'Reilly C; Piccolo C, Rose KC; Ryder E; Zhu G. 2013. The Global Lake Ecological Observatory Network (GLEON): the evolution of grassroots network science. Limnology and Oceanography Bulletin 22 (3): 71-73. http://www.aslo.org/bulletin/13_v22_i3.pdf

Wood SA, Smith KF, Banks JC, Tremblay L, Rhodes L, Mountfort D, Cary CS, Pochon X. 2013. Molecular genetic tools for environmental monitoring of New Zealand's aquatic habitats, past, present and the future. New Zealand Journal of Marine and Freshwater Research 47 (1): 90-119.DOI: 10.1080/00288330.2012.745885

Wu N, Daniel A, Tempero G. 2013. Fish biomass and gonad development in the Rotopiko (Serpentine) lakes. ERI Report No. 20. Client report prepared for Department of Conservation. Environmental Research Institute, Faculty of Science and Engineering, University of Waikato, Hamilton. http://www.waikato.ac.nz/eri/research/publications

Wu N, Gorski K, Daniel AJ. 2013. Abundance of larval native and nonnative fishes in floodplain habitats of the lower Waikato River, New Zealand. Inland Waters 3 (3): 359-368. DOI: 10.5268/IW-3.3.550