An evidence-based approach for setting desired state in a complex Great Barrier Reef seagrass ecosystem: A case study from Cleveland Bay

Adams, 2015, Prioritizing localized management actions for seagrass conservation and restoration using a species distribution model, Aquat. Conserv. Mar. Freshw. Ecosyst. Álvarez-Romero, 2013, A novel approach to model exposure of coastal-marine ecosystems to riverine flood plumes based on remote sensing techniques, J. Environ. Manag., 119, 194 Aragones, 2000, Impact of dugong grazing and turtle cropping on tropical seagrass communities, Pac. Conserv. Biol., 5, 277, 10.1071/PC000277 Bainbridge, 2012, Fine sediment and nutrient dynamics related to particle size and floc formation in a Burdekin River flood plume, Australia, Mar. Pollut. Bull., 65, 236, 10.1016/j.marpolbul.2012.01.043 Bainbridge, 2018, Fine sediment and particulate organic matter: a review and case study on ridge-to-reef transport, transformations, fates and impacts on marine ecosystems, Mar. Pollut. Bull., 135, 10.1016/j.marpolbul.2018.08.002 Barbier, 2014, Valuing ecosystem services as productive inputs, Econ. Pol., 22, 178, 10.1111/j.1468-0327.2007.00174.x Bartley, 2014, Relating sediment impacts on coral reefs to watershed sources, processes and management: a review, Sci. Total Environ., 468–469, 1138, 10.1016/j.scitotenv.2013.09.030 Beaman, 2010, 13 Borja, 2012, The importance of setting targets and reference conditions in assessing marine ecosystem quality, Ecol. Indicat., 12, 1, 10.1016/j.ecolind.2011.06.018 Borja, 2013, Good Environmental Status of marine ecosystems: what is it and how do we know when we have attained it?, Mar. Pollut. Bull., 76, 16, 10.1016/j.marpolbul.2013.08.042 Breiman, 1984 Bryant, 2018, 47 Butler, 2013, An analysis of trade-offs between multiple ecosystem services and stakeholders linked to land use and water quality management in the Great Barrier Reef, Australia, Agric. Ecosyst. Environ., 180, 176, 10.1016/j.agee.2011.08.017 Canty, 2017 Carter, 2018, A framework for defining seagrass habitat for the Great Barrier Reef, Australia Chartrand, 2016, Light thresholds to prevent dredging impacts on the Great Barrier Reef seagrass, Zostera muelleri ssp. capricorni, Frontiers in Marine Science, 3, 10.3389/fmars.2016.00106 Choice, 2014, Light requirements of seagrasses determined from historical records of light attenuation along the Gulf coast of peninsular Florida, Mar. Pollut. Bull., 81, 94, 10.1016/j.marpolbul.2014.02.015 Clark, 1992, Tree-based models in S, 377 Coles, 2009, Spatial distribution of deepwater seagrass in the inter-reef lagoon of the Great Barrier Reef World Heritage area, Mar. Ecol. Prog. Ser., 392, 57, 10.3354/meps08197 Coles, 2015, The Great Barrier Reef World Heritage Area seagrasses: managing this iconic Australian Ecosystem resource for the future, Estuar. Coast Shelf Sci., 153, A1, 10.1016/j.ecss.2014.07.020 Collier, 2012, Light thresholds derived from seagrass loss in the coastal zone of the northern Great Barrier Reef, Australia, Ecol. Indicat., 23, 211, 10.1016/j.ecolind.2012.04.005 Collier, 2012, Responses of four Indo-West Pacific seagrass species to shading, Mar. Pollut. Bull., 65, 342, 10.1016/j.marpolbul.2011.06.017 Collier, 2016, Thresholds for morphological response to light reduction for four tropical seagrass species, Ecol. Indicat., 67, 358, 10.1016/j.ecolind.2016.02.050 Collier, 2017, Optimum temperatures for net primary productivity of three tropical seagrass species, Front. Plant Sci., 8, 1446, 10.3389/fpls.2017.01446 Connolly, 2018, Seagrass dynamics and resilience Cook, 2016, The paleoclimate context and future trajectory of extreme summer hydroclimate in eastern Australia, J. Geophys. Res. Atmos. : JGR, 121, 12820, 10.1002/2016JD024892 Cullen-Unsworth, 2013, Seagrass meadows, ecosystem services, and sustainability, Environment, 55, 14 Cullen-Unsworth, 2014, Seagrass meadows globally as a coupled social–ecological system: implications for human wellbeing, Mar. Pollut. Bull., 83, 387, 10.1016/j.marpolbul.2013.06.001 Cunha, 2005, Seagrass landscape-scale changes in response to disturbance created by the dynamics of barrier-islands: a case study from Ria Formosa (Southern Portugal), Estuar. Coast Shelf Sci., 64, 636, 10.1016/j.ecss.2005.03.018 Daan, 2005, An afterthought: ecosystem metrics and pressure indicators, ICES (Int. Counc. Explor. Sea) J. Mar. Sci., 62, 612, 10.1016/j.icesjms.2005.01.019 Davison, 1997 De’ath, 2002, Multivariate Regression Trees: a new technique for modeling species-environment relationships, Ecology, 83, 1105 Dennison, 1993, Assessing water quality with submersed aquatic vegetation: habitat requirements as barometers of Chesapeake Bay health, Bioscience, 43, 86, 10.2307/1311969 De’ath, 2004 Duarte, 2009, Return to Neverland : shifting baselines affect eutrophication restoration targets, Estuar. Coast, 32, 29, 10.1007/s12237-008-9111-2 Erftemeijer, 2006, Environmental impacts of dredging on seagrasses: a review, Mar. Pollut. Bull., 52, 1553, 10.1016/j.marpolbul.2006.09.006 Fabricius, 2014, The effects of river run-off on water clarity across the central Great Barrier Reef, Mar. Pollut. Bull., 84, 191, 10.1016/j.marpolbul.2014.05.012 Geoscience Australia, 2017 Great Barrier Reef Marine Park Authority, 2015 Great Barrier Reef Marine Park Authority, 2019 Grech, 2011, A broad-scale assessment of the risk to coastal seagrasses from cumulative threats, Mar. Pol., 35, 560, 10.1016/j.marpol.2011.03.003 Grech, 2016, Spatial patterns of seagrass dispersal and settlement, Divers. Distrib., 22, 1150, 10.1111/ddi.12479 Grech, 2018, Predicting the cumulative effect of multiple disturbances on seagrass connectivity, Global Change Biol., 10.1111/gcb.14127 Hallett, 2016, A review of Australian approaches for monitoring, assessing and reporting estuarine condition: III. Evaluation against international best practice and recommendations for the future, Environ. Sci. Pol., 66, 282, 10.1016/j.envsci.2016.07.015 Head, 2014, Evidence, uncertainty, and wicked problems in climate change decision making in Australia, Environ. Plann. C Govern. Pol., 32, 663, 10.1068/c1240 Hoegh-Guldberg, 2014, The ocean, 1655 Hughes, 2017, Global warming and recurrent mass bleaching of corals, Nature, 543, 373, 10.1038/nature21707 Hughes, 2018, Spatial and temporal patterns of mass bleaching of corals in the Anthropocene, Science, 359, 80, 10.1126/science.aan8048 Kendrick, 1999, Landscape-scale changes in seagrass distribution over time: a case study from Success Bank, Aquat. Bot., 65, 293, 10.1016/S0304-3770(99)00047-9 Kremen, 2005, Managing ecosystem services: what do we need to know about their ecology?, Ecol. Lett., 8, 468, 10.1111/j.1461-0248.2005.00751.x Kroon, 2012, River loads of suspended solids, nitrogen, phosphorus and herbicides delivered to the Great Barrier Reef lagoon, Mar. Pollut. Bull., 65, 167, 10.1016/j.marpolbul.2011.10.018 Lamb, 2017, Seagrass ecosystems reduce exposure to bacterial pathogens of humans, fishes, and invertebrates, Science, 355, 731, 10.1126/science.aal1956 Lambert, 2019, Towards ecologically relevant targets: impact of flow and sediment discharge on seagrass communities in the Great Barrier Reef Lee, 2007, Effects of irradiance, temperature, and nutrients on growth dynamics of seagrasses: a review, J. Exp. Mar. Biol. Ecol., 350, 144, 10.1016/j.jembe.2007.06.016 Lewis, 2018, Sediment tracing from the catchment to reef 2016 to 2018: flood plume, marine sediment trap and logger data time series, 94 Lough, 2011, Observed climate change in Australian marine and freshwater environments, Mar. Freshw. Res., 62, 984, 10.1071/MF10272 Lough, 2018, Increasing thermal stress for tropical coral reefs: 1871–2017, Sci. Rep., 8, 6079, 10.1038/s41598-018-24530-9 Madden, 2009, Ecological indicators for assessing and communicating seagrass status and trends in Florida Bay, Ecol. Indicat., 9, S68, 10.1016/j.ecolind.2009.02.004 Marbá, 2010, Mediterranean warming triggers seagrass (Posidonia oceanica) shoot mortality, Global Change Biol., 16, 2366, 10.1111/j.1365-2486.2009.02130.x Marbà, 2013, Diversity of European seagrass indicators: patterns within and across regions, Hydrobiologia, 704, 265, 10.1007/s10750-012-1403-7 Marsh, 2011 Martinez-Crego, 2008, Selection of multiple seagrass indicators for environmental biomonitoring, Mar. Ecol. Prog. Ser., 361, 93, 10.3354/meps07358 Massa, 2009, Temperature tolerance and survival of intertidal populations of the seagrass Zostera noltii (hornemann) in southern Europe (ria formosa, Portugal), Hydrobiologia, 619, 195, 10.1007/s10750-008-9609-4 McKenna, 2015, Declines of seagrasses in a tropical harbour, North Queensland, Australia, are not the results of a single event, J. Biosci. (Bangalore), 40, 389, 10.1007/s12038-015-9516-6 McKenzie, 2019, Marine monitoring program: annual report for inshore seagrass monitoring 2017-2018 McMahon, 2013, Identifying robust bioindicators of light stress in seagrasses: a review, Ecol. Indicat., 30, 7, 10.1016/j.ecolind.2013.01.030 MEA, 2005, Ecosystems and human well-being: current state and trends, Volume 1: findings of the Condition and Trends working Group Mtwana Nordlund, 2016, Seagrass ecosystem services and their variability across genera and geographical regions, PloS One, 11, 10.1371/journal.pone.0163091 Mullahy, 1986, Specification and testing of some modified count data models, J. Econom., 33, 341, 10.1016/0304-4076(86)90002-3 Negri, 2015, Lethal and sub-lethal chronic effects of the herbicide diuron on seagrass, Aquat. Toxicol., 165, 73, 10.1016/j.aquatox.2015.05.007 O’Brien, 2017, Seagrass ecosystem trajectory depends on the relative timescales of resistance, recovery and disturbance, Mar. Pollut. Bull., 134, 166, 10.1016/j.marpolbul.2017.09.006 O’Hara, 2002, Baseline monitoring of Posidonia seagrass beds in Corner Inlet, Victoria, Museum Victoria Science Reports, 1, 1, 10.24199/j.mvsr.2002.01 Perrings, 2011, Ecosystem services, targets, and indicators for the conservation and sustainable use of biodiversity, Front. Ecol. Environ., 9, 512, 10.1890/100212 Personnic, 2014, An ecosystem-based approach to assess the status of a mediterranean ecosystem, the Posidonia oceanica seagrass meadow, PloS One, 9, 10.1371/journal.pone.0098994 Petus, 2014, Using MODIS data for understanding changes in seagrass meadow health: a case study in the Great Barrier Reef (Australia), Mar. Environ. Res., 137, 163 Petus, 2016, Estimating the exposure of coral reefs and seagrass meadows to land-sourced contaminants in River flood plumes of the Great Barrier Reef: validating a simple satellite risk framework with environmental data, Rem. Sens., 8, 10.3390/rs8030210 Petus, 2019, A flood of information: using Sentinel-3 water colour products to assure continuity in the monitoring of water quality trends in the Great Barrier Reef (Australia), J. Environ. Manag., 248, 109255 QGIS Development Team, 2018 Rasheed, 1999, Recovery of experimentally created gaps within a tropical Zostera capricorni (Aschers.) seagrass meadow, Queensland, Australia, J. Exp. Mar. Biol. Ecol., 235, 183, 10.1016/S0022-0981(98)00158-0 Rasheed, 2004, Recovery and succession in a multi-species tropical seagrass meadow following experimental disturbance: the role of sexual and asexual reproduction, J. Exp. Mar. Biol. Ecol., 310, 13, 10.1016/j.jembe.2004.03.022 Rasheed, 2011, Long-term climate-associated dynamics of a tropical seagrass meadow: implications for the future, Mar. Ecol. Prog. Ser., 422, 93, 10.3354/meps08925 Rasheed, 2014, Contrasting recovery of shallow and deep water seagrass communities following climate associated losses in tropical north Queensland, Australia, Mar. Pollut. Bull., 83, 491, 10.1016/j.marpolbul.2014.02.013 Rice, 2005, A framework for selecting a suite of indicators for fisheries management, ICES (Int. Counc. Explor. Sea) J. Mar. Sci., 62, 516, 10.1016/j.icesjms.2005.01.003 Roca, 2016, Response of seagrass indicators to shifts in environmental stressors: a global review and management synthesis, Ecol. Indicat., 63, 310, 10.1016/j.ecolind.2015.12.007 Samhouri, 2012, Linking land- and sea-based activities to risk in coastal ecosystems, Biol. Conserv., 145, 118, 10.1016/j.biocon.2011.10.021 Samhouri, 2012, Sea sick? Setting targets to assess ocean health and ecosystem services, Ecosphere, 3, 1, 10.1890/ES11-00366.1 Saunders, 2017, Increased sediment loads cause non-linear decreases in seagrass suitable habitat extent, PloS One, 12, 10.1371/journal.pone.0187284 Schliep, 2015, Evaluation of reference genes for RT-qPCR studies in the seagrass Zostera muelleri exposed to light limitation, Sci. Rep., 5, 17051, 10.1038/srep17051 Scott, 2018, The role of herbivory in structuring tropical seagrass ecosystem service delivery, Front. Plant Sci., 9, 127, 10.3389/fpls.2018.00127 Shafer, 2007, Do desiccation tolerances control the vertical distribution of intertidal seagrasses?, Aquat. Bot., 87, 161, 10.1016/j.aquabot.2007.04.003 Steffen, 2015, The trajectory of the anthropocene: the Great acceleration, The Anthropocene Review, 2, 81, 10.1177/2053019614564785 Steward, 2007, Setting load limits for nutrients and suspended solids based upon seagrass depth-limit targets, Estuar. Coast, 30, 657, 10.1007/BF02841963 Steward, 2005, Setting seagrass depth, coverage, and light targets for the Indian River Lagoon system, Florida, Estuaries, 28, 923, 10.1007/BF02696020 Strange, 2007, Facing the brink without crossing it, Bioscience, 57, 920, 10.1641/B571103 Tett, 2013, Framework for understanding marine ecosystem health, Mar. Ecol. Prog. Ser., 494, 1, 10.3354/meps10539 Thomson, 2015, Extreme temperatures, foundation species, and abrupt ecosystem change: an example from an iconic seagrass ecosystem, Global Change Biol., 21, 1463, 10.1111/gcb.12694 Tol, 2016, Dugong dugon feeding in tropical Australian seagrass meadows: implications for conservation planning, PeerJ, 4, 10.7717/peerj.2194 Tweedie, 1984, An index that distinguishes between some important exponential families. in Statistics: applications and new directions Unsworth, 2015, A framework for the resilience of seagrass ecosystems, Mar. Pollut. Bull., 100, 34, 10.1016/j.marpolbul.2015.08.016 Unsworth, 2018, Seagrass meadows support global fisheries production, Conservation Letters Unsworth, 2019, Global challenges for seagrass conservation, Ambio, 10.1007/s13280-018-1115-y Walker, 2012 Waterhouse, 2018 Waycott, 2004, 72 Waycott, 2005, Seagrass population dynamics and water quality in the Great Barrier Reef region: a review and future research directions, Mar. Pollut. Bull., 51, 343, 10.1016/j.marpolbul.2005.01.017 Waycott, 2009, Accelerating loss of seagrasses across the globe threatens coastal ecosystems, Proc. Natl. Acad. Sci. Unit. States Am., 106, 12377, 10.1073/pnas.0905620106 Wickham, 2016 Wicks, 2010, Chapter 5: ecological indicators. assessing ecosystem health using metrics York, 2015, Dynamics of a deep-water seagrass population on the Great Barrier Reef: annual occurrence and response to a major dredging program, Sci. Rep., 5, 13167, 10.1038/srep13167