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Dee LE, Ferraro PJ, Severen CN, Kimmel KA, Borer ET, Byrnes JEK, Clark AT, Hautier Y, Hector A, Raynaud X, Reich PB, Wright AJ, Arnillas CA, Davies KF, MacDougall A, Mori AS, Smith MD, Adler PB, Bakker JD, Brauman KA, Cowles J, Komatsu K, Knops JMH, McCulley RL, Moore JL, Morgan JW, Ohlert T, Power SA, Sullivan LL, Stevens C, Loreau M. Clarifying the effect of biodiversity on productivity in natural ecosystems with longitudinal data and methods for causal inference. Nat Commun 2023; 14:2607. [PMID: 37147282 PMCID: PMC10163230 DOI: 10.1038/s41467-023-37194-5] [Citation(s) in RCA: 14] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2022] [Accepted: 03/03/2023] [Indexed: 05/07/2023] Open
Abstract
Causal effects of biodiversity on ecosystem functions can be estimated using experimental or observational designs - designs that pose a tradeoff between drawing credible causal inferences from correlations and drawing generalizable inferences. Here, we develop a design that reduces this tradeoff and revisits the question of how plant species diversity affects productivity. Our design leverages longitudinal data from 43 grasslands in 11 countries and approaches borrowed from fields outside of ecology to draw causal inferences from observational data. Contrary to many prior studies, we estimate that increases in plot-level species richness caused productivity to decline: a 10% increase in richness decreased productivity by 2.4%, 95% CI [-4.1, -0.74]. This contradiction stems from two sources. First, prior observational studies incompletely control for confounding factors. Second, most experiments plant fewer rare and non-native species than exist in nature. Although increases in native, dominant species increased productivity, increases in rare and non-native species decreased productivity, making the average effect negative in our study. By reducing the tradeoff between experimental and observational designs, our study demonstrates how observational studies can complement prior ecological experiments and inform future ones.
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Affiliation(s)
- Laura E Dee
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, USA.
| | - Paul J Ferraro
- Department of Environmental Health and Engineering, Bloomberg School of Public Health & Whiting School of Engineering, Johns Hopkins University, Baltimore, MD, USA.
- Carey Business School, Johns Hopkins University, Baltimore, MD, USA.
| | | | - Kaitlin A Kimmel
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, USA
| | - Elizabeth T Borer
- Department of Ecology, Evolution, and Behavior, University of Minnesota, St. Paul, MN, 55108, USA
| | - Jarrett E K Byrnes
- Department of Biology, University of Massachusetts Boston, 100 Morissey Blvd, Boston, MA, 02125, USA
| | - Adam Thomas Clark
- Institute of Biology, University of Graz, Holteigasse 6, 8010, Graz, Austria
| | - Yann Hautier
- Ecology and Biodiversity Group, Department of Biology, Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands
| | - Andrew Hector
- Department of Plant Sciences, University of Oxford, Oxford, OX1 3RB, UK
| | - Xavier Raynaud
- Sorbonne Université, Université Paris Cité, UPEC, IRD, CNRS, INRA, Institute of Ecology and Environmental Sciences, iEES Paris, Paris, France
| | - Peter B Reich
- Institute for Global Change Biology, and School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, USA
- Department of Forest Resources, University of Minnesota, St. Paul, MN, 55108, USA
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW, 2751, Australia
| | - Alexandra J Wright
- Department of Biological Sciences, California State University Los Angeles, Los Angeles, CA, USA
| | - Carlos A Arnillas
- Department of Physical and Environmental Sciences, University of Toronto at Scarborough, Toronto, 1265 Military Trail, ON, M1C 1A4, Canada
| | - Kendi F Davies
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, USA
| | - Andrew MacDougall
- Department of Integrative Biology, University of Guelph, Guelph, Ontario, N1G 2W1, Canada
| | - Akira S Mori
- Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro, Tokyo, 153-8904, Japan
| | - Melinda D Smith
- Department of Biology, Colorado State University, Fort Collins, CO, 80523, USA
- Graduate Degree Program in Ecology, Colorado State University, Fort Collins, CO, 80523, USA
| | - Peter B Adler
- Department of Wildland Resources and the Ecology Center, Utah State University, Logan, UT, 84322, USA
| | - Jonathan D Bakker
- School of Environmental and Forest Sciences, University of Washington, Box 354115, Seattle, WA, 98195-4115, USA
| | - Kate A Brauman
- Global Water Security Center, The University of Alabama, Box 870206, Tuscaloosa, AL, 35487, US
| | - Jane Cowles
- Department of Ecology, Evolution, and Behavior, University of Minnesota, St. Paul, MN, 55108, USA
| | - Kimberly Komatsu
- Smithsonian Environmental Research Center, Edgewater, MD, 21037, USA
| | - Johannes M H Knops
- Department of Health and Environmental Sciences, Xián Jiaotong-Liverpool University, Suzhou, China
| | - Rebecca L McCulley
- Department of Plant and Soil Sciences, University of Kentucky, Lexington, KY, 40546-0312, USA
| | - Joslin L Moore
- School of Biological Sciences, Monash University, Clayton, VIC, 3800, Australia
| | - John W Morgan
- Department of Ecology, Environment and Evolution, La Trobe University, Bundoora, VIC, 3086, Australia
| | - Timothy Ohlert
- Department of Biology, Colorado State University, Fort Collins, CO, 80523, USA
| | - Sally A Power
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW, 2751, Australia
| | - Lauren L Sullivan
- Department of Plant Biology, Michigan State University, East Lansing, MI, 48824, USA
- Kellogg Biological Station, Michigan State University, Hickory Corners, MI, 49060, USA
| | - Carly Stevens
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Michel Loreau
- Theoretical and Experimental Ecology Station, CNRS, 09200, Moulis, France
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Iyer SR, Balashankar A, Aeberhard WH, Bhattacharyya S, Rusconi G, Jose L, Soans N, Sudarshan A, Pande R, Subramanian L. Modeling fine-grained spatio-temporal pollution maps with low-cost sensors. NPJ CLIMATE AND ATMOSPHERIC SCIENCE 2022; 5:76. [PMID: 36254321 PMCID: PMC9555706 DOI: 10.1038/s41612-022-00293-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/30/2021] [Accepted: 08/30/2022] [Indexed: 06/16/2023]
Abstract
The use of air quality monitoring networks to inform urban policies is critical especially where urban populations are exposed to unprecedented levels of air pollution. High costs, however, limit city governments' ability to deploy reference grade air quality monitors at scale; for instance, only 33 reference grade monitors are available for the entire territory of Delhi, India, spanning 1500 sq km with 15 million residents. In this paper, we describe a high-precision spatio-temporal prediction model that can be used to derive fine-grained pollution maps. We utilize two years of data from a low-cost monitoring network of 28 custom-designed low-cost portable air quality sensors covering a dense region of Delhi. The model uses a combination of message-passing recurrent neural networks combined with conventional spatio-temporal geostatistics models to achieve high predictive accuracy in the face of high data variability and intermittent data availability from low-cost sensors (due to sensor faults, network, and power issues). Using data from reference grade monitors for validation, our spatio-temporal pollution model can make predictions within 1-hour time-windows at 9.4, 10.5, and 9.6% Mean Absolute Percentage Error (MAPE) over our low-cost monitors, reference grade monitors, and the combined monitoring network respectively. These accurate fine-grained pollution sensing maps provide a way forward to build citizen-driven low-cost monitoring systems that detect hazardous urban air quality at fine-grained granularities.
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Affiliation(s)
- Shiva R. Iyer
- Department of Computer Science, New York University, New York, NY USA
| | | | | | - Sujoy Bhattacharyya
- Columbia University, New York, NY USA
- Evidence for Policy Design (EPoD) at the Institute for Financial Management and Research (IFMR), New Delhi, New Delhi India
| | - Giuditta Rusconi
- Evidence for Policy Design (EPoD) at the Institute for Financial Management and Research (IFMR), New Delhi, New Delhi India
- State Secretariat for Education, Research and Innovation (SERI), Bern, Switzerland
| | - Lejo Jose
- Kai Air Monitoring Pvt Ltd, Gautam Buddha Nagar, UP India
| | - Nita Soans
- Kai Air Monitoring Pvt Ltd, Gautam Buddha Nagar, UP India
| | - Anant Sudarshan
- Department of Economics, University of Chicago, Chicago, IL USA
| | - Rohini Pande
- Department of Economics, Yale University, New Haven, CT USA
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van Rees CB, Naslund L, Hernandez-Abrams DD, McKay SK, Woodson CB, Rosemond A, McFall B, Altman S, Wenger SJ. A strategic monitoring approach for learning to improve natural infrastructure. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 832:155078. [PMID: 35398422 DOI: 10.1016/j.scitotenv.2022.155078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Revised: 03/11/2022] [Accepted: 04/03/2022] [Indexed: 06/14/2023]
Abstract
Natural infrastructure (NI) development, including ecosystem restoration, is an increasingly popular approach to leverage ecosystem services for sustainable development, climate resilience, and biodiversity conservation goals. Although implementation and planning for these tools is accelerating, there is a critical need for effective post-implementation monitoring to accumulate performance data and evidence for best practices. The complexity and longer time scales associated with NI, compounded by differing disciplinary definitions and concepts of monitoring necessitate a deliberate and strategic approach to monitoring that encompasses different timeframes and objectives. This paper outlines a typology of monitoring classes differentiated by temporal scale, purpose of data collection, the information benefits of monitoring, and the responsible party. Next, we provide a framework and practical guidelines for designing monitoring plans for NI around learning objectives. In particular, we emphasize conducting research and development monitoring, which provides scientifically rigorous evidence for methodological improvement beyond the project scale. Wherever feasible, and where NI tools are relatively new and untested, such monitoring should avoid wasted effort and ensure progress and refinement of methodology and practice over time. Finally, we propose institutional changes that would promote greater adoption of research and development monitoring to increase the evidence base for NI implementation at larger scales.
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Affiliation(s)
- Charles B van Rees
- Odum School of Ecology & River Basin Center, University of Georgia, Athens, GA, United States.
| | - Laura Naslund
- Odum School of Ecology & River Basin Center, University of Georgia, Athens, GA, United States
| | - Darixa D Hernandez-Abrams
- U.S. Army Corps of Engineers, Engineer Research and Development Center. Vicksburg, MS, United States
| | - S Kyle McKay
- Odum School of Ecology & River Basin Center, University of Georgia, Athens, GA, United States
| | - C Brock Woodson
- School of Environmental, Civil, Agricultural, and Mechanical Engineering, University of Georgia, Athens, GA, United States
| | - Amy Rosemond
- Odum School of Ecology & River Basin Center, University of Georgia, Athens, GA, United States
| | - Brian McFall
- U.S. Army Corps of Engineers, Engineer Research and Development Center. Vicksburg, MS, United States
| | - Safra Altman
- U.S. Army Corps of Engineers, Engineer Research and Development Center. Vicksburg, MS, United States
| | - Seth J Wenger
- Odum School of Ecology & River Basin Center, University of Georgia, Athens, GA, United States
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Kimmel K, Dee LE, Avolio ML, Ferraro PJ. Causal assumptions and causal inference in ecological experiments. Trends Ecol Evol 2021; 36:1141-1152. [PMID: 34538502 DOI: 10.1016/j.tree.2021.08.008] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Revised: 08/10/2021] [Accepted: 08/16/2021] [Indexed: 11/29/2022]
Abstract
Causal inferences from experimental data are often justified based on treatment randomization. However, inferring causality from data also requires complementary causal assumptions, which have been formalized by scholars of causality but not widely discussed in ecology. While ecologists have recognized challenges to inferring causal relationships in experiments and developed solutions, they lack a general framework to identify and address them. We review four assumptions required to infer causality from experiments and provide design-based and statistically based solutions for when these assumptions are violated. We conclude that there is no clear demarcation between experimental and non-experimental designs. This insight can help ecologists design better experiments and remove barriers between experimental and observational scholarship in ecology.
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Affiliation(s)
- Kaitlin Kimmel
- Department of Earth and Planetary Sciences, Johns Hopkins University, Baltimore, MD, USA
| | - Laura E Dee
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, USA.
| | - Meghan L Avolio
- Department of Earth and Planetary Sciences, Johns Hopkins University, Baltimore, MD, USA
| | - Paul J Ferraro
- Carey Business School, Johns Hopkins University, Baltimore, MD, USA; Department of Environmental Health and Engineering, a joint department of the Bloomberg School of Public Health and the Whiting School of Engineering, Johns Hopkins University, Baltimore, MD, USA.
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