Article
Ecology
Florencia Grattarola, Diana E. Bowler, Petr Keil
Summary: Anthropogenic changes affect species' geographic ranges, but data on range dynamics are insufficient and biased. Integrated species distribution models (IDMs) can complement data and account for sampling effort, but are not widely used for temporal change. This study presents a generalizable model and case example to address this issue.
JOURNAL OF BIOGEOGRAPHY
(2023)
Article
Ecology
Victoria Nolan, Francis Gilbert, Tom Reader
Summary: By converting species presence data into 'pseudo-abundance' and using zero-inflated models to address sampling bias, greater accuracy and reliability can be achieved in species distribution modeling.
JOURNAL OF BIOGEOGRAPHY
(2022)
Article
Biodiversity Conservation
Roozbeh Valavi, Jane Elith, Jose J. Lahoz-Monfort, Gurutzeta Guillera-Arroita
Summary: This study investigates the poor performance of the random forest algorithm with default parameters in species presence-background modeling, attributing it to class imbalance and class overlap. By proposing solutions and methods to manage imbalance and overlap, the algorithm's performance is improved.
Article
Ecology
Christophe Botella, Alexis Joly, Pierre Bonnet, Francois Munoz, Pascal Monestiez
Summary: This study introduces a method for jointly estimating sampling effort and species densities to avoid biases in species distribution models. The proposed method accurately estimated sampling effort when constant within spatial mesh cells. Inferences were correct and robust to sampling variation within cells, providing reliable SDM for large presence-only datasets.
METHODS IN ECOLOGY AND EVOLUTION
(2021)
Article
Ecology
Matthew T. Farr, David S. Green, Kay E. Holekamp, Elise F. Zipkin
Summary: Integrated models combining presence-only data and distance sampling data improve accuracy and precision of estimates for species abundance and covariate effects. A case study in the Masai Mara National Reserve in Kenya revealed that human disturbance was a major driver of black-backed jackal abundance patterns. The model showed minimal effects of landscape cover, lion density, and distance to water sources on jackal abundance.
Article
Multidisciplinary Sciences
Kamil Konowalik, Agata Nosol
Summary: The study investigates the influence of different datasets on ecological niche modeling, showing that both local and general datasets can produce useful predictions for species distribution ranges. Results indicate the potential of using manually georeferenced archival sources in reconstructions aimed at establishing species' ecological niches.
SCIENTIFIC REPORTS
(2021)
Article
Biodiversity Conservation
Virginia Morera-Pujol, Philip S. Mostert, Kilian J. Murphy, Tim Burkitt, Barry Coad, Barry J. McMahon, Maarten Nieuwenhuis, Kevin Morelle, Alastair I. Ward, Simone Ciuti
Summary: Using geospatial data to predict species distribution is a common tool in management and conservation. However, high-quality data is expensive, so integrated species distribution models (ISDMs) have been developed to combine high-quality presence-absence data with low-quality presence-only data. This study demonstrates the applicability of spatially explicit ISDMs to empirical data in a Bayesian context.
Article
Ecology
Juan M. Escamilla Molgora, Luigi Sedda, Peter Diggle, Peter M. Atkinson
Summary: This study proposes a Bayesian framework for presence-only (PO) species distribution models (SDM) that explicitly models the sampling effect. It provides three modeling alternatives to account for a spatial autocorrelation structure and achieves higher predictive accuracy than MaxEnt in two case studies. The framework is aided by a sampling effort process informed by accumulated observations of independent and heterogeneous surveys.
JOURNAL OF BIOGEOGRAPHY
(2022)
Article
Multidisciplinary Sciences
Ya-Mei Chang, Suman Rakshit, Chun-Hung Huang, Wen-Hsuan Wu
Summary: In this research, probabilistic approaches are proposed to identify pairwise patterns of species co-occurrence using presence-absence maps. The methods involve constructing contingency tables and conducting statistical tests based on either binomial or Poisson distribution to determine the positive or negative association between two species. The effectiveness of these approaches is demonstrated through simulation studies.
Article
Ecology
Anxo Conde, Sergio Leandro, Paulo Maranha, Jorge Dominguez
Summary: Community data often needs to be transformed or standardized for multivariate analysis. However, existing methods are rarely suitable for presence-absence data. This article presents a method that uses binomial probability to transform binary matrices and demonstrates its effectiveness through experimentation.
ECOLOGICAL INFORMATICS
(2022)
Article
Mathematics, Applied
Baiyu Chen, Yi Kou, Yufeng Wang, Daniel Zhao, Shaoxun Liu, Guilin Liu, Liping Wang, Xuefeng Han
Summary: The study investigates the impact of the number of typhoon occurrences and intensity on wave displacement and water level by constructing a compound Poisson process model, improving limitations in using typhoon intensity and wave height as random variables in the marine environment. This stochastic process-based model provides a new option for marine engineering design and risk management.
Article
Entomology
Rafael Carlesso Aita, Daniela T. Pezzini, Eric C. Burkness, Christina D. DiFonzo, Deborah L. Finke, Thomas E. Hunt, Janet J. Knodel, Christian H. Krupke, Lia Marchi-Werle, Brian McCornack, Andrew P. Michel, Christopher R. Philips, Nicholas J. Seiter, Adam J. Varenhorst, Robert J. Wright, William D. Hutchison, Robert L. Koch
Summary: Stink bugs pose an increasing threat to soybean production in the Midwest region of the United States, requiring a more efficient sampling plan for management. Through field sampling and development of a binomial sequential sampling plan, the optimal threshold values and action thresholds for this region were identified.
JOURNAL OF ECONOMIC ENTOMOLOGY
(2021)
Article
Multidisciplinary Sciences
Constantin W. Arnscheidt, Daniel H. Rothman
Summary: The amplitude of past global temperature fluctuations varies on different time scales. Stabilizing mechanisms dominate the climate system on shorter time scales, while chance plays an important role in maintaining long-term habitability on longer time scales.
Article
Neurosciences
Caroline J. Charpentier, Paul Faulkner, Eva R. Pool, Verena Ly, Marieke S. Tollenaar, Lisa M. Kluen, Aniek Fransen, Yumeya Yamamori, Niall Lally, Anahit Mkrtchian, Vincent Valton, Quentin J. M. Huys, Ioannis Sarigiannidis, Kelly A. Morrow, Valentina Krenz, Felix Kalbe, Anna Cremer, Gundula Zerbes, Franziska M. Kausche, Nadine Wanke, Alessio Giarrizzo, Erdem Pulcu, Susannah Murphy, Alexander Kaltenboeck, Michael Browning, Lynn K. Paul, Roshan Cools, Karin Roelofs, Luiz Pessoa, Catherine J. Harmer, Henry W. Chase, Christian Grillon, Lars Schwabe, Jonathan P. Roiser, Oliver J. Robinson, John P. O'Doherty
Summary: The study found that participants in fMRI studies tend to have lower levels of trait anxiety compared to participants in behavior-only studies, potentially leading to a sampling or self-selection bias. It is important to assess trait anxiety during recruitment and implement appropriate screening procedures or sampling strategies to mitigate this bias.
SOCIAL COGNITIVE AND AFFECTIVE NEUROSCIENCE
(2021)
Article
Engineering, Multidisciplinary
Muhammad Aslam, G. Srinivasa Rao, Ambreen Shafqat, Liaquat Ahmad, Rehan Ahmad Khan Sherwani
Summary: A novel group sampling control method for neutrosophic statistics under the COM-Poisson distribution was introduced in this article. The results demonstrate that this new method will be an effective addition to control chart literature, especially ideal for application under specific conditions.
Article
Ecology
Simeon Lisovski, Silke Bauer, Martins Briedis, Sarah C. Davidson, Kiran L. Dhanjal-Adams, Michael T. Hallworth, Julia Karagicheva, Christoph M. Meier, Benjamin Merkel, Janne Ouwehand, Lykke Pedersen, Eldar Rakhimberdiev, Amelie Roberto-Charron, Nathaniel E. Seavy, Michael D. Sumner, Caz M. Taylor, Simon J. Wotherspoon, Eli S. Bridge
JOURNAL OF ANIMAL ECOLOGY
(2020)
Article
Meteorology & Atmospheric Sciences
Md Wahiduzzaman, Eric C. J. Oliver, Simon J. Wotherspoon, Jing-Jia Luo
Article
Oceanography
Jake R. Wallis, Dale Maschette, Simon Wotherspoon, So Kawaguchi, Kerrie M. Swadling
DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY
(2020)
Article
Fisheries
Paul Tixier, Paul Burch, Felix Massiot-Granier, Philippe Ziegler, Dirk Welsford, Mary-Anne Lea, Mark A. Hindell, Christophe Guinet, Simon Wotherspoon, Nicolas Gasco, Clara Peron, Guy Duhamel, Rhys Arangio, Renzo Tascheri, Sobahle Somhlaba, John P. Y. Arnould
REVIEWS IN FISH BIOLOGY AND FISHERIES
(2020)
Article
Ecology
Scott D. Foster
Summary: A well-considered survey design is crucial for generating representative data from the sample population. Spatially balanced randomisation with unequal inclusion probabilities is an efficient method within sampling theory. The R-package MBHdesign provides field researchers with easy access to these designs and implements point-based and transect-based methods.
METHODS IN ECOLOGY AND EVOLUTION
(2021)
Article
Ecology
Scott D. Foster, Jarno Vanhatalo, Verena M. Trenkel, Torsti Schulz, Emma Lawrence, Rachel Przeslawski, Geoffrey R. Hosack
Summary: This study examines the effectiveness of data reuse in ecological research and finds that ignoring survey designs can lead to up to 250% bias in density estimates, which cannot be reduced by adding more data. It suggests using appropriate estimators or models to mitigate this bias.
ECOLOGICAL APPLICATIONS
(2021)
Article
Environmental Sciences
Jarno Vanhatalo, Scott D. Foster, Geoffrey R. Hosack
Summary: This study introduces a finite mixture model for spatial and spatiotemporal clustering that incorporates spatial and spatiotemporal autocorrelation and environmental covariates using Gaussian processes. Bayesian inference through approximation methods, including Laplace approximation and Markov chain Monte Carlo approaches, is employed for efficient and accurate analysis of large datasets. Results suggest that the Laplace approximation is a useful alternative to MCMC methods for spatial and spatiotemporal clustering.
Article
Limnology
Delphi F. L. Ward, Jessica Melbourne-Thomas, Craig R. Johnson, Simon J. Wotherspoon
Summary: Non-trophic interactions, such as the production of DMS by phytoplankton in the Southern Ocean ecosystem, can play a crucial role in community stability by attracting predators and releasing nutrients that fertilize the water column. Modelling studies show that uncertainties in these interactions can significantly impact stability, with factors like phytoplankton competition, DMS production and predator attraction to DMS being key determinants of community stability. Incorporating DMS-mediated feedbacks into larger networks can have a moderate impact on stability characteristics and alter vulnerability to perturbation at different trophic levels.
LIMNOLOGY AND OCEANOGRAPHY
(2022)
Article
Parasitology
Adrien Ickowicz, Scott D. Foster, Geoffrey R. Hosack, Keith R. Hayes
Summary: Reproductive containment provides a chance for staged-release genetic control strategies of malaria vectors. A model was developed to study the spread and persistence of genetically modified sterile male mosquitoes, with results indicating that they will remain localized and persist for a short duration.
PARASITES & VECTORS
(2021)
Article
Ecology
Sophia Volzke, Clive R. McMahon, Mark A. Hindell, Harry R. Burton, Simon J. Wotherspoon
Summary: This study investigates the impact of changing environmental conditions in the Southern Ocean on southern elephant seal populations. It found that climate factors affect the survival rates of juvenile and adult seals, with the Southern Annular Mode and Southern Oscillation Index being important influencing factors.
ECOLOGY AND EVOLUTION
(2021)
Article
Multidisciplinary Sciences
Scott D. Foster, Pierre Feutry, Peter Grewe, Campbell Davies
Summary: The amount of information needed for analytical tasks in population genetics depends on the number of individuals sampled and the genetic markers measured, with different tasks requiring varying numbers of individuals and genetic markers. Real data from sampling locations across the tropical Pacific Ocean were used to assess genetic differences and sample sizes for tasks such as profile testing, stock delineation, and assignment of individuals to stocks in yellowfin tuna populations. Task-specific sample size requirements were determined to help guide the design of molecular ecological surveys for yellowfin tuna.
Article
Biology
Fernando Arce, Mark A. Hindell, Clive R. McMahon, Simon J. Wotherspoon, Christophe Guinet, Robert G. Harcourt, Sophie Bestley
Summary: Antarctic polynyas are persistent open water areas that enable phytoplankton blooms. A study on southern elephant seals showed that most of them forage in polynyas and gain more energy from doing so. Despite other factors influencing their choice of feeding grounds, polynyas remain important for foraging.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2022)
Letter
Ecology
Jan Jansen, Skipton N. C. Woolley, Piers K. Dunstan, Scott D. Foster, Nicole A. Hill, Marcus Haward, Craig R. Johnson
NATURE ECOLOGY & EVOLUTION
(2022)
Article
Fisheries
Milan Sojitra, Eric J. Woehler, Mary-Anne Lea, Simon Wotherspoon
Summary: Long-term studies have shown that changes in seabird abundance and distribution are influenced by climate change and human activities. This study examined black-browed albatross and light-mantled sooty albatross observations over a 50-year period and found that climate indices, sea surface temperature, and sea surface height are the main drivers of their abundance and occurrence. The black-browed albatross showed a substantial decrease in abundance southeast of Australia, while no significant change was observed in the abundance of the light-mantled sooty albatross.
ICES JOURNAL OF MARINE SCIENCE
(2022)
Article
Multidisciplinary Sciences
Sophia Volzke, Jaimie B. Cleeland, Mark A. Hindell, Stuart P. Corney, Simon J. Wotherspoon, Clive R. McMahon
Summary: Southern elephant seals, which are highly dimorphic and extremely polygynous, exhibit clear differences in survival rates between males and females of different ages. While overall juvenile survival rates were stable around 80-85% for both sexes, male survival rates were consistently 5-10% lower than females until the age of 8. At this point, male survival rapidly decreased to 50% while female survival rates remained constant at 80%. These differences may be attributed to varying energetic requirements between adult males and females and are less distinct during early juvenile development. Our findings suggest that sex-specific adult survival in this species is influenced by ecological interactions and evolutionary specialization associated with being a highly polygynous marine predator.
ROYAL SOCIETY OPEN SCIENCE
(2023)