Regime Shifts in Marine Ecosystems
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												Historical Overfishing and the Recent Collapse of Coastal Ecosystems
E COLOGY T HROUGH T IME REVIEW Historical Overfishing and the Recent Collapse of Coastal Ecosystems Jeremy B. C. Jackson,1,2* Michael X. Kirby,3 Wolfgang H. Berger,1 Karen A. Bjorndal,4 Louis W. Botsford,5 Bruce J. Bourque,6 Roger H. Bradbury,7 Richard Cooke,2 Jon Erlandson,8 James A. Estes,9 Terence P. Hughes,10 Susan Kidwell,11 Carina B. Lange,1 Hunter S. Lenihan,12 John M. Pandolfi,13 Charles H. Peterson,12 Robert S. Steneck,14 Mia J. Tegner,1† Robert R. Warner15 Ecological extinction caused by overfishing precedes all other pervasive longer term cycles or shifts in oceanographic human disturbance to coastal ecosystems, including pollution, degrada- regimes and productivity (15–17). To help ad- tion of water quality, and anthropogenic climate change. Historical abun- dress this problem, we describe ecosystem dances of large consumer species were fantastically large in comparison structure predating modern ecological studies with recent observations. Paleoecological, archaeological, and historical using well-dated time series based on biological data show that time lags of decades to centuries occurred between the (18, 19), biogeochemical (20, 21), physical onset of overfishing and consequent changes in ecological communities, (22), and historical (23) proxies that are infor- because unfished species of similar trophic level assumed the ecological mative over a variety of spatial scales and bio- roles of overfished species until they too were overfished or died of geographic realms (24). Although proxies vary epidemic diseases related to overcrowding. Retrospective data not only in precision and clarity of the signals they mea- help to clarify underlying causes and rates of ecological change, but they sure, the use of multiple proxies that give the also demonstrate achievable goals for restoration and management of same ecological signal greatly increases confi- coastal ecosystems that could not even be contemplated based on the dence in results. - 
												
												Effective Population Size and Genetic Conservation Criteria for Bull Trout
North American Journal of Fisheries Management 21:756±764, 2001 q Copyright by the American Fisheries Society 2001 Effective Population Size and Genetic Conservation Criteria for Bull Trout B. E. RIEMAN* U.S. Department of Agriculture Forest Service, Rocky Mountain Research Station, 316 East Myrtle, Boise, Idaho 83702, USA F. W. A LLENDORF Division of Biological Sciences, University of Montana, Missoula, Montana 59812, USA Abstract.ÐEffective population size (Ne) is an important concept in the management of threatened species like bull trout Salvelinus con¯uentus. General guidelines suggest that effective population sizes of 50 or 500 are essential to minimize inbreeding effects or maintain adaptive genetic variation, respectively. Although Ne strongly depends on census population size, it also depends on demographic and life history characteristics that complicate any estimates. This is an especially dif®cult problem for species like bull trout, which have overlapping generations; biologists may monitor annual population number but lack more detailed information on demographic population structure or life history. We used a generalized, age-structured simulation model to relate Ne to adult numbers under a range of life histories and other conditions characteristic of bull trout populations. Effective population size varied strongly with the effects of the demographic and environmental variation included in our simulations. Our most realistic estimates of Ne were between about 0.5 and 1.0 times the mean number of adults spawning annually. We conclude that cautious long-term management goals for bull trout populations should include an average of at least 1,000 adults spawning each year. Where local populations are too small, managers should seek to conserve a collection of interconnected populations that is at least large enough in total to meet this minimum. - 
												
												Regime Shifts in the Anthropocene: Drivers, Risk, and Resilience
Supplementary Information for Regime Shifts in the Anthropocene: drivers, risk, and resilience by Juan-Carlos Rocha, Garry D. Peterson & Reinette O. Biggs. This document presents a worked example of a regime shift. We first provide a synthesis of the regime shift dynamics and a causal loop diagram (CLD). We then compare the resulting CLD with other regime shifts to make explicit the role of direct and indirect drivers. For each regime shift analyses in this study we did a similar literature synthesis and CLD which are available in the regime shift database. A longer version of this working example and CLDs can be found at www.regimeshifts.org. 1. Kelps transitions Summary. Kelp forests are marine coastal ecosystems located in shallow areas where large macroalgae ecologically engineer the environment to produce a coastal marine environmental substantially different from the same area without kelp. Kelp forests can undergo a regime shift to turf-forming algae or urchin barrens. These shift leads to loss of habitat and ecological complexity. Shifts to turf algae are related to nutrient input, while shifts to urchin barrens are related to trophic-level changes. The consequent loss of habitat complexity may affect commercially important fisheries. Managerial options include restoring biodiversity and installing wastewater treatment plants in coastal zones. Kelps are marine coastal ecosystems dominated by macroalgae typically found in temperate areas. This group of species form submarine forests with three or four layers, which provides different habitats to a variety of species. These forests maintain important industries like lobster and rockfish fisheries, the chemical industry with products to be used in e.g. - 
												
												Red Sea Large Marine Ecosystem (Lme
III-6 Red Sea: LME #33 S. Heileman and N. Mistafa The Red Sea LME is bordered by Djibouti, Egypt, Eritrea, Israel, Jordan, Saudi Arabia, Sudan and Yemen. It has a surface area of 458,620 km2, of which 2.33% is protected and includes 3.8% of the world’s coral reefs (Sea Around Us 2007). It is characterised by dense, salty water formed by net evaporation with rates up to 1.4 - 2.0 m yr-1 (Hastenrath & Lamb 1979) and deep convection in the northern sector resulting in the formation of a deep water mass flowing out into the Gulf of Aden underneath a layer of less saline inflowing water (Morcos 1970). A dominant phenomenon affecting the oceanography and meteorology of the region is the Arabian monsoon. In winter, northeast monsoon winds extend well into the Gulf of Aden and the southern Red Sea, causing a seasonal reversal in the winds over this entire region (Patzert 1974). The seasonal monsoon reversal and the local coastal configuration combine in summer to force a radically different circulation pattern composed of a thin surface outflow, an intermediate inflowing layer of Gulf of Aden thermocline water and a vastly reduced (often extinguished) outflowing deep layer (Patzert 1974). Within the basin itself, the general surface circulation is cyclonic (Longhurst 1998). High evaporation and low precipitation maintain the Red Sea LME as one of the most saline water masses of the world oceans, with a mean surface salinity of 42.5 ppt and a mean temperature of 30° C during the summer (Sofianos et al. - 
												
												Forage Fish Management Plan
Oregon Forage Fish Management Plan November 19, 2016 Oregon Department of Fish and Wildlife Marine Resources Program 2040 SE Marine Science Drive Newport, OR 97365 (541) 867-4741 http://www.dfw.state.or.us/MRP/ Oregon Department of Fish & Wildlife 1 Table of Contents Executive Summary ....................................................................................................................................... 4 Introduction .................................................................................................................................................. 6 Purpose and Need ..................................................................................................................................... 6 Federal action to protect Forage Fish (2016)............................................................................................ 7 The Oregon Marine Fisheries Management Plan Framework .................................................................. 7 Relationship to Other State Policies ......................................................................................................... 7 Public Process Developing this Plan .......................................................................................................... 8 How this Document is Organized .............................................................................................................. 8 A. Resource Analysis .................................................................................................................................... - 
												
												Fisheries in Large Marine Ecosystems: Descriptions and Diagnoses
Fisheries in Large Marine Ecosystems: Descriptions and Diagnoses D. Pauly, J. Alder, S. Booth, W.W.L. Cheung, V. Christensen, C. Close, U.R. Sumaila, W. Swartz, A. Tavakolie, R. Watson, L. Wood and D. Zeller Abstract We present a rationale for the description and diagnosis of fisheries at the level of Large Marine Ecosystems (LMEs), which is relatively new, and encompasses a series of concepts and indicators different from those typically used to describe fisheries at the stock level. We then document how catch data, which are usually available on a smaller scale, are mapped by the Sea Around Us Project (see www.seaaroundus.org) on a worldwide grid of half-degree lat.-long. cells. The time series of catches thus obtained for over 180,000 half-degree cells can be regrouped on any larger scale, here that of LMEs. This yields catch time series by species (groups) and LME, which began in 1950 when the FAO started collecting global fisheries statistics, and ends in 2004 with the last update of these datasets. The catch data by species, multiplied by ex-vessel price data and then summed, yield the value of the fishery for each LME, here presented as time series by higher (i.e., commercial) groups. Also, these catch data can be used to evaluate the primary production required (PPR) to sustain fisheries catches. PPR, when related to observed primary production, provides another index for assessing the impact of the countries fishing in LMEs. The mean trophic level of species caught by fisheries (or ‘Marine Trophic Index’) is also used, in conjunction with a related indicator, the Fishing-in-Balance Index (FiB), to assess changes in the species composition of the fisheries in LMEs. - 
												
												Resilience of Alternative States in Spatially Extended Ecosystems
RESEARCH ARTICLE Resilience of Alternative States in Spatially Extended Ecosystems Ingrid A. van de Leemput*, Egbert H. van Nes, Marten Scheffer Department of Environmental Sciences, Wageningen University, Wageningen, The Netherlands * [email protected] Abstract Alternative stable states in ecology have been well studied in isolated, well-mixed systems. However, in reality, most ecosystems exist on spatially extended landscapes. Applying ex- isting theory from dynamic systems, we explore how such a spatial setting should be ex- pected to affect ecological resilience. We focus on the effect of local disturbances, defining resilience as the size of the area of a strong local disturbance needed to trigger a shift. We show that in contrast to well-mixed systems, resilience in a homogeneous spatial setting does not decrease gradually as a bifurcation point is approached. Instead, as an environ- OPEN ACCESS mental driver changes, the present dominant state remains virtually ‘indestructible’, until at Citation: van de Leemput IA, van Nes EH, Scheffer a critical point (the Maxwell point) its resilience drops sharply in the sense that even a very M (2015) Resilience of Alternative States in Spatially Extended Ecosystems. PLoS ONE 10(2): e0116859. local disturbance can cause a domino effect leading eventually to a landscape-wide shift to doi:10.1371/journal.pone.0116859 the alternative state. Close to this Maxwell point the travelling wave moves very slow. Under Academic Editor: Emanuele Paci, University of these conditions both states have a comparable resilience, allowing long transient co-occur- Leeds, UNITED KINGDOM rence of alternative states side-by-side, and also permanent co-existence if there are mild Received: April 11, 2014 spatial barriers. - 
												
												Status and Trends of Land Degradation and Restoration and Associated Changes in Biodiversity and Ecosystem Functions
IPBES/6/INF/1/Rev.1 Chapter 4 Status and trends of land degradation and restoration and associated changes in biodiversity and ecosystem functions Coordinating Lead Authors Stephen Prince (United States of America), Graham Von Maltitz (South Africa), Fengchun Zhang (China) Lead Authors Kenneth Byrne (Ireland), Charles Driscoll (United States of America), Gil Eshel (Israel), German Kust (Russian Federation), Cristina Martínez-Garza (Mexico), Jean Paul Metzger (Brazil), Guy Midgley (South Africa), David Moreno Mateos (Spain), Mongi Sghaier (Tunisia/OSS), San Thwin (Myanmar) Fellow Bernard Nuoleyeng Baatuuwie (Ghana) Contributing Authors Albert Bleeker (the Netherlands), Molly E. Brown (United States of America), Leilei Cheng (China), Kirsten Dales (Canada), Evan Andrew Ellicot (United States of America), Geraldo Wilson Fernandes (Brazil), Violette Geissen (the Netherlands), Panu Halme (Finland), Jim Harris (United Kingdom of Great Britain and Northern Ireland), Roberto Cesar Izaurralde (United States of America), Robert Jandl (Austria), Gensuo Jia (China), Guo Li (China), Richard Lindsay (United Kingdom of Great Britain and Northern Ireland), Giuseppe Molinario (United States of America), Mohamed Neffati (Tunisia), Margaret Palmer (United States of America), John Parrotta (United States of America), Gary Pierzynski (United States of America), Tobias Plieninger (Germany), Pascal Podwojewski (France), Bernardo Dourado Ranieri (Brazil), Mahesh Sankaran (India), Robert Scholes (South Africa), Kate Tully (United States of America), Ernesto F. Viglizzo (Argentina), Fei Wang (China), Nengwen Xiao (China), Qing Ying (China), Caiyun Zhao (China) Review Editors Chencho Norbu (Bhutan), Jim Reynolds (United States of America) This chapter should be cited as: Prince, S., Von Maltitz, G., Zhang, F., Byrne, K., Driscoll, C., Eshel, G., Kust, G., Martínez-Garza, C., Metzger, J. - 
												
												Ecocide: the Missing Crime Against Peace'
35 690 Initiative paper from Representative Van Raan: 'Ecocide: The missing crime against peace' No. 2 INITIATIVE PAPER 'The rules of our world are laws, and they can be changed. Laws can restrict, or they can enable. What matters is what they serve. Many of the laws in our world serve property - they are based on ownership. But imagine a law that has a higher moral authority… a law that puts people and planet first. Imagine a law that starts from first do no harm, that stops this dangerous game and takes us to a place of safety….' Polly Higgins, 2015 'We need to change the rules.' Greta Thunberg, 2019 Table of contents Summary 1 1. Introduction 3 2. The ineffectiveness of current legislation 7 3. The legal framework for ecocide law 14 4. Case study: West Papua 20 5. Conclusion 25 6. Financial section 26 7. Decision points 26 Appendix: The institutional history of ecocide 29 Summary Despite all our efforts, the future of our natural environments, habitats, and ecosystems does not look promising. Human activity has ensured that climate change continues to persist. Legal instruments are available to combat this unprecedented damage to the natural living environment, but these instruments have proven inadequate. With this paper, the initiator intends to set forth an innovative new legal concept. This paper is a study into the possibilities of turning this unprecedented destruction of our natural environment into a criminal offence. In this regard, we will use the term ecocide, defined as the extensive damage to or destruction of ecosystems through human activity. - 
												
												Introduction to Theoretical Ecology
Introduction to Theoretical Ecology Natal, 2011 Objectives After this week: The student understands the concept of a biological system in equilibrium and knows that equilibria can be stable or unstable. The student understands the basics of how coupled differential equations can be analyzed graphically, including phase plane analysis and nullclines. The student can analyze the stability of the equilibria of a one-dimensional differential equation model graphically. The student has a basic understanding of what a bifurcation point is. The student can relate alternative stable states to a 1D bifurcation plot (e.g. catastrophe fold). Study material / for further study: This text Scheffer, M. 2009. Critical Transitions in Nature and Society, Princeton University Press, Princeton and Oxford. Scheffer, M. 1998. Ecology of Shallow Lakes. 1 edition. Chapman and Hall, London. Edelstein-Keshet, L. 1988. Mathematical models in biology. 1 edition. McGraw-Hill, Inc., New York. Tentative programme (maybe too tight for the exercises) Monday 9:00-10:30 Introduction Modelling + introduction Forrester diagram + 1D models (stability graphs) 10:30-13:00 GRIND Practical CO2 chamber - Ethiopian Wolf Tuesday 9:00-10:00 Introduction bifurcation (Allee effect) and Phase plane analysis (Lotka-Volterra competition) 10:00-13:00 GRIND Practical Lotka-Volterra competition + Sahara Wednesday 9:00-13:00 GRIND Practical – Sahara (continued) and Algae-zooplankton Thursday 9:00-13:00 GRIND practical – Algae zooplankton spatial heterogeneity Friday 9:00-12:00 GRIND practical- Algae zooplankton fish 12:00-13:00 Practical summary/explanation of results - Wrap up 1 An introduction to models What is a model? The word 'model' is used widely in every-day language. - 
												
												Desertification and Agriculture
BRIEFING Desertification and agriculture SUMMARY Desertification is a land degradation process that occurs in drylands. It affects the land's capacity to supply ecosystem services, such as producing food or hosting biodiversity, to mention the most well-known ones. Its drivers are related to both human activity and the climate, and depend on the specific context. More than 1 billion people in some 100 countries face some level of risk related to the effects of desertification. Climate change can further increase the risk of desertification for those regions of the world that may change into drylands for climatic reasons. Desertification is reversible, but that requires proper indicators to send out alerts about the potential risk of desertification while there is still time and scope for remedial action. However, issues related to the availability and comparability of data across various regions of the world pose big challenges when it comes to measuring and monitoring desertification processes. The United Nations Convention to Combat Desertification and the UN sustainable development goals provide a global framework for assessing desertification. The 2018 World Atlas of Desertification introduced the concept of 'convergence of evidence' to identify areas where multiple pressures cause land change processes relevant to land degradation, of which desertification is a striking example. Desertification involves many environmental and socio-economic aspects. It has many causes and triggers many consequences. A major cause is unsustainable agriculture, a major consequence is the threat to food production. To fully comprehend this two-way relationship requires to understand how agriculture affects land quality, what risks land degradation poses for agricultural production and to what extent a change in agricultural practices can reverse the trend. - 
												
												Multiple Stable States and Regime Shifts - Environmental Science - Oxford Bibliographies 3/30/18, 10:15 AM
Multiple Stable States and Regime Shifts - Environmental Science - Oxford Bibliographies 3/30/18, 10:15 AM Multiple Stable States and Regime Shifts James Heffernan, Xiaoli Dong, Anna Braswell LAST MODIFIED: 28 MARCH 2018 DOI: 10.1093/OBO/9780199363445-0095 Introduction Why do ecological systems (populations, communities, and ecosystems) change suddenly in response to seemingly gradual environmental change, or fail to recover from large disturbances? Why do ecological systems in seemingly similar settings exhibit markedly different ecological structure and patterns of change over time? The theory of multiple stable states in ecological systems provides one potential explanation for such observations. In ecological systems with multiple stable states (or equilibria), two or more configurations of an ecosystem are self-maintaining under a given set of conditions because of feedbacks among biota or between biota and the physical and chemical environment. The resulting multiple different states may occur as different types or compositions of vegetation or animal communities; as different densities, biomass, and spatial arrangement; and as distinct abiotic environments created by the distinct ecological communities. Alternative states are maintained by the combined effects of positive (or amplifying) feedbacks and negative (or stabilizing feedbacks). While stabilizing feedbacks reinforce each state, positive feedbacks are what allow two or more states to be stable. Thresholds between states arise from the interaction of these positive and negative feedbacks, and define the basins of attraction of the alternative states. These feedbacks and thresholds may operate over whole ecosystems or give rise to self-organized spatial structure. The combined effect of these feedbacks is also what gives rise to ecological resilience, which is the capacity of ecological systems to absorb environmental perturbations while maintaining their basic structure and function.