Publications

Azmi, K., Pilling, G., Bell, J., Chang, Y.-J., Dutilloy, A., Frawley, T. H., Hamer, P., Hampton, J., Hanich, Q., Hill-Moana, T., Hsu, J., Hurry, G., Knittweis, L., H. Lin, D. L., Neubauer, P., & others. (2025). Putting regional fisheries management organisations’ climate change house in order. Fish and Fisheries, 2025, 1–8. https://doi.org/10.1111/faf.70015

Berkenbusch, K., & Hill-Moana, T. (2025). Intertidal shellfish monitoring in the northern North Island region, 2024–25. New Zealand Fisheries Assessment Report, 2025/27. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25997

Hernandez, M. M., Pon, J. P. S., Richard, Y., & Favero, M. (2025). Incidental mortality of black-browed albatross and white-chinned petrel in Argentine longline fisheries: A comprehensive estimation addressing spatial and temporal stratification and cryptic mortality. Aquatic Conservation: Marine and Freshwater Ecosystems, 35(4), e70127.

Hill-Moana, T., Neubauer, P., Middleton, D. A. J., Vidal, T., Escalle, L., & Cook, D. (2025). Towards the development of a catch per unit effort (CPUE) index for the purse seine fishery. New Zealand Fisheries Assessment Report, 2025/37.

Kim, K., & Neubauer, P. (2025). Examining potential biases through prior predictive checks: Prior mis-specifications and their impact on Bayesian stock assessments. Fisheries Research, 288, 107405.

Neubauer, P., Kim, K., A’mar, T., & Prince, J. (2025). Stock assessment and spawning potential ratio-based management procedures for pāua (Haliotis iris) fisheries in PAU 3A. New Zealand Fisheries Assessment Report, 2025/01. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25838

Neubauer, P., Kim, K., Hill-Moana, T., & Langley, A. (2025). Considering ecosystem aspects when setting management targets for New Zealand’s fisheries: Insights from simulations and application to snapper and gurnard in FMA 7. New Zealand Fisheries Assessment Report, 2025/40.

Neubauer, P., Kim, K., & Langley, A. (2025). Identifying trade-offs for alternative rebuilding polices: Insights from simulations and application to tarakihi. New Zealand Fisheries Assessment Report, 2025/39.

Neubauer, P., & Large, K. (2025). Stock assessment of oceanic whitetip shark in the Western and Central Pacific Ocean 2025.

Rowden, A. A., Anderson, O. F., Neubauer, P., Hamill, J., Bowden, D. A., Tremblay-Boyer, L., Charsley, A., & MacGibbon, D. (2024). Spatially explicit benthic impact assessments for bottom trawling in New Zealand. New Zealand Aquatic Environment and Biodiversity Report, 329. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25617

Thoral, F., Kaikkonen, L., O’Connor, G., Russell, P., Darlinghaus, C., Rampai, N., Patchett, L., Robertson, B., Berdinner, B., Scherer, L., Robertson, I., Chaos, E., Maluafiti, P., McCoy, W., Flack, B. R., Scherer, L., O’Callaghan, J., Large, K., & Stevens, C. (2025). Marine science in Aotearoa New Zealand: a community-sourced over-the-horizon perspective. New Zealand Science Review, 80, In production.

Berkenbusch, K. (2024). Approaches for integrated freshwater-estuary monitoring. Report prepared for Minstry for the Environment, Wellington. 24 p. https://environment.govt.nz/publications/approaches-for-integrated-freshwater-estuarine-monitoring/

Berkenbusch, K., & Hill-Moana, T. (2024). Intertidal shellfish monitoring in the northern North Island region, 2023–24. New Zealand Fisheries Assessment Report, 2024/35. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25759

Brouwer, S., Hill-Moana, T., Neubauer, P., & Large, K. (2024). Characterisation of the fisheries catching oceanic whitetip sharks (Carcharhinus longimanus) in the Western and Central Pacific Ocean.

Döweler, F., Fransson, J. E. S., & Bader, M. K.-F. (2024). Linking high-resolution UAV-based remote sensing data to long-term vegetation sampling—a novel workflow to study slow ecotone dynamics. Remote Sensing, 16(5), 840.

Hill-Moana, T., Neubauer, P., Large, K., & Brouwer, S. (2024). Analysing potential inputs to the 2025 stock assessment of Western and Central Pacific oceanic whitetip shark (Carcharhinus longimanus).

Kim, K., Sibanda, N., Arnold, R., & A’mar, T. (2024). Enhancing data-limited assessments with random effects: A case study on Korea chub mackerel (Scomber japonicus). Canadian Journal of Fisheries and Aquatic Sciences, 81(10), 1433–1455.

Large, K., Berkenbusch, K., Richard, Y., & Neubauer, P. (2024). Warp strike mitigation in large-vessel trawl fisheries in New Zealand. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/202223-annual-plan/mit2022-05-large-vessel-trawl-warp-mitigation-final-report.pdf

Middleton, D. A. J., & Abraham, E. R. (2024). Video observation of the FMA 1 bottom longline fishery in 2020–21 and 2021–22. In New Zealand Aquatic Environment and Biodiversity Report No. 340. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25781

Neubauer, P., & Hill-Moana, T. (2024). Characterisation, CPUE and length-composition analyses of the New Zealand albacore tuna fishery. New Zealand Fisheries Assessment Report, 2024/38. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25764

Neubauerr, P. (2024). Reporting WCPFC SC status and management advice: findings and recommendations from WCPFC project 113b.

Neubauer, P., Kim, K., Large, K., & Brouwer, S. (2024). Stock assessment of silky shark in the Western and Central Pacific Ocean 2024.

Richard, Y., Berkenbusch, K., Crawford, E., Tornquist, M., Walker, K., Elliot, G., & Tremblay-Boyer, L. (2024). Antipodean albatross multi-threat risk assessment. New Zealand Aquatic Environment and Biodiversity Report No. 332. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25627

Richard, Y., Tremblay-Boyer, L., Berkenbusch, K., Wilkinson, N., Walker, K., & Elliot, G. (2024). Assessing inter-annual variability in Antipodean albatross distribution. New Zealand Aquatic Environment and Biodiversity Report No. 331. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25626

Richard, Y., & Berkenbusch, K. (2024). Sightings of marine mammals in New Zealand waters by government fisheries observers (p. 24 p). https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/202223-annual-plan/int2022-06_marine-mammals-sightings-final-report.pdf

Rose, K. A., Holsman, K., Nye, J. A., Markowitz, E. H., Banha, T. N. S., Bueno-Pardo, J., Deslauriers, D., Fulton, E. A., Huebert, K. B., Huret, M., & others. (2024). Advancing bioenergetics-based modeling to improve climate change projections of marine ecosystems. Marine Ecology Progress Series, 732, 193–221. https://www.int-res.com/articles/meps_oa/m732p193.pdf

Starr, P. J., Tornquist, M. G., Large, K., Middleton, D. A. J., & Neubauer, P. (2024). Characterisation and CPUE analyses for the SPO 1, SPO 2, SPO 7, and SPO 8 fisheries to 2020–21. New Zealand Fisheries Assessment Report, 2024/40. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25766

Berkenbusch, K., & Hill-Moana, T. (2023). Intertidal shellfish monitoring in the northern North Island region, 2022–23. New Zealand Fisheries Assessment Report, 2023/32.

Borrelle, S., Jones, H., Richard, Y., & Salguero-Gomez, R. (2023). Estimating the impact of marine threats to seabird recovery after predator eradication. Marine Ornithology, 51(2), 225–236.

Brouwer, S., Large, K., & Neubauer, P. (2023). Characterisation of the fisheries catching silky sharks (Carcharhinus falciformis) in the Western and Central Pacific Ocean.

McCowan, T. A., & Neubauer, P. (2023). Pāua abundance trends and population monitoring in areas affected by the November 2016 Kaikōura earthquake, February 2023 update. New Zealand Fisheries Assessment Report, 2023/26.

Middleton, D. A. J., & Abraham, E. R. (2023). Video observation of the FMA 1 bottom longline fishery in 2018–19 and 2019–20. New Zealand Aquatic Environment and Biodiversity Report No. 302. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25334

Neubauer, P., Kim, K., A’mar, T., & Large, K. (2023). Addressing uncertainty in WCPFC stock assessments: Review and recommendations from WCPFC Project 113.

Neubauer, P., Kim, K., Large, K., & Brouwer, S. (2023). Analysing potential inputs to the 2024 stock assessment of Western and Central Pacific silky shark (Carcharhinus falciformis).

Neubauer, P., & Kim, K. (2023). The 2023 stock assessment and management procedure evaluation for pāua (Haliotis iris) fisheries in PAU 5D. New Zealand Fisheries Assessment Report, 2023/46.

Neubauer, P., A’mar, T., & Dunn, M. (2023). Climate impacts on fished populations. Part 1: Simulating bottom-up, physiological, and fishery-induced changes in production potential. New Zealand Fisheries Assessment Report, 2023/56.

Neubauer, P., & Kim, K. (2023). Developing an operating model and testing management procedures for pāua (Haliotis iris) fisheries in PAU 4. New Zealand Fisheries Assessment Report, 2023/29.

Neubauer, P., A’mar, T., & Dunn, M. (2023). Climate impacts on fished populations. Part 2: Effects of climate and environmental variability on fishery stock assessment accuracy. New Zealand Fisheries Assessment Report, 2023/57.

Neubauer, P., & Kim, K. (2023). Operating model and management procedure evaluation for pāua (Haliotis iris) fisheries in PAU 3A. New Zealand Fisheries Assessment Report, 2023/28.

Neubauer, P., & Kim, K. (2023). Developing an operating model and testing management procedures for pāua (Haliotis iris) fisheries in PAU 3B. New Zealand Fisheries Assessment Report, 2023/27.

Neubauer, P. (2023). The 2022 stock assessment of pāua (Haliotis iris) for PAU 7. New Zealand Fisheries Assessment Report, 2023/17.

Neubauer, P. (2023). Quantifying effects of reporting changes for pāua (Haliotis iris) catch-per-unit-effort. New Zealand Fisheries Assessment Report, 2023/18.

Richardson, L. E., Heenan, A., Delargy, A. J., Neubauer, P., Lecky, J., Gove, J. M., Green, J. A. M., Kindinger, T. L., Ingeman, K. E., & Williams, G. J. (2023). Local human impacts disrupt depth-dependent zonation of tropical reef fish communities. Nature Ecology & Evolution, 7(11), 1844–1855. https://www.nature.com/articles/s41559-023-02201-x

Thompson, F., A’mar, T., Berkenbusch, K., & Selvaraj, S. (2023). Trends in nitrogen loss from Canterbury dairy farms. Report prepared by Dragonfly Data Science for Overseer Limited. 32 p. https://assets.ctfassets.net/bo1h2c9cbxaf/16kKeBpg01Vob91kLtP1qC/2c0fdf968b99da9c91c96573aacc1464/2023-11_Trends_in_nitrogen_loss_from_Canterbury_Dairy_Farms.pdf

Berkenbusch, K., Hill-Moana, T., & Neubauer, P. (2022). Intertidal shellfish monitoring in the northern North Island region, 2021–22. New Zealand Fisheries Assessment Report, 2022/57. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25318

Brouwer, S., Large, K., & Neubauer, P. (2022). Characterisation of the fisheries catching South Pacific shortfin mako sharks (Isurus oxyrinchus) in the Western and Central Pacific Ocean.

Cordwell, A., Wilkinson, N., Abraham, E., & Berkenbusch, K. (2022). New Zealand’s research workforce.

Harrison, C. S., Rohr, T., DuVivier, A., Maroon, E. A., Bachman, S., Bardeen, C. G., Coupe, J., Garza, V., Heneghan, R., Lovenduski, N. S., Neubauer, P., & others. (2022). A new ocean state after nuclear war. AGU Advances, 3(4), e2021AV000610.

Large, K., Neubauer, P., Brouwer, S., & Kai, M. (2022). Inputs to the stock assessment of Southwest Pacific shortfin mako shark.

Large, K., Neubauer, P., & Brouwer, S. (2022). Stock assessment of Southwest Pacific shortfin mako shark.

Neubauer, P. (2022). The 2021 stock assessment of pāua (Haliotis iris) for PAU 2. New Zealand Fisheries Assessment Report, 2022/35.

Neubauer, P. (2022). The 2020 stock assessment of pāua (Haliotis iris) for PAU 5A. New Zealand Fisheries Assessment Report 2022/33, 2022/33.

Neubauer, P., Carvalho, F., Ducharme-Barth, N., Large, K., Brouwer, S., Day, J., & Hamer, P. (2022). Report on WCPFC project 107b: Improved stock assessment and structural uncertainty grid for Southwest Pacific blue shark.

Pérez-Matus, A., Neubauer, P., Shima, J. S., & Rivadeneira, M. M. (2022). Reef fish diversity across the temperate south Pacific Ocean. Frontiers in Ecology and Evolution, 10, 768707. https://www.frontiersin.org/journals/ecology-and-evolution/articles/10.3389/fevo.2022.768707/full

Tremblay-Boyer, L., & Berkenbusch, K. (2022). Characterisation of marine mammal interactions with fisheries & bycatch mitigation. (Final report for project INT2019-03, prepared by Dragonfly Data Science for Department of Conservation, Wellington. 64 p.). https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/201920-annual-plan/int2019-03-characterisation-of-marine-mammal-with-fisheries-and-bycatch-mitigation.pdf

Abraham, E. (2021). Capture of protected species in New Zealand recreational marine fisheries. Final report for project BCB2019-07, prepared for Department of Conservation, Wellington. 39 p. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/201920-annual-plan/bcbc2019-07a-capture-of-protected-species-in-new-zealand-recreational-marine-fisheries-final-report.pdf

Abraham, E. R., Tremblay-Boyer, L., & Berkenbusch, K. (2021). Estimated captures of New Zealand fur seal, common dolphin, and turtles in New Zealand commercial fisheries, to 2017–18. New Zealand Aquatic Environment and Biodiversity Report No. 258.

Armstrong, D. P., Boulton, R. L., McArthur, N., Govella, S., Gorman, N., Pike, R., & Richard, Y. (2021). Using experimental reintroductions to resolve the roles of habitat quality and metapopulation dynamics on patch occupancy in fragmented landscapes. Conservation Biology, Published online, 1 October 2021.

Berkenbusch, K., Neubauer, P., & Hill-Moana, T. (2021). Intertidal shellfish monitoring in the northern North Island region, 2020–21. New Zealand Fisheries Assessment Report, 2021/73. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24996

Brouwer, S., Tornquist, M. G., Large, K., Middleton, D. A. J., Neubauer, P., & Tremblay-Boyer, L. (2021). Characterisation and CPUE analyses of the New Zealand albacore fishery.

Brouwer, S., Large, K., & Neubauer, P. (2021). Characterisation of the fisheries catching South Pacific blue sharks (Prionace glauca) in the Western and Central Pacific Ocean.

Döweler, F. (2021). Causes of recruitment limitation at abrupt alpine treelines [Phdthesis]. Auckland University of Technology.

Döweler, F., Case, B. S., Buckley, H. L., & Bader, M. K.-F. (2021). High light-induced photoinhibition is not limiting seedling establishment at abrupt treeline ecotones in New Zealand. Tree Physiology, corrected proof.

Large, K., Berkenbusch, K., Neubauer, P., & Tornquist, M. (2021). Workshop summary report–mitigation of protected species bycatch in commercial fisheries. Final report for project MIT2020-03, prepared by Dragonfly Data Science for the Conservation Services Programme, Department of Conservation. 32 p. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/202021-annual-plan/mit2020-03-mitigation-gaps-analysis-final-report.pdf

McCowan, T. A., & Neubauer, P. (2021). Pāua abundance trends and population monitoring in areas affected by the November 2016 Kaikōura earthquake. New Zealand Fisheries Assessment Report, 2021/26.

Neubauer, P., Damodaran, D., & Berkenbusch, K. (2021). Bivalve abundance in relation to sediment properties across northern North Island. New Zealand Fisheries Assessment Report, 2021/49. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24951

Neubauer, P., Large, K., Brouwer, S., Kai, M., Tasi, W. P., & Liu, K. M. (2021). Input data for the 2021 South Pacific blue shark (Prionace glauca) stock assessment.

Neubauer, P. (2021). Pāua management procedure: review of current state and prospects for wider application. New Zealand Fisheries Assessment Report, 2021/03.

Neubauer, P., Large, K., & Brouwer, S. (2021). Stock assessment of Southwest Pacific blue shark.

Richard, Y. (2021). Integrated population model of Antipodean albatross for simulating management scenarios.

Tremblay-Boyer, L. (2021). Characterisation of striped marlin bycatch in New Zealand surface-longline fisheries. New Zealand Fisheries Assessment Report 2021/44. https://www.mpi.govt.nz/dmsdocument/46452-FAR-202144-Characterisation-of-striped-marlin-bycatch-in-New-Zealand-surface-longline-fisheries

Tremblay-Boyer, L. (2021). Characterisation and CPUE standardisation for school shark in New Zealand, 1989–90 to 2018–19. New Zealand Fisheries Assessment Report 2021/70. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24993

Tremblay-Boyer, L., Neubauer, P., Berkenbusch, K., & Damodaran, D. (2021). Geostatistical estimates for intertidal shellfish monitoring in the northern North Island region, 2019–20. New Zealand Fisheries Assessment Report 2021/77. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=25014

Whitney, J. L., Gove, J. M., McManus, M. A., Smith, K. A., Neubauer, P., Phipps, J. E., Contreras, E. A., Kobayashi, D. R., & Asner, G. P. (2021). Surface slicks are pelagic nurseries for diverse ocean fauna. Scientific Reports, 11, 3197.

Abraham, T., & Moses, C. (2020). Building tech with indigenous communities: Vol. rm 22 June 2020. https://commoncode.io/blog/building-tech-with-indigenous-communities

Abraham, E. (2020). Captures of protected species in New Zealand recreational fisheries. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/meetings/presentations/bcbc2019-07a-recreational-fishing-presentation.pdf

Abraham, E. R., & Richard, Y. (2020). Estimated captures of seabirds in New Zealand trawl and longline fisheries, to 2017–18. New Zealand Aquatic Environment and Biodiversity Report No. 249.

Berkenbusch, K., & Neubauer, P. (2020). Intertidal shellfish monitoring in the northern North Island region, 2019–20. New Zealand Fisheries Assessment Report, 2020/38. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24836

Calcott, B., Pocheville, A., & Griffiths, P. (2020). Signals that make a difference. The British Journal for the Philosophy of Science, 71(1), 233–258. https://www.dropbox.com/s/jegvktibdt0ljje/Calcott_et_al_2017_Signals_that_Make_a_Difference.pdf?dl=0

Carneiro, A. P., Pearmain, E. J., Oppel, S., Clay, T. A., Phillips, R. A., Bonnet-Lebrun, A.-S., Wanless, R. M., Abraham, E., Richard, Y., Rice, J., & others. (2020). A framework for mapping the distribution of seabirds by integrating tracking, demography and phenology. Journal of Applied Ecology, 57, 514–525.

Leduc, D., Nodder, S. D., Rowden, A. A., Gibbs, M., Berkenbusch, K., Wood, A., Leo, F. D., Smith, C., Brown, J., Bury, S. J., & others. (2020). Structure of infaunal communities in New Zealand submarine canyons is linked to origins of sediment organic matter. Limnology and Oceanography, 65, 2303–2327.

Lewis, J. E. and A. Abdilla and N. Arista and K. Baker and S. Benesiinaabandan and Mi. Brown and M. Cheung and M. Coleman and A. Cordes and J. Davison and K. Duncan and S. Garzon and D. F. Harrell and P.-L. Jones and K. Kealiikanakaoleohaililani and M. Kelleher and S. Kite and O. Lagon and J. Leigh and M. Levesque and K. Mahelona and Moses, C. and others. (2020). Indigenous protocol and artificial intelligence position paper. Indigenous Protocol and Artificial Intelligence Working Group, Honolulu, Hawai`i.

Moses, C. (2020). The integrated data infrastructure. Te hanganga o ngā raraunga kōmitimiti me te whakaaetanga ā-iwi. In Chen, A. (ed.) Shouting zeros and ones (pp. 35–43). BWB Bridget Williams Books.

Neubauer, P. (2020). Development and application of a spatial stock assessment model for pāua (Haliotis iris). New Zealand Fisheries Assessment Report, 2020/30.

Richard, Y., & Abraham, E. R. (2020). Assessment of the risk of commercial fisheries to New Zealand seabirds, 2006–07 to 2016–17. New Zealand Aquatic Environment and Biodiversity Report No.\ 237. https://mpi.govt.nz/dmsdocument/39407

Richard, Y., Abraham, E. R., & Berkenbusch, K. (2020). Counts of seabirds around commercial fishing vessels within New Zealand waters, 2007–08 to 2018–19 (p. 43). http://files.dragonfly.co.nz/publications/pdf/Richardetal_2020_seabird-counts.pdf

Tremblay-Boyer, L., & Berkenbusch, K. (2020). Data review and potential assessment approaches for mobulids in the Western and Central Pacific Ocean.

Tremblay-Boyer, L., & Abraham, E. R. (2020). Increased fisher-reporting of seabird captures during an electronic-monitoring trial. New Zealand Aquatic Environment and Biodiversity Report No. 238.

Abraham, E., Richard, Y., Walker, N., Gibson, W., Daisuke, O., Tsuji, S., Kerwarth, S., Winkler, H., Parsa, M., Small, C., & Waugh, S. (2019). Assessment of the risk of surface longline fisheries in the Southern Hemisphere to albatrosses and petrels, for 2016. https://www.ccsbt.org/en/system/files/ERSWG13_17_NZ_Assessment_RiskOfSurfaceLonglineFisheries_SouthernHemisphere.pdf

Abraham, E. R., & Berkenbusch, K. (2019). Preparation of data for protected species capture estimation, updated to 2016–17. New Zealand Aquatic Environment and Biodiversity Report No. 233.

Abraham, E. R., & Berkenbusch, K. (2019). Preparation of data for protected species capture estimation, updated to 2017–18. New Zealand Aquatic Environment and Biodiversity Report No. 234. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24767

Abraham, E. R., & Richard, Y. (2019). Estimated capture of seabirds in New Zealand trawl and longline fisheries, 2002–03 to 2015–16. New Zealand Aquatic Environment and Biodiversity Report No.\ 211.

Abraham, E. R., & Richard, Y. (2019). Estimated capture of seabirds in New Zealand trawl and longline fisheries, to 2016–17. New Zealand Aquatic Environment and Biodiversity Report 226.

Berkenbusch, K. (2019). The influence of burrowing shrimp on estuarine ecosystems. https://www.youtube.com/watch?v=yqTQ1Akelxg&feature=youtu.be

Berkenbusch, K., & Neubauer, P. (2019). Intertidal shellfish monitoring in the northern North Island region, 2018–19. New Zealand Fisheries Assessment Report, 2019/32. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24738

Berkenbusch, K. (2019). Regional patterns of macrofaunal diversity and abundance determined by antagonistic ecosystem engineers in soft-sediment intertidal habitats. http://files.dragonfly.co.nz/publications/pdf/berkenbusch_regional_2019.pdf

BirdLife South Africa. (2019). Report of the final global seabird bycatch assessment workshop. Sustainable management of tuna fisheries and biodiversity conservation in the ABNJ.

Calcott, B. (2019). Further clarification on permissive and instructive causes. Biology & Philosophy, 34(5), 50. https://www.dropbox.com/s/18ak6om2g5p0rpw/Calcott_2019_Further_Clarification_on_the_Permissive_instructive.pdf?dl=0

Gove, J. M., Jamison, M., Whitney, J. L., McManus, M. A., Lecky, J., Carvalho, F. C., Lynch, J. M., Li, J., Neubauer, P., Smith, K. A., & others. (2019). Prey-size plastics are invading larval fish nurseries. Proceedings of the National Academy of Sciences, 116(48), 24143–24149.

P. Neubauer and Y. Richard and L. Tremblay-Boyer. (2019). Alternative assessment methods for oceanic whitetip shark.

Neubauer, P. (2019). Development and evaluation of management procedures in pāua quota management areas 5A, 5B and 5D. New Zealand Fisheries Assessment Report, 2019/37.

Neubauer, P., & Tremblay-Boyer, L. (2019). Input data for the 2018 stock assessment of pāua (Haliotis iris) for PAU 5D. New Zealand Fisheries Assessment Report, 2019/38.

Neubauer, P., & Tremblay-Boyer, L. (2019). The 2018 stock assessment of pāua (Haliotis iris) for PAU 5D. New Zealand Fisheries Assessment Report, 2019/39.

Neubauer, P., & Andersen, K. H. (2019). Thermal performance of fish is explained by an interplay between physiology, behaviour, and ecology. Conservation Physiology, 7, 1–14.

Tremblay-Boyer, L., Carvalho, F., Neubauer, P., & Pilling, G. (2019). Stock assessment for oceanic whitetip shark in the Western and Central Pacific Ocean.

Tremblay-Boyer, L., & Neubauer, P. (2019). Historical catch reconstruction and CPUE standardization for the stock assessment of oceanic whitetip shark in the Western and Central Pacific Ocean.

E. Abraham. (2018). Cadmium in New Zealand agricultural soils. New Zealand Journal of Agricultural Research, 1–6. https://doi.org/10.1080/00288233.2018.1547320

Abraham, E. R., & Richard, Y. (2018). Estimated capture of seabirds in New Zealand trawl and longline fisheries, 2002–03 to 2014–15. New Zealand Aquatic Environment and Biodiversity Report 197. https://www.mpi.govt.nz/dmsdocument/27588/

Berkenbusch, K., & Neubauer, P. (2018). Intertidal shellfish monitoring in the northern North Island region, 2017–18. New Zealand Fisheries Assessment Report, 2018/28. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24620

Berkenbusch, K., & Neubauer, P. (2018). Distribution and abundance of toheroa at Oreti Beach, Murihiku/Southland, 2016–17. New Zealand Fisheries Assessment Report, 2018/26. https://www.mpi.govt.nz/dmsdocument/29813

McCowan, T. A., & Neubauer, P. (2018). Paua biomass estimates and population monitoring in areas affected by the November 2016 Kaikoura earthquake. New Zealand Fisheries Assessment Report, 2018/54.

Neubauer, P., Thorson, J. T., Melnychuk, M. C., Methot, R., & Blackhart, K. (2018). Drivers and rates of stock assessments in the United States. PloS One, 13(5), e0196483. https://doi.org/10.1371/journal.pone.0196483

Young, T., Pincin, J., Neubauer, P., Ortega-Garcí a, S., & Jensen, O. P. (2018). Investigating diet patterns of highly mobile marine predators using stomach contents, stable isotope, and fatty acid analyses. ICES Journal of Marine Science, fsy025. https://doi.org/10.1093/icesjms/fsy025

Neubauer, P., Richard, Y., & Clarke, S. (2018). Risk to the Indo-Pacific Ocean whale shark population from interactions with Pacific Ocean purse-seine fisheries.

Ochi, D., Abraham, E., Inoue, Y., Oshima, K., Walker, N., Richard, Y., & Tsuji, S. (2018). Preliminary assessment of the risk of albatrosses by longline fisheries.

Parke, E. C., Calcott, B., & O’Malley, M. A. (2018). A cautionary note for claims about the microbiome’s impact on the ”self”. PLoS Biology, 16(9), e2006654.

Abraham, E. R., Neubauer, P., Berkenbusch, K., & Richard, Y. (2017). Assessment of the risk to New Zealand marine mammals from commercial fisheries. New Zealand Aquatic Environment and Biodiversity Report No. 189. http://fs.fish.govt.nz/Page.aspx?pk=113&dk=24554

Abraham, E. R., & Berkenbusch, K. (2017). Estimated captures of New Zealand fur seal, New Zealand sea lion, common dolphin and turtles in New Zealand commercial fisheries, 1995–96 to 2014–15. New Zealand Aquatic Environment and Biodiversity Report No. 188. http://fs.fish.govt.nz/Page.aspx?pk=113&dk=24557

Abraham, E., Richard, Y., Walker, N., & Roux, M.-J. (2017). Assessment of the risk of commercial surface longline fisheries in the Southern Hemisphere to ACAP seabird species.

Abraham, E. R., & Richard, Y. (2017). Summary of the capture of seabirds in New Zealand commercial fisheries, 2002–03 to 2013–14. New Zealand Aquatic Environment and Biodiversity Report No.\ 184.

Abraham, E., Roux, M.-J., Richard, Y., & Walker, N. (2017). Assessment of the risk of Southern Hemisphere surface longline fisheries to ACAP species.

Berkenbusch, K., & Neubauer, P. (2017). Intertidal shellfish monitoring in the northern North Island region, 2016–17. New Zealand Fisheries Assessment Report, 2017/51. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24505

Calcott, B. (2017). Causal specificity and the instructive–permissive distinction. Biology & Philosophy, 32(4), 481–505. https://www.dropbox.com/s/gpl3tm88rcnmqwj/Calcott_2017_Causal_specificity_and_the_instructive_permissive_distinction_.pdf?dl=0

Lanfear, R., Frandsen, P. B., Wright, A. M., Senfeld, T., & Calcott, B. (2017). PartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses. Molecular Biology and Evolution, 34(3), 772–773.

Neubauer, P. (2017). Spatial bias in pāua Haliotis iris catch-per-unit-effort. New Zealand Fisheries Assessment Report, 2017/57.

Neubauer, E.-F., Poole, A. Z., Neubauer, P., Detournay, O., Tan, K., Davy, S. K., & Weis, V. M. (2017). A diverse host thrombospondin-type-1 repeat protein repertoire promotes symbiont colonization during establishment of cnidarian-dinoflagellate symbiosis. eLife, e24494. https://doi.org/10.7554/eLife.24494

Neubauer, P. (2017). The pāua data logger system. New Zealand Fisheries Assessment Report 2017/54.

Richard, Y., Abraham, E. R., & Berkenbusch, K. (2017). Assessment of the risk of commercial fisheries to New Zealand seabirds, 2006–07 to 2014–15. New Zealand Aquatic Environment and Biodiversity Report No.\ 191.

Richard, Y., Abraham, E. R., & Berkenbusch, K. (2017). Assessment of the risk of commercial fisheries to New Zealand seabirds, 2006–07 to 2014–15: Supplementary information. New Zealand Aquatic Environment and Biodiversity Report No.\ 191S.

Richard, Y., & Abraham, E. R. (2017). Sensitivity of the seabird risk assessment to three years without captures. New Zealand Aquatic Environment and Biodiversity Report No.\ 182. https://www.mpi.govt.nz/document-vault/18386

Thompson, F. N., Abraham, E. R., & Berkenbusch, K. (2017). Preparation of data on observed protected species captures, 2002–03 to 2014–15. New Zealand Aquatic Environment and Biodiversity Report No. 192.

Walker, N., Vallieres, D., & Richard, Y. (2017). Defining “high risk areas” in southern bluefin tuna fisheries.

Abraham, E., Cavanagh, J., Wood, P., Pearson, A., & Mladenov, P. (2016). Cadmium in New Zealand’s agriculture and food systems. In L. D. Currie & R. Singh (Eds.), Integrated nutrient and water management for sustainable farming (pp. 433–437). Fertilizer. http://flrc.massey.ac.nz/publications.html

Abraham, E. R., Richard, Y., & Clements, K. (2016). Evaluating threats to New Zealand seabirds. Department of Conservation, Wellington. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/pre-2019-annual-plans/evaluating-threats-to-nz-seabirds-dragonfly-2016.pdf

Abraham, E. R., Richard, Y., Berkenbusch, K., & Thompson, F. (2016). Summary of the capture of seabirds, marine mammals, and turtles in New Zealand commercial fisheries, 2002–03 to 2012–13. New Zealand Aquatic Environment and Biodiversity Report No. 169. http://mpi.govt.nz/document-vault/12180

MacDiarmid, A. B., Abraham, E., Baker, C. S., Carroll, E., Chagué-Goff, C., Cleaver, P., Francis, M. P., Goff, J., Horn, P., Jackson, J. A., Lalas, C., Lorrey, A., Marriot, P., Maxwell, K., McFadgen, B., McKenzie, A., Neil, H., Parsons, D., Patenaude, N., … Stirling, B. (2016). Taking stock—the changes to New Zealand marine ecosystems since first human settlement: synthesis of major findings, and policy and management implications. New Zealand Aquatic Environment and Biodiversity Report No. 170. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24058

Berkenbusch, K., & Neubauer, P. (2016). Intertidal shellfish monitoring in the northern North Island region, 2015–16. New Zealand Fisheries Assessment Report, 2016/49. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=24186

Debski, I. I., Hjörvarsdóttir, F., Clements, K., Abraham, E., & Richard, Y. (2016). Prioritising research and management of at-sea threats to New Zealand seabirds. In Seventh Meeting of the Seabird Bycatch Working Group. La Serena, Chile, 2-4 May 2016. Ministry for Primary Industries. https://www.acap.aq/en/working-groups/seabird-bycatch-working-group/seabird-bycatch-wg-meeting-7/sbwg7-information-papers/2739-sbwg7-inf-20-prioritising-research-and-management-of-at-sea-threats-to-new-zealand-seabirds/file

Hartill, B., & Thompson, F. (2016). Review of self-reporting tools for recreational fishers. New Zealand Fisheries Assessment Report 2016/06. http://fs.fish.govt.nz/Page.aspx?pk=113&dk=23998

MacDiarmid, A. B., McKenzie, A., & Abraham, E. R. (2016). Top-down effects on rocky reef ecosystems in north-eastern New Zealand: a historic and qualitative modelling approach. New Zealand Aquatic Environment and Biodiversity Report No. 171. http://fs.fish.govt.nz/Page.aspx?pk=113&dk=24059

Menzies, I. J., Youard, L. W., Lord, J. M., Carpenter, K. L., van Klink, J. W., Perry, N. B., Schaefer, H. M., & Gould, K. S. (2016). Leaf colour polymorphisms: a balance between plant defence and photosynthesis. Journal of Ecology, 104(1), 104–113.

Neubauer, P., Berkenbusch, K., Knox, C., & Abraham, E. (2016). Delphi survey to assess the spatial distribution of sea turtles in the Pacific Ocean. In Common Oceans (Ed.), Joint Analysis of Sea Turtle Mitigation Effectiveness (pp. 103–131). Food and Agriculture Organization of the United Nations (FAO). http://www.fao.org/fileadmin/user_upload/common_oceans/docs/Tuna/TurtleMeetingsFinalReport.pdf

Rosli, N., Leduc, D., Rowden, A. A., Clark, M. R., Probert, P. K., Berkenbusch, K., & Neira, C. (2016). Differences in meiofauna communities with sediment depth are greater than habitat effects on the New Zealand continental margin: implications for vulnerability to anthropogenic disturbance. PeerJ, 4, e2154. https://doi.org/10.7717/peerj.2154

Thompson, F. N., Berkenbusch, K., & Abraham, E. R. (2016). Incidental capture of marine mammals in New Zealand trawl fisheries, 1995–96 to 2011–12. New Zealand Aquatic Environment and Biodiversity Report No. 167. http://mpi.govt.nz/document-vault/11947

Abraham, E. R., Richard, Y., Bell, E., & Landers, T. J. (2015). Overlap of the distribution of black petrel (Procellaria parkinsoni) with New Zealand trawl and longline fisheries. New Zealand Aquatic Environment and Biodiversity Report No.\ 161. https://mpi.govt.nz/document-vault/10034

Abraham, E. R., & Neubauer, P. (2015). Relationship between small-scale catch-per-unit-effort and abundance in New Zealand abalone (pāua, Haliotis iris) fisheries. PeerJ Preprints, 3, e1733. https://doi.org/10.7287/peerj.preprints.1388v2

Abraham, E. R. (2015). Trust, but verify. http://www.opensourceopensociety.com/

Berkenbusch, K., Abraham, E., & Neubauer, P. (2015). Distribution and abundance of toheroa in Southland, 2013–14. New Zealand Fisheries Assessment Report, 2015/17.

Berkenbusch, K., Abraham, E., & Neubauer, P. (2015). The influence of habitat characteristics on toheroa Paphies ventricosa.

Berkenbusch, K., & Neubauer, P. (2015). Intertidal shellfish monitoring in the northern North Island region, 2014–15. New Zealand Fisheries Assessment Report, 2015/59. https://fs.fish.govt.nz/Doc/23960/FAR_2015_59_2933_AKI%202014-01.pdf.ashx

Berkenbusch, K., Abraham, E., & Neubauer, P. (2015). Intertidal shellfish monitoring in the northern North Island region, 2013–14. New Zealand Fisheries Assessment Report, 2015/15. https://fs.fish.govt.nz/Page.aspx?pk=113&dk=23774

Calcott, B., Levy, A., Siegal, M. L., Soyer, O. S., & Wagner, A. (2015). Engineering and biology: counsel for a continued relationship. Biological Theory, 10(1), 50–59. https://www.dropbox.com/s/r8ddohae94kku9v/Calcott_et_al_2015_Engineering_and_Biology.pdf?dl=0

Frandsen, P. B., Calcott, B., Mayer, C., & Lanfear, R. (2015). Automatic selection of partitioning schemes for phylogenetic analyses using iterative k-means clustering of site rates. BMC Evolutionary Biology, 15(1), 1–17. https://www.dropbox.com/s/2f5hxvqptkp2ulj/Frandsen_et_al_2015_Automatic_Selection_of_Partitioning_Schemes_for_Phylogenetic_Analyses_Using.pdf?dl=0

Görlitz, S., Berkenbusch, K., & Probert, P. K. (2015). Lugworm (Abarenicola affinis) in seagrass and unvegetated habitats. Helgoland Marine Research, 69, 159–168. https://doi.org/10.1007/s10152-014-0424-1

Griffiths, P. E., Pocheville, A., Calcott, B., Stotz, K., Kim, H., & Knight, R. (2015). Measuring causal specificity. Philosophy of Science, 82(4), 529–555. https://www.dropbox.com/s/99ciaghms6ptzx5/Griffiths_et_al_2015_Measuring_Causal_Specificity.pdf?dl=0

Neubauer, P., Abraham, E., Knox, C., & Richard, Y. (2015). Assessing the performance of pāua (Haliotis iris) fisheries using GPS logger data. New Zealand Fisheries Assessment Report, 2015/71. https://fs.fish.govt.nz/Doc/23975/FAR-2015-71-Paua-data-logger.pdf.ashx

Neubauer, P., & Jensen, O. P. (2015). Bayesian estimation of predator diet composition from fatty acids and stable isotopes. PeerJ, 3, e920. https://doi.org/10.7717/peerj.920

Neubauer, P. (2015). Estimating variability and uncertainty in species diets [Conference presentation, 3rd International Symposium on Effects of climate change on the Word’s Oceans, North Pacific Marine Science Organization (PICES), Santos City, 23–27 March 2015]. https://www.pices.int/publications/presentations/2015-Climate-Change/W1/W1-1100-Neubauer.pdf

Neubauer, P. (2015). Patterns and drivers of resilience in over-fished populations [Seminar, The Technical University of Denmark, Copenhagen, Denmark, May 2015].

Neubauer, P. (2015). Patterns and drivers of resilience in over-fished populations [Invited seminar, University of Canterbury, April 2015].

Neubauer, P., Abraham, E. R., & Berkenbusch, K. (2015). Predictability of cockle (Austrovenus stutchburyi) population trends in New Zealand’s northern North Island. PeerJ PrePrints, 3, e1772. https://peerj.com/preprints/1422/

Payne, M. R., Barange, M., Cheung, W. W. L., Mackenzie, B. R., Batchelder, H. P., Cormon, X., Eddy, T. D., Fernandes, J. A., Hollowed, A., Jones, M. C., Link, J. S., Neubauer, P., Ortiz, I., Queiros, A. D. M., & Paula, J. R. (2015). Uncertainties in projecting climate change impacts in marine ecosystems. ICES Journal of Marine Science, 73, 1272–1282. https://doi.org/10.1093/icesjms/fsv231

Pierre, J. P., Goad, D. W., & Abraham, E. R. (2015). Novel approaches to line-weighting in New Zealand’s inshore surface-longline fishery. https://www.doc.govt.nz/our-work/conservation-services-programme/csp-reports/2012-13/novel-approaches-to-line-weighting-in-new-zealands-inshore-surface-longline-fishery/

Pierre, J. P., Thompson, F. N., & Mansfield, R. (2015). Optimisation of protocols employed by government observer for protected species data collection. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/pre-2019-annual-plans/optimisation-of-protocols-employed-by-new-zealand-government-fisheries-observers-for-protected-species-data-collection-2015.pdf

Richard, Y., Perriman, L., Lalas, C., & Abraham, E. R. (2015). Demographic rates of northern royal albatross at Taiaroa Head, New Zealand. PeerJ, 3, e906. https://doi.org/10.7717/peerj.906

Richard, Y., & Abraham, E. R. (2015). Assessment of the risk of commercial fisheries to New Zealand seabirds, 2006–07 to 2012–13: Supplementary information. New Zealand Aquatic Environment and Biodiversity Report No.\ 162. http://fs.fish.govt.nz/Doc/23980/AEBR-162-risk-supplement.pdf.ashx

Richard, Y., & Abraham, E. R. (2015). Assessment of the risk of commercial fisheries to New Zealand seabirds, 2006–07 to 2012–13. New Zealand Aquatic Environment and Biodiversity Report No.\ 162. https://www.mpi.govt.nz/document-vault/10523

Thompson, F. (2015). Querying Bayesian model output with PostgreSQL.

Thompson, F. N., Berkenbusch, K., & Beritzhoff-Law, M. (2015). Reported New Zealand sea lion (Phocarctos hookeri) captures in commercial trawl fisheries, 1991–92 to 2012–13. New Zealand Aquatic Environment and Biodiversity Report No. 145. https://www.mpi.govt.nz/document-vault/7974

Abraham, E., & Bell, E. (2014). Black petrel demography. Bayesian estimation of black petrel demographic parameters from mark-recapture data. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/meetings/pre-2020-meetings/pop2013-04-black-petrel-dragonfly-demographics-presentation.pdf

Abraham, E., & Bagnall, D. (2014). Identifying nocturnal bird calls. https://speakerdeck.com/edwardabraham/identifying-nocturnal-bird-calls-again

Armstrong, D. P., Gorman, N., Pike, R., Kreigenhofer, B., McArthur, N., Govella, S., Barrett, P., & Richard, Y. (2014). Strategic rat control for restoring populations of native species in forest fragments. Conservation Biology, 28(3), 713–723. https://doi.org/10.1111/cobi.12256

Bagnall, D., & Abraham, E. (2014). Identifying nocturnal bird calls. https://speakerdeck.com/edwardabraham/identifying-nocturnal-bird-calls

Bell, E. A., Sim, J. L., Abraham, E., Torres, L., & Schaffer, S. (2014). At-sea distribution of the black petrels (Procellaria parkinsoni) on Great Barrier Island (Aotea Island), 2009–10: Part 2 – Overlap with fisheries. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/meetings/pop-2009-01-black-petrel-spatial-analysis-part-2-fisheries-overlap.pdf

Bell, E., Sim, J., Torres, L., Schaffer, S., & Abraham, E. (2014). At-sea distribution of black petrel, Procellaria parkinsoni, on Great Barrier Island, Hauraki Gulf, New Zealand. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/pop-2009-01-black-petrel-foraging-presentation.pdf

Calcott, B. (2014). The creation and reuse of information in gene regulatory networks. Philosophy of Science, 81(5), 879–890. https://www.dropbox.com/s/jym9r3mkqkzpi5r/Calcott_2014_The_Creation_and_Reuse_of_Information_in_Gene_Regulatory_Networks.pdf?dl=0

O. Jensen and J. K. Baum and T. A. Branch and R. Hilborn and P. Neubauer and J. T. Thorson and K. A. Vert-Pre. (2014). Improving stock assessment through meta-analysis using the RAM Legacy Stock Assessment Database.

Leduc, D., Nodder, S. D., Berkenbusch, K., & Rowden, A. A. (2014). Effect of core surface area and sediment depth on estimates of deep-sea nematode genus richness and community structure. Marine Biodiversity, 45, 349–356.

Morrison, M. A., Jones, E. G., Consalvey, M., & Berkenbusch, K. (2014). Linking marine fisheries species to biogenic habitats in New Zealand: a review and synthesis of knowledge. New Zealand Aquatic Environment and Biodiversity Report No.\ 130. https://www.mpi.govt.nz/document-vault/4373

Neubauer, P. (2014). Estimating variability and uncertainty in predatory relationships [Conference presentation, New Zealand Marine Sciences Society conference, Nelson, New Zealand, 12–14 August 2014].

Neubauer, P., & Abraham, E. (2014). Using GPS logger data to monitor change in the PAU7 pāua (Haliotis iris) fishery. New Zealand Fisheries Assessment Report 2014/31.

Pierre, J. P., Richard, Y., & Abraham, E. R. (2014). Assessment of cryptic seabird mortality due to trawl warps and longlines. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/meetings/pre-2020-meetings/assessment-crypic-seabird-mortality-due-to-trawl-warps-and-longlines-presentation.pdf

Pierre, J. P., Richard, Y., & Abraham, E. R. (2014). Assessment of cryptic seabird mortality due to trawl warps and longlines (p. 46). https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/pre-2019-annual-plans/int2013-05-cryptic-seabird-mortality-draft-report.pdf

Pierre, J., Thompson, F., Goad, D., & Cleal, J. (2014). MIT2013-03: Characterisation of smaller vessel deepwater bottom longline operations in relation to risk factors for seabird capture. Proposed methods.

Pierre, J. P., Goad, D. W., & Abraham, E. R. (2014). Novel approaches to line-weighting in inshore surface longline fisheries. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/meetings/novel-approaches-to-line-weighting-in-inshore-surface-longline-fisheries-presentation-dec-2014.pdf

Pierre, J. P., Goad, D. W., & Abraham, E. R. (2014). Novel approaches to line-weighting in New Zealand’s inshore surface-longline fishery. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/meetings/surface-longline-seabird-mitigation.pdf

Pierre, J., Thompson, F., & Mansfield, R. (2014). Optimisation of protocols employed by NZ government fisheries observers for protected species data collection. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/meetings/pre-2020-meetings/optimisation-of-protocols-emplyed-by-nz-government-fisheries-observers-for-protected-species-data-collection-presentation-dec-2014.pdf

Pierre, J. P., Thompson, F. N., & Mansfield, R. (2014). Optimisation of protocols employed by government observer for protected species data collection. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/meetings/pre-2020-meetings/optimisation-protocols-employed-by-nz-government-fisheries-observers-for-protected-species-data-collection.pdf

Pierre, J. P., Thompson, F. N., & Cleal, J. (2014). Seabird interactions with the deepwater bottom-longline fleet. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/reports/mit2013-03-characterisation-of-bll.pdf

Richard, Y., Pierre, J. P., & Abraham, E. R. (2014). Seasonality and temporal trends in counts of seabirds from pelagic tours off Kaikoura, New Zealand (p. 50 p).

Bell, E. A., Mischler, C., Sim, J. L., Scofield, P., Francis, C., Abraham, E., & Landers, T. (2013). At-sea distribution and population parameters of the black petrels (Procellaria parkinsoni) on Great Barrier Island (Aotea Island), 2013–14. http://bit.ly/1rz0HN4

Bellier, E., Neubauer, P., Monestiez, P., Letourneur, Y., Ledireach, L., Bonhomme, P., & Bachet, F. (2013). Marine reserve spillover: modelling from multiple data sources. Ecological Informatics, 18, 188–193. https://doi.org/10.1016/j.ecoinf.2013.09.004

Berkenbusch, K., Abraham, E. R., & Torres, L. G. (2013). New Zealand marine mammals and commercial fisheries. New Zealand Aquatic Environment and Biodiversity Report No. 119.

Görlitz, S., Berkenbusch, K., & Probert, P. K. (2013). Distribution and abundance of Abarenicola affinis (Arenicolidae, Polychaeta) in tidal inlets of Otago, New Zealand. New Zealand Journal of Marine and Freshwater Research, 47, 548–560. https://doi.org/10.1080/00288330.2013.815641

Leduc, D., Rowden, A. A., Nodder, S. D., Berkenbusch, K., Probert, P. K., & Hadfield, M. G. (2013). Unusually high food availability in Kaikoura Canyon linked to distinct deep-sea nematode community. Deep Sea Research Part II: Topical Studies in Oceanography. https://doi.org/10.1016/j.dsr2.2013.06.003

Neubauer, P., Shima, J. S., & Swearer, S. E. (2013). Inferring dispersal and migrations from incomplete geochemical baselines: analysis of population structure using Bayesian infinite mixture models. Methods in Ecology and Evolution, 4(9), 836–845. https://doi.org/10.1111/2041-210X.12076

Neubauer, P., Jensen, O. P., Hutchings, J. A., & Baum, J. K. (2013). Resilience and recovery of overexploited marine populations. Science, 340(6130), 347–349. https://doi.org/10.1126/science.1230441

Philipp Neubauer. (2013). The end of the line? Patterns and mechanisms of resilience in fisheries.

Pierre, J., Goad, D., Thompson, F. N., & Abraham, E. R. (2013). Inshore bottom longline seabird mitigation. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/csp-twg-31-7-2013-pierre-goad-presentation-bll-mitigation.pdf

Pierre, J. P., Goad, D. W., Thompson, F. N., & Abraham, E. R. (2013). Reducing seabird bycatch in bottom-longline fisheries. https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/marine-conservation-services/reports/pre-2019-annual-plans/mit2012-01-reducing-seabird-bycatch-in-bottom-longline-fisheries.pdf

Pierre, J. P., Cleal, J., Thompson, F. N., & Abraham, E. R. (2013). Seabird bycatch reduction in scampi trawl fisheries (p. 26). https://www.doc.govt.nz/globalassets/documents/conservation/marine-and-coastal/fishing/mit2011-02-final-report.pdf

Pierre, J. P., & Goad, D. W. (2013). Seabird bycatch reduction in New Zealand’s inshore surface longline fishery. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/meetings/mit-2012-01-sll-progress-report.pdf

Richard, Y., & Abraham, E. R. (2013). Application of Potential Biological Removal methods to seabird populations. New Zealand Aquatic Environment and Biodiversity Report No.\ 108. https://www.mpi.govt.nz/document-vault/4267

Richard, Y. (2013). From data to report. State-of-the-art tools for streamlining data management, analysis and report production in ecological research [Invited seminar, Massey University, 6 August 2013].

Richard, Y., & Abraham, E. R. (2013). Risk of commercial fisheries to New Zealand seabird populations: Supplementary information. New Zealand Aquatic Environment and Biodiversity Report No.\ 109S. http://www.mpi.govt.nz/document-vault/4266

Richard, Y., & Abraham, E. R. (2013). Risk of commercial fisheries to New Zealand seabird populations. New Zealand Aquatic Environment and Biodiversity Report No.\ 109. http://www.mpi.govt.nz/document-vault/4265

Sharp, B. R., Cryer, M., Richard, Y., & Abraham, E. R. (2013). New Zealand’s approach to assessment of risk to seabirds associated with fishing-related mortality. 5th Meeting of the Seabird Bycatch Working Group, La Rochelle, France, 1–3 May 2013, 11 p. http://acap.aq/en/working-groups/seabird-bycatch-working-group/seabird-bycatch-wg-meeting-5/2040-sbwg5-doc-12-new-zealand-s-approach-to-assessment-of-risk-to-seabirds-associated-with-fishing-related-mortality/file

Thompson, F. N., Abraham, E. R., & Berkenbusch, K. (2013). Common dolphin (Delphinus delphis) bycatch in New Zealand commercial trawl fisheries. PLoS ONE, 8, e64438. https://doi.org/10.1371/journal.pone.0064438

Thompson, F. N., Berkenbusch, K., & Abraham, E. R. (2013). Marine mammal bycatch in New Zealand trawl fisheries, 1995–96 to 2010–11. New Zealand Aquatic Environment and Biodiversity Report No. 105. https://www.mpi.govt.nz/document-vault/4241

Abraham, E., & Cooper, J. (2012). Pāua catch-per-unit effort from GPS dive-loggers.

Abraham, E. R. (2012). Pāua catch per unit effort from logger data (p. 28). http://fs.fish.govt.nz/Doc/23163/2013-03_2621_PAU2010-03_MS3_fighting-bay%20final%20FRR.pdf.ashx

Abraham, E. (2012). Seabird bycatch in New Zealand fisheries.

Cooney, L. J., Klink, J. W. V., Hughes, N. M., Perry, N. B., Schaefer, H. M., Menzies, I. J., & Gould, K. S. (2012). Red leaf margins indicate increased polygodial content and function as visual signals to reduce herbivory in Pseudowintera colorata. New Phytologist, 194(2), 488–497.

Lörz, A. N., Berkenbusch, K., Nodder, S., Ahyong, S., Bowden, D., McMillan, P., Gordon, D., Mills, S., & Mackay, K. (2012). A review of deep-sea benthic biodiversity associated with trench, canyon and abyssal habitats below 1500 m depth in New Zealand waters. New Zealand Aquatic Environment and Biodiversity Report No.\ 92. http://fs.fish.govt.nz/Doc/22980/AEBR_92.pdf.ashx

Middleton, D., Wells, R., Abraham, E., & Pierre, J. (2012). Managing seabird incidental mortality in New Zealand’s deepwater trawl fleet: creating individual vessel solutions in a fleet-wide approach, informed by experimental evidence.

Neubauer, P. (2012). Development and application of otolith-based methods to infer demographic connections in a marine metapopulation [Phdthesis, Victoria University of Wellington]. http://hdl.handle.net/10063/2051

Neubauer, P., Ricard, D., Baum, J. K., Jensen, O., & Minto, C. (2012). The RAM Legacy Stock Assessment Database: opportunities for meta-analysis of patterns and processes in fished populations.

Neubauer, P., Jensen, O., & Baum, J. K. (2012). A survival analysis of global fish stocks.

Pierre, J. P., Abraham, E. R., Richard, Y., Cleal, J., & Middleton, D. A. J. (2012). Controlling trawler waste discharge to reduce seabird mortality. Fisheries Research, 131–133, 30–38. https://doi.org/10.1016/j.fishres.2012.07.005

Pierre, J., Abraham, E., Richard, Y., & Middleton, D. (2012). Reducing seabird bycatch through improving management of fisheries waste.

Pierre, J. P., Abraham, E. R., Cleal, J., & Middleton, D. A. J. (2012). Reducing effects of trawl fishing on seabirds by limiting foraging opportunities provided by fishery waste. Emu, 112(3), 244–254. https://doi.org/10.1071/MU12002

Richard, Y., Abraham, E., & Filippi, D. (2012). Risk of commercial fisheries to seabird populations within the New Zealand EEZ.

Rowden, A. A., Berkenbusch, K., Brewin, P. E., Dalen, J., Neill, K. F., Nelson, W. A., Oliver, M. D., Probert, P. K., Schwarz, A.-M., Sui, P. H., & Sutherland, D. (2012). A review of the marine soft-sediment assemblages of New Zealand. New Zealand Aquatic Environment and Biodiversity Report No.\ 96. https://www.mpi.govt.nz/document-vault/4176

Waugh, S. M., Filippi, D. P., Kirby, D. S., Abraham, E., & Walker, N. (2012). Ecological Risk Assessment for seabird interactions in Western and Central Pacific longline fisheries. Marine Policy, 36(4), 933–946. https://doi.org/10.1016/j.marpol.2011.11.005

Abraham, E. R., Richard, Y., & Thompson, F. (2011). Offal batching reduces seabird attendance at fishing vessels. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/2011-04-11-seabird-distributions-doc-csp.pdf

Abraham, E., & Richard, Y. (2011). Overlap of black petrel distributions with New Zealand fisheries. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/pop-2009-01-black-petrel-fishing-overlay-presentation.pdf

Abraham, E. R., & Thompson, F. N. (2011). Estimated capture of seabirds in New Zealand trawl and longline fisheries, 2002–03 to 2008–09. New Zealand Aquatic Environment and Biodiversity Report No.\ 79.

Abraham, E. R., Richard, Y., & Thompson, F. (2011). Seabird distributions from observer count data. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/marine-conservation-services/2011-04-11-offal%20batching-doc-csp.pdf

Abraham, E. R., & Thompson, F. N. (2011). Summary of the capture of seabirds, marine mammals, and turtles in New Zealand commercial fisheries, 1998–99 to 2008–09. New Zealand Aquatic Environment and Biodiversity Report No. 80.

Baum, J. K., Davis, T., Neubauer, P., Jensen, O., Hutchings, J. A., Ricard, D., & Minto, C. (2011). Collapse and recovery of marine fishes: are conservation biology and fisheries science criteria really all that different?

Berkenbusch, K., Probert, P. K., & Nodder, S. D. (2011). Comparative biomass of sediment benthos across a depth transect, Chatham Rise, southwest Pacific Ocean. Marine Ecology Progress Series, 425, 79–90. https://doi.org/10.3354/meps09014

Guitierrez, J. L., Jones, C. G., Byers, J. E., Arkema, K. K., Berkenbusch, K., Commito, J. A., Duarte, C. M., Hacker, S. D., Hogarth, P. J., Lambrinos, J. G., Palomo, M. G., Wild, C., & Hendricks, I. E. (2011). Physical ecosystem engineers and the functioning of estuaries and coasts. In E. Wolanski & D. McLusky (Eds.), Treatise on estuarine and coastal science (pp. 53–81). Elsevier. https://doi.org/10.1016/B978-0-12-374711-2.00705-1

Harvey, M., Law, C., Smith, M., Hall, J., Abraham, E., Stevens, C., Hadfield, M., Ho, D., Ward, B., Archer, S., Cainey, J., Currie, K., Devries, D., Ellwood, M., Hill, P., Jones, G., Katz, D., Kuparinen, J., & others. (2011). The SOLAS air–sea gas exchange experiment (SAGE) 2004. Deep Sea Research Part II: Topical Studies in Oceanography, 58(6), 753–763. https://doi.org/10.1016/j.dsr2.2010.10.015

Miller, S. L., & Abraham, E. R. (2011). Characterisation of New Zealand kina fisheries. New Zealand Fisheries Assessment Report 2011/7. http://fs.fish.govt.nz/Doc/22817/11_07_FAR.pdf.ashx

Richard, Y., Abraham, E. R., & Filippi, D. (2011). Assessment of the risk to seabird populations from New Zealand commercial fisheries – Supplementary material (p. 77).

Richard, Y., Abraham, E. R., & Filippi, D. (2011). Assessment of the risk to seabird populations from New Zealand commercial fisheries (p. 66). http://fs.fish.govt.nz/Doc/22912/IPA2009-20%20report.pdf.ashx

Richard, Y., Abraham, E. R., & Filippi, D. (2011). Counts of seabirds around commercial fishing vessels within New Zealand waters (p. 30). http://files.dragonfly.co.nz/publications/pdf/Richardetal_2011_counts.pdf

Thompson, F. N., & Abraham, E. R. (2011). Estimation of the capture of New Zealand sea lions (Phocarctos hookeri) in trawl fisheries, from 1995–96 to 2008–09. New Zealand Aquatic Environment and Biodiversity Report No.\ 66. http://fs.fish.govt.nz/Doc/22903/AEBR_66.pdf.ashx

Abraham, E. R. (2010). Mincing offal to reduce the attendance of seabirds at trawlers. Department of Conservation, Wellington. http://www.doc.govt.nz/documents/conservation/marine-and-coastal/marine-conservation-services/mincing-offal-to-reduce-attendance-of-seabirds-at-trawlers.pdf

Abraham, E. R., Berkenbusch, K. N., & Richard, Y. (2010). The capture of seabirds and marine mammals in New Zealand non-commercial fisheries. New Zealand Aquatic Environment and Biodiversity Report No.\ 64.

Abraham, E. R., & Thompson, F. N. (2010). Estimated capture of seabirds in New Zealand trawl and longline fisheries, 2002–03 to 2006–07. http://fs.fish.govt.nz/Doc/22909/PRO2007-01%20%28Obj%201%20RR%207%29.pdf.ashx

Abraham, E. R., Thompson, F. N., & Oliver, M. D. (2010). Summary of the capture of seabirds, marine mammals and turtles in New Zealand commercial fisheries, 1998–99 to 2007–08. New Zealand Aquatic Environment and Biodiversity Report No. 45.

Abraham, E. R. (2010). Warp strike in New Zealand trawl fisheries, 2004–05 to 2008–09. New Zealand Aquatic Environment and Biodiversity Report No. 60.

Boulton, R. L., Richard, Y., & Armstrong, D. P. (2010). The effect of male incubation feeding, food and temperature on the incubation behaviour of New Zealand robins. Ethology, 116(6), 490–497. https://doi.org/10.1111/j.1439-0310.2010.01759.x

Leduc, D., Probert, P. K., Berkenbusch, K., Nodder, S. D., & Pilditch, C. A. (2010). Abundance of small individuals influences the effectiveness of processing techniques for deep-sea nematodes. Deep Sea Research Part I: Oceanographic Research Papers, 57, 1363–1371. https://doi.org/10.1016/j.dsr.2010.07.002

Menzies, I. J., & Burns, K. (2010). Temporal shifts in the pair-bond dynamics of New Zealand robins (Petroica australis). New Zealand Journal of Ecology, 265–268.

Morgan, K., McArthur, N., Johnston, R., Richard, Y., & Armstrong, D. P. (2010). Using translocation of North Island robins to counter effects of forest fragmentation in the central North Island of New Zealand. In P. S. Soorae (Ed.), Global re-introduction perspectives: re-introduction case-studies from around the globe (pp. 116–120). IUCN/SSC Re-introduction Specialist Group.

Neubauer, P., Shima, J. S., & Swearer, S. E. (2010). Scale-dependent variability in Forsterygion lapillum hatchling otolith chemistry: implications and solutions for studies of population connectivity. Marine Ecology Progress Series, 415, 263–274. https://doi.org/10.3354/meps08741

Pierre, J. P., Abraham, E. R., Middleton, D. A. J., Cleal, J., Bird, R., Walker, N. A., & Waugh, S. M. (2010). Reducing interactions between seabirds and trawl fisheries: responses to foraging patches provided by fish waste batches. Biological Conservation, 143, 2779–2788. https://doi.org/10.1016/j.biocon.2010.07.026

Richard, Y., & Armstrong, D. P. (2010). Cost distance modelling of landscape connectivity and gap-crossing ability using radio-tracking data. Journal of Applied Ecology, 47(3), 603–610. https://doi.org/10.1111/j.1365-2664.2010.01806.x

Richard, Y., & Armstrong, D. P. (2010). The importance of integrating landscape ecology in habitat models: isolation-driven occurrence of north island robins in a fragmented landscape. Landscape Ecology, 25, 1363–1374. https://doi.org/10.1007/s10980-010-9488-8

Thompson, F. N., Abraham, E. R., & Berkenbusch, K. (2010). Common dolphin (Delphinus delphis) bycatch in New Zealand mackerel trawl fisheries, 1995–96 to 2008–09. New Zealand Aquatic Environment and Biodiversity Report No. 63.

Thompson, F. N., Abraham, E. R., & Oliver, M. D. (2010). Estimation of fur seal bycatch in New Zealand trawl fisheries, 2002–03 to 2007–08. New Zealand Aquatic Environment and Biodiversity Report No. 56. http://fs.fish.govt.nz/Doc/22314/AEBR_56%20Fur%20lion%20estimation%200708.pdf.ashx

Thompson, F. N., & Abraham, E. R. (2010). Estimation of fur seal (Arctocephalus forsteri) bycatch in New Zealand trawl fisheries, 2002–03 to 2008–09. New Zealand Aquatic Environment and Biodiversity Report No. 61. http://fs.fish.govt.nz/Doc/22390/AEBR_61.pdf.ashx

Thompson, F. N., Oliver, M. D., & Abraham, E. R. (2010). Estimation of the capture of New Zealand sea lions (Phocarctos hookeri) in trawl fisheries, from 1995–96 to 2007–08. New Zealand Aquatic Environment and Biodiversity Report No. 52. http://fs.fish.govt.nz/Doc/22271/AEBR_52.pdf.ashx

Abraham, E. R., Pierre, J. P., Middleton, D. A. J., Cleal, J., Walker, N. A., & Waugh, S. M. (2009). Effectiveness of fish waste management strategies in reducing seabird attendance at a trawl vessel. Fisheries Research, 95(2–3), 210–219. https://doi.org/10.1016/j.fishres.2008.08.014

Abraham, E. R. (2009). Batching of waste to reduce seabird numbers behind trawl vessels. http://www.doc.govt.nz/documents/conservation/marine-and-coastal/fishing/twg/csp-16-mar-meeting-batching-high-res.pdf

Abraham, E. R., & Thompson, F. N. (2009). Capture of protected species in New Zealand trawl and longline fisheries, 1998–99 to 2006–07. New Zealand Aquatic Environment and Biodiversity Report No. 32.

Abraham, E. R., & Thompson, F. N. (2009). Warp strike in New Zealand trawl fisheries, 2004–05 to 2006–07. New Zealand Aquatic Environment and Biodiversity Report No. 33.

Berkenbusch, K., & Abraham, E. (2009). Incidental capture of seabirds in recreational fisheries in New Zealand.

Lewis, R. M., Armstrong, D. P., Joy, M. K., Richard, Y., Ravine, D., Berggren, A., & Boulton, R. L. (2009). Using artificial nests to predict nest survival at reintroduction sites. New Zealand Journal of Ecology, 33, 40–51. http://www.jstor.org/stable/24060861

Mills, V. S., & Berkenbusch, K. (2009). Seagrass (Zostera muelleri) patch size and spatial location influence infaunal macroinvertebrate assemblages. Estuarine, Coastal and Shelf Science, 81, 123–129. https://doi.org/10.1016/j.ecss.2008.10.005

Mongin, M., Abraham, E., & Trull, T. (2009). Winter advection of iron can explain the summer phytoplankton bloom that extends 1000 km downstream of the Kerguelen Plateau in the Southern Ocean. Journal of Marine Research, 67, 225–237. https://doi.org/10.1357/002224009789051218

Thompson, F. N., & Abraham, E. R. (2009). Dolphin bycatch in New Zealand trawl fisheries, 1995–96 to 2006–07. New Zealand Aquatic Environment and Biodiversity Report No. 36. http://fs.fish.govt.nz/Doc/22002/AEBR_36.pdf.ashx

Thompson, F. N., Abraham, E. R., & Oliver, M. D. (2009). Common dolphin (Delphinus delphis) bycatch in New Zealand mackerel trawl fisheries, 1995–96 to 2007–08. Final Research Report for research project PRO2007/02. (Unpublished report held by Ministry of Fisheries, Wellington). http://fs.fish.govt.nz/Page.aspx?pk=113&dk=22905

Thompson, F., Abraham, E., & Oliver, M. (2009). Seabird abundance project update. http://www.doc.govt.nz/Documents/conservation/marine-and-coastal/fishing/twg/seabird-abundance-count-twgpresentation.pdf

Thompson, F. N., & Abraham, E. R. (2009). Estimation of the capture of New Zealand sea lions (Phocarctos hookeri) in trawl fisheries, from 1995–96 to 2006–07. New Zealand Aquatic Environment and Biodiversity Report No. 41. http://fs.fish.govt.nz/Doc/22073/AEBR_41.pdf.ashx

Thompson, F. N., & Abraham, E. R. (2009). Six monthly summary of the capture of protected species in New Zealand commercial fisheries, summer 2007–08. New Zealand Aquatic Environment and Biodiversity Report No. 35. http://fs.fish.govt.nz/Doc/22001/AEBR_35.pdf.ashx

Waugh, S., Filippi, D., & Abraham, E. (2009). Ecological risk assessment for seabirds in New Zealand fisheries. http://fs.fish.govt.nz/Doc/22904/PRO2008-01.pdf.ashx

Abraham, E. R. (2008). Evaluating methods for estimating the incidental capture of New Zealand sealions. New Zealand Aquatic Environment and Biodiversity Report No. 15. http://fs.fish.govt.nz/Page.aspx?pk=113&dk=21571

Abraham, E. R. (2008). Mincing and mealing: A test of offal management strategies to reduce interactions between seabirds and trawl vessels. http://www.doc.govt.nz/documents/conservation/marine-and-coastal/fishing/seabirds-trawlvessels-interaction-mincing-and-mealing.pdf

Abraham, E. R., & Kennedy, A. (2008). Seabird warp strike in the southern squid trawl fishery, 2004–05. New Zealand Aquatic Environment and Biodiversity Report No.\ 16.

Armstrong, D. P., Richard, Y., Ewen, J. G., & Dimond, W. J. (2008). Avoiding hasty conclusions about effects of habitat fragmentation. Avian Conservation and Ecology-Ecologie et Conservation Des Oiseaux, 3(1), 8. http://www.ace-eco.org/vol3/iss1/art8/

Boulton, R. L., Richard, Y., & Armstrong, D. P. (2008). Influence of food availability, predator density and forest fragmentation on nest survival of New Zealand robins. Biological Conservation, 141(2), 580–589. https://doi.org/10.1016/j.biocon.2007.12.007

Menzies, I. J., & Burns, K. C. (2008). Food hoarding in the New Zealand robin: a review and synthesis. In Weber, E.A. and Krause, L.H. (eds.). Animal behaviour: new research (pp. 163–183). Nova Science Publishers.

Waugh, D. W., & Abraham, E. R. (2008). Stirring in the global surface ocean. Geophysical Research Letters, 35(20), L20605. https://doi.org/10.1029/2008GL035526

Abraham, E. R. (2007). Sea-urchin feeding fronts. Ecological Complexity, 4, 161–168. https://doi.org/10.1016/j.ecocom.2007.06.001

Abraham, E. R., & Pierre, J. (2007). Mincing, mealing and batching: Waste management strategies aimed at reducing seabird interactions with trawl vessels. https://www.ccamlr.org/en/wg-fsa-07/42

Abraham, E. R. (2007). Summary of data collected during the southern squid-fishery mincing trial. http://tinyurl.com/abrsquidmince

Berkenbusch, K., & Rowden, A. A. (2007). An examination of the spatial and temporal generality of the influence of ecosystem engineers on the composition of associated assemblages. Aquatic Ecology, 41(1), 129–147. https://doi.org/10.1007/s10452-006-9053-3

Berkenbusch, K., Rowden, A. A., & Myers, T. E. (2007). Interactions between seagrasses and burrowing ghost shrimps and their influence on infaunal assemblages. Journal of Experimental Marine Biology and Ecology, 341, 70–84. https://doi.org/10.1016/j.jembe.2006.10.026

Middleton, D. A. J., & Abraham, E. R. (2007). The efficacy of warp strike mitigation devices: trials in the 2006 squid fishery. http://fs.fish.govt.nz/Page.aspx?pk=113&dk=22910

Richard, Y. (2007). Demography and distribution of the North Island robin (Petroica longipes) in a fragmented agricultural landscape of New Zealand [Phdthesis].

Bakker, D. C. E., Boyd, P. W., Abraham, E. R., Charette, M. A., Gall, M. P., Hall, J. A., Law, C. S., Nodder, S. D., Safi, K., Singleton, D. J., & others. (2006). Matching carbon pools and fluxes for the Southern Ocean Iron Release Experiment (SOIREE). Deep-Sea Research Part I, 53(12), 1941–1960. https://doi.org/10.1016/j.dsr.2006.08.014

Grove, S. L., Probert, P. K., Berkenbusch, K. K., & Nodder, S. D. (2006). Distribution of bathyal meiofauna in the region of the Subtropical Front, Chatham Rise, south-west Pacific. Journal of Experimental Marine Biology and Ecology, 330, 342–355. https://doi.org/10.1016/j.jembe.2005.12.038

Law, C., Crawford, W., Smith, M., Boyd, P., Wong, C., Nojiri, Y., Robert, M., Abraham, E., Johnson, W., Forsland, V., & others. (2006). Patch evolution and the biogeochemical impact of entrainment during an iron fertilisation experiment in the sub-Arctic Pacific. Deep-Sea Research Part II, 53(20–22), 2012–2033. https://doi.org/10.1016/j.dsr2.2006.05.028

MacDiarmid, A., Abraham, E., McKenzie, A., Dolan, T., Goodrich, M., & Butler, M. (2006). Individual based, spatially explicit models to explore the mating systems of the red rock lobster Jasus edwardsii and the Caribbean spiny lobster Panulirus argus. The Lobster Newsletter, 19(1), 8–9. http://www.fish.wa.gov.au/Documents/rock_lobster/the_lobster_newsletter/lobster_newsletter_v19_no1.pdf

Mansfield, R. (2006). Stability and evolution in rock-paper-scissors ecologies [Phdthesis]. Victoria University of Wellington.

Waugh, D. W., Abraham, E. R., & Bowen, M. M. (2006). Spatial Variations of Stirring in the Surface Ocean: A Case Study of the Tasman Sea. Journal of Physical Oceanography, 36(3), 526–542. https://doi.org/10.1175/JPO2865.1

Law, C., Abraham, E., Woodward, E., Liddicoat, M., Fileman, T., Thingstad, T., Kitidis, V., & Zohary, T. (2005). The fate of phosphate in an in situ Lagrangian addition experiment in the Eastern Mediterranean. Deep-Sea Research Part II, 52(22–23), 2911–2927. https://doi.org/10.1016/j.dsr2.2005.08.017

Stevens, C. L., Abraham, E. R., Moore, C. M., Boyd, P. W., & Sharples, J. (2005). Observations of small-scale processes associated with the internal tide encountering an island. Journal of Physical Oceanography, 35(9), 1553–1567.

Boyd, P. W., Law, C. S., Wong, C., Nojiri, Y., Tsuda, A., Levasseur, M., Takeda, S., Rivkin, R., Harrison, P. J., Strzepek, R., & others. (2004). The decline and fate of an iron-induced subarctic phytoplankton bloom. Nature, 428(6982), 549–553. https://doi.org/10.1038/nature02437

Frean, M. R., & Abraham, E. R. (2004). Adaptation and enslavement in endosymbiont-host associations. Physical Review E, 69(5), 051913 (6 pages). https://doi.org/10.1103/PhysRevE.69.051913

Lohrer, A. M., Thrush, S. F., Hewitt, J. E., Berkenbusch, K., Ahrens, M., & Cummings, V. J. (2004). Terrestrially derived sediment: response of marine macrobenthic communities to thin terrigenous deposits. Marine Ecology Progress Series, 273, 121–138. https://doi.org/10.3354/meps273121

Berkenbusch, K., & Rowden, A. A. (2003). Ecosystem engineering – moving away from “just-so” stories. New Zealand Journal of Ecology, 27, 67–73. http://www.jstor.org/stable/24058163

Law, C., Abraham, E., Watson, A., & Liddicoat, M. (2003). Vertical eddy diffusion and nutrient supply to the surface mixed layer of the Antarctic Circumpolar Current. Journal of Geophysical Research, 108, 3272. https://doi.org/0.1029/2002JC001604

Moore, C. M., Suggett, D., Holligan, P. M., Sharples, J., Abraham, E. R., Lucas, M. I., Rippeth, T. P., Fisher, N. R., Simpson, J. H., & Hydes, D. J. (2003). Physical controls on phytoplankton physiology and production at a shelf sea front: a fast repetition-rate fluorometer based field study. Marine Ecology Progress Series, 259, 29–45. https://doi.org/10.3354/meps259029

Abraham, E. R., & Bowen, M. M. (2002). Chaotic stirring by a mesoscale surface-ocean flow. Chaos: An Interdisciplinary Journal of Nonlinear Science, 12, 373. https://doi.org/10.1063/1.1481615

Berkenbusch, K., Thrush, S., Hewitt, J., Ahrens, M., Gibbs, M., & Cummings, V. (2002). Impact of thin deposits of terrigenous clay on benthic communities. http://www.aucklandcity.govt.nz/council/documents/technicalpublications/TP161_Impact%20of%20terrigenous%20clay%20on%20benthic%20communities_web.pdf

Abraham, E. R. (2001). The fractal branching of an arborescent sponge. Marine Biology, 138(3), 503–510. https://doi.org/10.1007/s002270000479

Abraham, E. R. (2001). The branching sponge Raspailia inaequalis. In Kaandorp, J. and Kübler, J. (eds.) The algorithmic beauty of seaweeds, sponges and corals (pp. 34–38). Springer.

Abraham, E. R. (2001). A Laplacian model of branching growth. In Kaandorp, J. and Kübler, J. (eds.) The algorithmic beauty of seaweeds, sponges and corals (pp. 109–113). Springer.

Abraham, E. R. (2001). Morphological analysis of a branching sponge. In Kaandorp, J. and Kübler, J. (eds.) The algorithmic beauty of seaweeds, sponges and corals (pp. 72–75). Springer.

Boyd, P., & Abraham, E. (2001). Iron-mediated changes in phytoplankton photosynthetic competence during SOIREE. Deep-Sea Research Part II, 48(11–12), 2529–2550. https://doi.org/10.1038/35037500

Frean, M., & Abraham, E. R. (2001). Rock-scissors-paper and the survival of the weakest. Proceedings of the Royal Society B: Biological Sciences, 268(1474), 1323–1327. https://doi.org/10.1098/rspb.2001.1670

Frean, M., & Abraham, E. (2001). A voter model of the spatial prisoner’s dilemma. IEEE Transactions on Evolutionary Computation, 5(2), 117–121. https://doi.org/10.1109/4235.918432

Gibbs, M., Thrush, S., Sukias, J., Berkenbusch, K., Thompson, D., & Bury, S. (2001). Evaluation of terrestrial sediment spatial patterns throughout the Whitford embayment and its benthic food web using stable isotope techniques. http://www.aucklandcity.govt.nz/council/documents/technicalpublications/TP162_Food%20webs%20using%20stable%20isotopes_web.pdf

Sharples, J., Moore, C. M., & Abraham, E. R. (2001). Internal tide dissipation, mixing, and vertical nitrate flux at the shelf edge of NE New Zealand. Journal of Geophysical Research, 106(C7), 14069–14081. https://doi.org/10.1029/2000JC000604

Trull, T., Rintoul, S. R., Hadfield, M., & Abraham, E. R. (2001). Circulation and seasonal evolution of polar waters south of Australia: implications for iron fertilization of the Southern Ocean. Deep-Sea Research Part II, 48(11–12), 2439–2466. https://doi.org/10.1016/S0967-0645(01)00003-0

Abraham, E. R., Law, C. S., Boyd, P. W., Lavender, S. J., Maldonado, M. T., & Bowie, A. R. (2000). Importance of stirring in the development of an iron-fertilized phytoplankton bloom. Nature, 407(6805), 727–730. https://doi.org/10.1038/35037555

Berkenbusch, K., & Rowden, A. A. (2000). Intraspecific burrow plasticity of an intertidal population of Callianassa filholi (Crustacea: Decapoda: Thalassinidea) in relation to environmental conditions. New Zealand Journal of Marine and Freshwater Research, 34(3), 397–408. https://doi.org/10.1080/00288330.2000.9516943

Berkenbusch, K., & Rowden, A. A. (2000). Latitudinal variation in the reproductive biology of the burrowing ghost shrimp Callianassa filholi (Decapoda: Thalassinidea). Marine Biology, 136, 497–504. https://doi.org/10.1007/s002270050709

Berkenbusch, K., Rowden, A. A., & Probert, P. K. (2000). Temporal and spatial variation in macrofauna community composition imposed by ghost shrimp Callianassa filholi bioturbation. Marine Ecology Progress Series, 192, 249–257. https://doi.org/10.3354/meps192249

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., Chang, H., & others. (2000). A mesoscale phytoplankton bloom in the polar Southern Ocean stimulated by iron fertilization. Nature, 407, 695–702. https://doi.org/10.1038/35037500

Berkenbusch, K., & Rowden, A. A. (1999). Factors influencing sediment turnover by the burrowing ghost shrimp Callianassa filholi (Decapoda: Thalassinidea). Journal of Experimental Marine Biology and Ecology, 238(2), 283–292. https://doi.org/10.1016/S0022-0981(99)00019-2

Abraham, E. (1998). The generation of plankton patchiness by turbulent stirring. Nature, 391(6667), 577–580. https://doi.org/10.1038/35361

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