19 Aug 2020
Three points of consideration before testing the effect of patch connectivity on local species richness: patch delineation, scaling and variability of metricsF. Laroche, M. Balbi, T. Grébert, F. Jabot & F. Archaux https://doi.org/10.1101/640995
Good practice guidelines for testing species-isolation relationships in patch-matrix systemsRecommended by Damaris Zurell based on reviews by 3 anonymous reviewers
Conservation biology is strongly rooted in the theory of island biogeography (TIB). In island systems where the ocean constitutes the inhospitable matrix, TIB predicts that species richness increases with island size as extinction rates decrease with island area (the species-area relationship, SAR), and species richness increases with connectivity as colonisation rates decrease with island isolation (the species-isolation relationship, SIR). In conservation biology, patches of habitat (habitat islands) are often regarded as analogous to islands within an unsuitable matrix , and SAR and SIR concepts have received much attention as habitat loss and habitat fragmentation are increasingly threatening biodiversity [3,4].
 MacArthur, R.H. and Wilson, E.O. (1967) The theory of island biogeography. Princeton University Press, Princeton.
|Three points of consideration before testing the effect of patch connectivity on local species richness: patch delineation, scaling and variability of metrics
|F. Laroche, M. Balbi, T. Grébert, F. Jabot & F. Archaux
|<p>The Theory of Island Biogeography (TIB) promoted the idea that species richness within sites depends on site connectivity, i.e. its connection with surrounding potential sources of immigrants. TIB has been extended to a wide array of fragmented...
|Biodiversity, Community ecology, Dispersal & Migration, Landscape ecology, Spatial ecology, Metacommunities & Metapopulations
12 May 2022
Riparian forest restoration as sources of biodiversity and ecosystem functions in anthropogenic landscapesYasmine Antonini, Marina Vale Beirao, Fernanda Vieira Costa, Cristiano Schetini Azevedo, Maria Wojakowski, Alessandra Kozovits, Maria Rita Silverio Pires, Hildeberto Caldas Sousa, Maria Cristina Teixeira Braga Messias, Maria Augusta Goncalves Fujaco, Mariangela Garcia Praca Leite, Joice Paiva Vidigal Martins, Graziella Franca Monteiro, Rodolfo Dirzo https://doi.org/10.1101/2021.09.08.459375
Complex but positive diversity - ecosystem functioning relationships in Riparian tropical forestsRecommended by Werner Ulrich based on reviews by 2 anonymous reviewers
Many ecological drivers can impact ecosystem functionality and multifunctionality, with the latter describing the joint impact of different functions on ecosystem performance and services. It is now generally accepted that taxonomically richer ecosystems are better able to sustain high aggregate functionality measures, like energy transfer, productivity or carbon storage (Buzhdygan 2020, Naeem et al. 2009), and different ecosystem services (Marselle et al. 2021) than those that are less rich. Antonini et al. (2022) analysed an impressive dataset on animal and plant richness of tropical riparian forests and abundances, together with data on key soil parameters. Their work highlights the importance of biodiversity on functioning, while accounting for a manifold of potentially covarying drivers. Although the key result might not come as a surprise, it is a useful contribution to the diversity - ecosystem functioning topic, because it is underpinned with data from tropical habitats. To date, most analyses have focused on temperate habitats, using data often obtained from controlled experiments.
The paper also highlights that diversity–functioning relationships are complicated. Drivers of functionality vary from site to site and each measure of functioning, including parameters as demonstrated here, can be influenced by very different sets of predictors, often associated with taxonomic and trait diversity. Single correlative comparisons of certain aspects of diversity and functionality might therefore return very different results. Antonini et al. (2022) show that, in general, using 22 predictors of functional diversity, varying predictor subsets were positively associated with soil functioning. Correlational analyses alone cannot resolve the question of causal link. Future studies should therefore focus on inferring precise mechanisms behind the observed relationships, and the environmental constraints on predictor subset composition and strength.
Antonini Y, Beirão MV, Costa FV, Azevedo CS, Wojakowski MM, Kozovits AR, Pires MRS, Sousa HC de, Messias MCTB, Fujaco MA, Leite MGP, Vidigal JP, Monteiro GF, Dirzo R (2022) Riparian forest restoration as sources of biodiversity and ecosystem functions in anthropogenic landscapes. bioRxiv, 2021.09.08.459375, ver. 3 peer-reviewed and recommended by Peer Community in Ecology. https://doi.org/10.1101/2021.09.08.459375
Buzhdygan OY, Meyer ST, Weisser WW, Eisenhauer N, Ebeling A, Borrett SR, Buchmann N, Cortois R, De Deyn GB, de Kroon H, Gleixner G, Hertzog LR, Hines J, Lange M, Mommer L, Ravenek J, Scherber C, Scherer-Lorenzen M, Scheu S, Schmid B, Steinauer K, Strecker T, Tietjen B, Vogel A, Weigelt A, Petermann JS (2020) Biodiversity increases multitrophic energy use efficiency, flow and storage in grasslands. Nature Ecology & Evolution, 4, 393–405. https://doi.org/10.1038/s41559-020-1123-8
Marselle MR, Hartig T, Cox DTC, de Bell S, Knapp S, Lindley S, Triguero-Mas M, Böhning-Gaese K, Braubach M, Cook PA, de Vries S, Heintz-Buschart A, Hofmann M, Irvine KN, Kabisch N, Kolek F, Kraemer R, Markevych I, Martens D, Müller R, Nieuwenhuijsen M, Potts JM, Stadler J, Walton S, Warber SL, Bonn A (2021) Pathways linking biodiversity to human health: A conceptual framework. Environment International, 150, 106420. https://doi.org/10.1016/j.envint.2021.106420
Naeem S, Bunker DE, Hector A, Loreau M, Perrings C (Eds.) (2009) Biodiversity, Ecosystem Functioning, and Human Wellbeing: An Ecological and Economic Perspective. Oxford University Press, Oxford. https://doi.org/10.1093/acprof:oso/9780199547951.001.0001
|Riparian forest restoration as sources of biodiversity and ecosystem functions in anthropogenic landscapes
|Yasmine Antonini, Marina Vale Beirao, Fernanda Vieira Costa, Cristiano Schetini Azevedo, Maria Wojakowski, Alessandra Kozovits, Maria Rita Silverio Pires, Hildeberto Caldas Sousa, Maria Cristina Teixeira Braga Messias, Maria Augusta Goncalves Fuja...
|<ol> <li style="text-align: justify;">Restoration of tropical riparian forests is challenging, since these ecosystems are the most diverse, dynamic, and complex physical and biological terrestrial habitats. This study tested whether biodiversity ...
|Biodiversity, Community ecology, Ecological successions, Ecosystem functioning, Terrestrial ecology
06 Mar 2020
Interplay between the paradox of enrichment and nutrient cycling in food websPierre Quévreux, Sébastien Barot and Élisa Thébault https://doi.org/10.1101/276592
New insights into the role of nutrient cycling in food web dynamicsRecommended by Samraat Pawar based on reviews by Jean-François Arnoldi, Wojciech Uszko and 1 anonymous reviewer
Understanding the factors that govern the relationship between structure, stability and functioning of food webs has been a central problem in ecology for many decades. Historically, apart from microbial and soil food webs, the role of nutrient cycling has largely been ignored in theoretical and empirical food web studies. A prime example of this is the widespread use of Lotka-Volterra type models in theoretical studies; these models per se are not designed to capture the effect of nutrients being released back into the system by interacting populations. Thus overall, we still lack a general understanding of how nutrient cycling affects food web dynamics.
 Quévreux, P., Barot, S. and E. Thébault (2020) Interplay between the paradox of enrichment and nutrient cycling in food webs. bioRxiv, 276592, ver. 7 peer-reviewed and recommended by PCI Ecology. doi: 10.1101/276592
|Interplay between the paradox of enrichment and nutrient cycling in food webs
|Pierre Quévreux, Sébastien Barot and Élisa Thébault
|<p>Nutrient cycling is fundamental to ecosystem functioning. Despite recent major advances in the understanding of complex food web dynamics, food web models have so far generally ignored nutrient cycling. However, nutrient cycling is expected to ...
|Biodiversity, Community ecology, Ecosystem functioning, Food webs, Interaction networks, Theoretical ecology
01 Mar 2023
Effects of adaptive harvesting on fishing down processes and resilience changes in predator-prey and tritrophic systemsEric Tromeur, Nicolas Loeuille https://doi.org/10.1101/290460
Adaptive harvesting, “fishing down the food web”, and regime shiftsRecommended by Amanda Lynn Caskenette based on reviews by Pierre-Yves HERNVANN and 1 anonymous reviewer
The mean trophic level of catches in world fisheries has generally declined over the 20th century, a phenomenon called "fishing down the food web" (Pauly et al. 1998). Several mechanisms have been proposed to explain this decline including the collapse of, or decline in, higher trophic level stocks leading to the inclusion of lower trophic level stocks in the fishery. Fishing down the food web may lead to a reduction in the resilience, i.e., the capacity to rebound from change, of the fished community, which is concerning given the necessity of resilience in the face of climate change.
The practice of adaptive harvesting, which involves fishing stocks based on their availability, can also result in a reduction in the average trophic level of a fishery (Branch et al. 2010). Adaptive harvesting, similar to adaptive foraging, can affect the resilience of fisheries. Generally, adaptive foraging acts as a stabilizing force in communities (Valdovinos et al. 2010), however it is not clear how including harvesters as the adaptive foragers will affect the resilience of the system.
Tromeur and Loeuille (2023) analyze the effects of adaptively harvesting a trophic community. Using a system of ordinary differential equations representing a predator-prey model where both species are harvested, the researchers mathematically analyze the impact of increasing fishing effort and adaptive harvesting on the mean trophic level and resilience of the fished community. This is achieved by computing the equilibrium densities and equilibrium allocation of harvest effort. In addition, the researchers numerically evaluate adaptive harvesting in a tri-trophic system (predator, prey, and resource). The study focuses on the effect of adaptively distributing harvest across trophic levels on the mean trophic level of catches, the propensity for regime shifts to occur, the ability to return to equilibrium after a disturbance, and the speed of this return.
The results indicate that adaptive harvesting leads to a decline in the mean trophic level of catches, resulting in “fishing down the food web”. Furthermore, the study shows that adaptive harvesting may harm the overall resilience of the system. Similar results were observed numerically in a tri-trophic community.
While adaptive foraging is generally a stabilizing force on communities, the researchers found that adaptive harvesting can destabilize the harvested community. One of the key differences between adaptive foraging models and the model presented here, is that the harvesters do not exhibit population dynamics. This lack of a numerical response by the harvesters to decreasing population sizes of their stocks leads to regime shifts. The realism of a fishery that does not respond numerically to declining stock is debatable, however it is very likely that there will a least be significant delays due to social and economic barriers to leaving the fishery, that will lead to similar results.
This study is not unique in demonstrating the ability of adaptive harvesting to result in “fishing down the food web”. As pointed out by the researchers, the same results have been shown with several different model formulations (e.g., age and size structured models). Similarly, this study is not unique to showing that increasing adaptation speeds decreases the resilience of non-linear predator-prey systems by inducing oscillatory behaviours. Much of this can be explained by the destabilising effect of increasing interaction strengths on food webs (McCann et al. 1998).
By employing a straightforward model, the researchers were able to demonstrate that adaptive harvesting, a common strategy employed by fishermen, can result in a decline in the average trophic level of catches, regime shifts, and reduced resilience in the fished community. While previous studies have observed some of these effects, the fact that the current study was able to capture them all with a simple model is notable. This modeling approach can offer insight into the role of human behavior on the complex dynamics observed in fisheries worldwide.
Branch, T. A., R. Watson, E. A. Fulton, S. Jennings, C. R. McGilliard, G. T. Pablico, D. Ricard, et al. 2010. The trophic fingerprint of marine fisheries. Nature 468:431–435. https://doi.org/10.1038/nature09528
Tromeur, E., and N. Loeuille. 2023. Effects of adaptive harvesting on fishing down processes and resilience changes in predator-prey and tritrophic systems. bioRxiv 290460, ver 5 peer-reviewed and recommended by PCI Ecology. https://doi.org/10.1101/290460
McCann, K., A. Hastings, and G.R. Huxel. 1998. Weak trophic interactions and the balance of nature. Nature 395: 794-798. https://doi.org/10.1038/27427
Pauly, D., V. Christensen, J. Dalsgaard, R. Froese, and F. Torres Jr. 1998. Fishing down marine food webs. Science 279:860–86. https://doi.org/10.1126/science.279.5352.860
Valdovinos, F.S., R. Ramos-Jiliberto, L. Garay-Naravez, P. Urbani, and J.A. Dunne. 2010. Consequences of adaptive behaviour for the structure and dynamics of food webs. Ecology Letters 13: 1546-1559. https://doi.org/10.1111/j.1461-0248.2010.01535.x
|Effects of adaptive harvesting on fishing down processes and resilience changes in predator-prey and tritrophic systems
|Eric Tromeur, Nicolas Loeuille
|<p>Many world fisheries display a declining mean trophic level of catches. This "fishing down the food web" is often attributed to reduced densities of high-trophic-level species. We show here that the fishing down pattern can actually emerge from...
|Biodiversity, Community ecology, Food webs, Foraging, Population ecology, Theoretical ecology
|Amanda Lynn Caskenette
05 Feb 2020
A flexible pipeline combining clustering and correction tools for prokaryotic and eukaryotic metabarcodingMiriam I Brandt, Blandine Trouche, Laure Quintric, Patrick Wincker, Julie Poulain, Sophie Arnaud-Haond https://doi.org/10.1101/717355
A flexible pipeline combining clustering and correction tools for prokaryotic and eukaryotic metabarcodingRecommended by Stefaniya Kamenova based on reviews by Tiago Pereira and 1 anonymous reviewer
High-throughput sequencing-based techniques such as DNA metabarcoding are increasingly advocated as providing numerous benefits over morphology‐based identifications for biodiversity inventories and ecosystem biomonitoring . These benefits are particularly apparent for highly-diversified and/or hardly accessible aquatic and marine environments, where simple water or sediment samples could already produce acceptably accurate biodiversity estimates based on the environmental DNA present in the samples [2,3]. However, sequence-based characterization of biodiversity comes with its own challenges. A major one resides in the capacity to disentangle true biological diversity (be it taxonomic or genetic) from artefactual diversity generated by sequence-errors accumulation during PCR and sequencing processes, or from the amplification of non-target genes (i.e. pseudo-genes). On one hand, the stringent elimination of sequence variants might lead to biodiversity underestimation through the removal of true species, or the clustering of closely-related ones. On the other hand, a more permissive sequence filtering bears the risks of biodiversity inflation. Recent studies have outlined an excellent methodological framework for addressing this issue by proposing bioinformatic tools that allow the amplicon-specific error-correction as alternative or as complement to the more arbitrary approach of clustering into Molecular Taxonomic Units (MOTUs) based on sequence dissimilarity [4,5]. But to date, the relevance of amplicon-specific error-correction tools has been demonstrated only for a limited set of taxonomic groups and gene markers.
 Porter, T. M., and Hajibabaei, M. (2018). Scaling up: A guide to high-throughput genomic approaches for biodiversity analysis. Molecular Ecology, 27(2), 313–338. doi: 10.1111/mec.14478
|A flexible pipeline combining clustering and correction tools for prokaryotic and eukaryotic metabarcoding
|Miriam I Brandt, Blandine Trouche, Laure Quintric, Patrick Wincker, Julie Poulain, Sophie Arnaud-Haond
|<p>Environmental metabarcoding is an increasingly popular tool for studying biodiversity in marine and terrestrial biomes. With sequencing costs decreasing, multiple-marker metabarcoding, spanning several branches of the tree of life, is becoming ...
|Biodiversity, Community ecology, Marine ecology, Molecular ecology
12 Mar 2023
Different approaches to processing environmental DNA samples in turbid waters have distinct effects for fish, bacterial and archaea communities.Rachel Turba, Glory H. Thai, and David K Jacobs https://doi.org/10.1101/2022.06.17.495388
Processing environmental DNA samples in turbid waters from coastal lagoonsRecommended by Claudia Piccini based on reviews by David Murray-Stoker and Rutger De Wit
Coastal lagoons are among the most productive natural ecosystems on Earth. These relatively closed basins are important habitats and nursery for endemic and endangered species and are extremely vulnerable to nutrient input from the surrounding catchment; therefore, they are highly susceptible to anthropogenic influence, pollution and invasion (Pérez-Ruzafa et al., 2019). In general, coastal lagoons exhibit great spatial and temporal variability in their physicochemical water characteristics due to the sporadic mixing of freshwater with marine influx. One of the alternatives for monitoring communities or target species in aquatic ecosystems is the environmental DNA (eDNA), since overcomes some limitations from traditional methods and enables the investigation of multiple species from a single sample (Thomsen and Willerslev, 2015). In coastal lagoons, where the water turbidity is highly variable, there is a major challenge for monitoring the eDNA because filtering turbid water to obtain the eDNA is problematic (filters get rapidly clogged, there is organic and inorganic matter accumulation, etc.).
The study by Turba et al. (2023) analyzes different ways of dealing with eDNA sampling and processing in turbid waters and sediments of coastal lagoons, and offers guidelines to obtain unbiased results from the subsequent sequencing using 12S (fish) and 16S (Bacteria and Archaea) universal primers. They analyzed the effect on taxa detection of: i) freezing or not prior to filtering; ii) freezing prior to centrifugation to obtain a sample pellet; and iii) using frozen sediment samples as a proxy of what happens in the water. The authors propose these different alternatives (freeze, do not freeze, sediment sampling) because they consider that they are the easiest to carry out. They found that freezing before filtering using a 3 µm pore size filter had no effects on community composition for either primer, and therefore it is a worthwhile approach for comparison of fish, bacteria and archaea in this kind of system. However, significantly different bacterial community composition was found for sediment compared to water samples. Also, in sediment samples the replicates showed to be more heterogeneous, so the authors suggest increasing the number of replicates when using sediment samples. Something that could be a concern with the study is that the rarefaction curves based on sequencing effort for each protocol did not saturate in any case, this being especially evident in sediment samples. The authors were aware of this, used the slopes obtained from each curve as a measure of comparison between samples and considering that the sequencing depth did not meet their expectations, they managed to achieve their goal and to determine which protocol is the most promising for eDNA monitoring in coastal lagoons. Although there are details that could be adjusted in relation to this item, I consider that the approach is promising for this type of turbid system.
Pérez-Ruzafa A, Campillo S, Fernández-Palacios JM, García-Lacunza A, García-Oliva M, Ibañez H, Navarro-Martínez PC, Pérez-Marcos M, Pérez-Ruzafa IM, Quispe-Becerra JI, Sala-Mirete A, Sánchez O, Marcos C (2019) Long-Term Dynamic in Nutrients, Chlorophyll a, and Water Quality Parameters in a Coastal Lagoon During a Process of Eutrophication for Decades, a Sudden Break and a Relatively Rapid Recovery. Frontiers in Marine Science, 6. https://doi.org/10.3389/fmars.2019.00026
Thomsen PF, Willerslev E (2015) Environmental DNA – An emerging tool in conservation for monitoring past and present biodiversity. Biological Conservation, 183, 4–18. https://doi.org/10.1016/j.biocon.2014.11.019
Turba R, Thai GH, Jacobs DK (2023) Different approaches to processing environmental DNA samples in turbid waters have distinct effects for fish, bacterial and archaea communities. bioRxiv, 2022.06.17.495388, ver. 2 peer-reviewed and recommended by Peer Community in Ecology. https://doi.org/10.1101/2022.06.17.495388
|Different approaches to processing environmental DNA samples in turbid waters have distinct effects for fish, bacterial and archaea communities.
|Rachel Turba, Glory H. Thai, and David K Jacobs
|<p style="text-align: justify;">Coastal lagoons are an important habitat for endemic and threatened species in California that have suffered impacts from urbanization and increased drought. Environmental DNA has been promoted as a way to aid in th...
|Biodiversity, Community genetics, Conservation biology, Freshwater ecology, Marine ecology, Molecular ecology
05 Apr 2019
Using a large-scale biodiversity monitoring dataset to test the effectiveness of protected areas at conserving North-American breeding birdsVictor Cazalis, Soumaya Belghali, Ana S.L. Rodrigues https://doi.org/10.1101/433037
Protected Areas effects on biodiversity: a test using bird data that hopefully will give ideas for much more studies to comeRecommended by Paul Caplat based on reviews by Willson Gaul and 1 anonymous reviewer
In the face of worldwide declines in biodiversity, evaluating the effectiveness of conservation practices is an absolute necessity. Protected Areas (PA) are a key tool for conservation, and the question “Are PA effective” has been on many a research agenda, as the introduction to this preprint will no doubt convince you. A challenge we face is that, until now, few studies have been explicitly designed to evaluate PA, and despite the rise of meta-analyses on the topic, our capacity to quantify their effect on biodiversity remains limited.
 Cazalis, V., Belghali, S., & Rodrigues, A. S. (2019). Using a large-scale biodiversity monitoring dataset to test the effectiveness of protected areas at conserving North-American breeding birds. bioRxiv, 433037, ver. 4 peer-reviewed and recommended by PCI Ecology. doi: 10.1101/433037
|Using a large-scale biodiversity monitoring dataset to test the effectiveness of protected areas at conserving North-American breeding birds
|Victor Cazalis, Soumaya Belghali, Ana S.L. Rodrigues
|<p>Protected areas currently cover about 15% of the global land area, and constitute one of the main tools in biodiversity conservation. Quantifying their effectiveness at protecting species from local decline or extinction involves comparing prot...
|Biodiversity, Conservation biology, Human impact, Landscape ecology, Macroecology
15 Feb 2024
Sources of confusion in global biodiversity trendsMaelys Boennec, Vasilis Dakos, Vincent Devictor https://doi.org/10.32942/X29W3H
Unraveling the Complexity of Global Biodiversity Dynamics: Insights and ImperativesRecommended by Paulo Borges based on reviews by Pedro Cardoso and 1 anonymous reviewer
Biodiversity loss is occurring at an alarming rate across terrestrial and marine ecosystems, driven by various processes that degrade habitats and threaten species with extinction. Despite the urgency of this issue, empirical studies present a mixed picture, with some indicating declining trends while others show more complex patterns.
In a recent effort to better understand global biodiversity dynamics, Boennec et al. (2024) conducted a comprehensive literature review examining temporal trends in biodiversity. Their analysis reveals that reviews and meta-analyses, coupled with the use of global indicators, tend to report declining trends more frequently. Additionally, the study underscores a critical gap in research: the scarcity of investigations into the combined impact of multiple pressures on biodiversity at a global scale. This lack of understanding complicates efforts to identify the root causes of biodiversity changes and develop effective conservation strategies.
This study serves as a crucial reminder of the pressing need for long-term biodiversity monitoring and large-scale conservation studies. By filling these gaps in knowledge, researchers can provide policymakers and conservation practitioners with the insights necessary to mitigate biodiversity loss and safeguard ecosystems for future generations.
Boennec, M., Dakos, V. & Devictor, V. (2023). Sources of confusion in global biodiversity trend. bioRxiv, ver. 4 peer-reviewed and recommended by Peer Community in Ecology. https://doi.org/10.32942/X29W3H
|Sources of confusion in global biodiversity trends
|Maelys Boennec, Vasilis Dakos, Vincent Devictor
|<p>Populations and ecological communities are changing worldwide, and empirical studies exhibit a mixture of either declining or mixed trends. Confusion in global biodiversity trends thus remains while assessing such changes is of major social, po...
|Biodiversity, Conservation biology, Meta-analyses
03 Oct 2023
Integrating biodiversity assessments into local conservation planning: the importance of assessing suitable data sourcesThibaut Ferraille, Christian Kerbiriou, Charlotte Bigard, Fabien Claireau, John D. Thompson https://doi.org/10.1101/2023.05.09.539999
Biodiversity databases are ever more numerous, but can they be used reliably for Species Distribution Modelling?Recommended by Nicolas Schtickzelle based on reviews by 2 anonymous reviewers
Proposing efficient guidelines for biodiversity conservation often requires the use of forecasting tools. Species Distribution Models (SDM) are more and more used to predict how the distribution of a species will react to environmental change, including any large-scale management actions that could be implemented. Their use is also boosted by the increase of publicly available biodiversity databases. The now famous aphorism by George Box "All models are wrong but some are useful" very well summarizes that the outcome of a model must be adjusted to, and will depend on, the data that are used to parameterize it. The question of the reliability of using biodiversity databases to parameterize biodiversity models such as SDM –but the question would also apply to other kinds of biodiversity models, e.g. Population Viability Analysis models– is key to determine the confidence that can be placed in model predictions. This point is often overlooked by some categories of biodiversity conservation stakeholders, in particular the fact that some data were collected using controlled protocols while others are opportunistic.
In this study, the authors use a collection of databases covering a range of species as well as of geographic scales in France and using different data collection and validation approaches as a case study to evaluate the impact of data quality when performing Strategic Environmental Assessment (SEA). Among their conclusions, the fact that a large-scale database (what they call the “country” level) is necessary to reliably parameterize SDM. Besides this and other conclusions of their study, which are likely to be in part specific to their case study –unfortunately for its conservation, biodiversity is complex and varies a lot–, the merit of this work lies in the approach used to test the impact of data on model predictions.
1. Feng, X. et al. A review of the heterogeneous landscape of biodiversity databases: Opportunities and challenges for a synthesized biodiversity knowledge base. Global Ecology and Biogeography 31, 1242–1260 (2022). https://doi.org/10.1111/geb.13497
2. Box, G. E. P. Robustness in the Strategy of Scientific Model Building. in Robustness in Statistics (eds. Launer, R. L. & Wilkinson, G. N.) 201–236 (Academic Press, 1979). https://doi.org/10.1016/B978-0-12-438150-6.50018-2.
3. Beissinger, S. R. & McCullough, D. R. Population Viability Analysis. (The University of Chicago Press, 2002).
4. Ferraille, T., Kerbiriou, C., Bigard, C., Claireau, F. & Thompson, J. D. (2023) Integrating biodiversity assessments into local conservation planning: the importance of assessing suitable data sources. bioRxiv, ver. 3 peer-reviewed and recommended by Peer Community in Ecology. https://doi.org/10.1101/2023.05.09.539999
|Integrating biodiversity assessments into local conservation planning: the importance of assessing suitable data sources
|Thibaut Ferraille, Christian Kerbiriou, Charlotte Bigard, Fabien Claireau, John D. Thompson
|<p>Strategic Environmental Assessment (SEA) of land-use planning is a fundamental tool to minimize environmental impacts of artificialization. In this context, Systematic Conservation Planning (SCP) tools based on Species Distribution Models (SDM)...
|Biodiversity, Conservation biology, Species distributions, Terrestrial ecology
11 Oct 2023
Identification of microbial exopolymer producers in sandy and muddy intertidal sediments by compound-specific isotope analysisCédric Hubas, Julie Gaubert-Boussarie, An-Sofie D’Hondt, Bruno Jesus, Dominique Lamy, Vona Meleder, Antoine Prins, Philippe Rosa, Willem Stock, Koen Sabbe https://doi.org/10.1101/2022.12.02.516908
Disentangling microbial exopolymer dynamics in intertidal sedimentsRecommended by Ute Risse-Buhl and Nils Rädecker based on reviews by 2 anonymous reviewers
The secretion of extracellular polymeric substances (EPS) enables microorganisms to shape and interact with their environment . EPS support cell adhesion and motility, offer protection from unfavorable conditions, and facilitate nutrient acquisition and transfer between microorganisms . EPS production and consumption thus control the formation and structural organization of biofilms . However, in marine environments, our understanding of the sources and composition of EPS is limited.
|Identification of microbial exopolymer producers in sandy and muddy intertidal sediments by compound-specific isotope analysis
|Cédric Hubas, Julie Gaubert-Boussarie, An-Sofie D’Hondt, Bruno Jesus, Dominique Lamy, Vona Meleder, Antoine Prins, Philippe Rosa, Willem Stock, Koen Sabbe
|<p style="text-align: justify;">Extracellular polymeric substances (EPS) refer to a wide variety of high molecular weight molecules secreted outside the cell membrane by biofilm microorganisms. In the present study, EPS from marine microphytobenth...
|Biodiversity, Ecological stoichiometry, Ecosystem functioning, Food webs, Marine ecology, Microbial ecology & microbiology, Soil ecology