scholarly journals Measurement and analysis of interspecific spatial associations as a facet of biodiversity

2019 ◽  
Author(s):  
Petr Keil ◽  
Thorsten Wiegand ◽  
Anikó B. Tóth ◽  
Daniel J. McGlinn ◽  
Jonathan Chase

Interspecific spatial associations (ISA), which include co-occurrences, segregations, or attractions among two or more species, can provide important insights into the spatial structuring of communities. However, ISA has primarily been examined in the context of understanding interspecific interactions, while other aspects of ISA, including its relations to other biodiversity facets and how it changes in the face of anthropogenic pressures, have been largely neglected. This is likely because it is unclear what makes ISA useful in a biodiversity context, little is known about the theoretical connections between ISA and other biodiversity facets, and there is a confusing variety of approaches to measuring ISA. Here, we first review the metrics of ISA. These include both spatially implicit and explicit indices of association for both binary and abundance data. We test and compare these approaches on empirical and simulated data, and we provide specific recommendations for how to use and interpret them in biodiversity science. We argue that measurements of ISA are more informative when they are spatially explicit (i.e. distance dependent). We then review links of ISA to other classical biodiversity facets, such as alpha, beta, and gamma diversity, and show that they mostly fail to reflect changes/variation in ISA, with the exception of average pair-wise beta diversity. This underscores the need for a specific focus on ISA in large-scale biodiversity assessments. Finally, we argue that there are important, and underappreciated, reasons to study ISA that are unrelated to its link to biotic interactions. Specifically, ISA can provide strong tests of biodiversity theories that require multiple patterns to benchmark against, and it can be explored for potentially predictive macroecological patterns.

2019 ◽  
Vol 7 ◽  
Author(s):  
Gabriel Muñoz ◽  
W. Daniel Kissling ◽  
E. Emiel van Loon

A considerable portion of primary biodiversity data is digitally locked inside published literature which is often stored as pdf files. Large-scale approaches to biodiversity science could benefit from retrieving this information and making it digitally accessible and machine-readable. Nonetheless, the amount and diversity of digitally published literature pose many challenges for knowledge discovery and retrieval. Text mining has been extensively used for data discovery tasks in large quantities of documents. However, text mining approaches for knowledge discovery and retrieval have been limited in biodiversity science compared to other disciplines. Here, we present a novel, open source text mining tool, the Biodiversity Observations Miner (BOM). This web application, written in R, allows the semi-automated discovery of punctual biodiversity observations (e.g. biotic interactions, functional or behavioural traits and natural history descriptions) associated with the scientific names present inside a corpus of scientific literature. Furthermore, BOM enable users the rapid screening of large quantities of literature based on word co-occurrences that match custom biodiversity dictionaries. This tool aims to increase the digital mobilisation of primary biodiversity data and is freely accessible via GitHub or through a web server.


Author(s):  
Richard Gowan

During Ban Ki-moon’s tenure, the Security Council was shaken by P5 divisions over Kosovo, Georgia, Libya, Syria, and Ukraine. Yet it also continued to mandate and sustain large-scale peacekeeping operations in Africa, placing major burdens on the UN Secretariat. The chapter will argue that Ban initially took a cautious approach to controversies with the Council, and earned a reputation for excessive passivity in the face of crisis and deference to the United States. The second half of the chapter suggests that Ban shifted to a more activist pressure as his tenure went on, pressing the Council to act in cases including Côte d’Ivoire, Libya, and Syria. The chapter will argue that Ban had only a marginal impact on Council decision-making, even though he made a creditable effort to speak truth to power over cases such as the Central African Republic (CAR), challenging Council members to live up to their responsibilities.


2021 ◽  
pp. 239965442198970
Author(s):  
Maissaa Almustafa

The end of 2015 witnessed a global record in the number of forcibly displaced people fleeing because of wars and persecution. The unprecedented total of 65.3 million displaced individuals, out of which 21.3 million were refugees, was the highest number that the United Nations High Commissioner for Refugees (UNHCR) has recorded since its establishment in 1950. During the same year and in the face of this large-scale crisis, only 107,100 refugees were admitted for resettlement through official resettlement programs, whereas 3.2 million people applied for asylum globally. And in spite of the fact that the majority of the world refugees are hosted in ten developing regions, the dominant narrative in the global media was about the “unauthorized” arrival of more than one million asylum seekers in Europe by sea during 2015. This paper argues that the unexpected nature of refugees’ arrivals has proven that refugees were supposed to be contained in their camps in the Global South, deterred from reaching the territories of the Global North, represented here by Europe. Thus, the paper proposes that these arrivals are rather reflections of a crisis of protection that developed in the Global South where containment and deterrence strategies against refugees from the Global South exacerbate their inhumane displacement conditions in home regions. In the same context, the paper discusses how international protection structures have been reconstructed to serve the same goals of containment and deterrence, with the ultimate aim of putting people ‘back in place’ with minimal access to protection and rights.


2008 ◽  
Vol 42 ◽  
pp. 71-85 ◽  
Author(s):  
J.A. Woolliams ◽  
O. Matika ◽  
J. Pattison

SummaryLivestock production faces major challenges through the coincidence of major drivers of change, some with conflicting directions. These are:1. An unprecedented global change in demands for traditional livestock products such as meat, milk and eggs.2. Large changes in the demographic and regional distribution of these demands.3. The need to reduce poverty in rural communities by providing sustainable livelihoods.4. The possible emergence of new agricultural outputs such as bio-fuels making a significant impact upon traditional production systems.5. A growing awareness of the need to reduce the environmental impact of livestock production.6. The uncertainty in the scale and impact of climate change. This paper explores these challenges from a scientific perspective in the face of the large-scale and selective erosion of our animal genetic resources, and concludes thai there is a stronger and more urgent need than ever before to secure the livestock genetic resources available to humankind through a comprehensive global conservation programme.


Genetics ◽  
2003 ◽  
Vol 165 (4) ◽  
pp. 2269-2282
Author(s):  
D Mester ◽  
Y Ronin ◽  
D Minkov ◽  
E Nevo ◽  
A Korol

Abstract This article is devoted to the problem of ordering in linkage groups with many dozens or even hundreds of markers. The ordering problem belongs to the field of discrete optimization on a set of all possible orders, amounting to n!/2 for n loci; hence it is considered an NP-hard problem. Several authors attempted to employ the methods developed in the well-known traveling salesman problem (TSP) for multilocus ordering, using the assumption that for a set of linked loci the true order will be the one that minimizes the total length of the linkage group. A novel, fast, and reliable algorithm developed for the TSP and based on evolution-strategy discrete optimization was applied in this study for multilocus ordering on the basis of pairwise recombination frequencies. The quality of derived maps under various complications (dominant vs. codominant markers, marker misclassification, negative and positive interference, and missing data) was analyzed using simulated data with ∼50-400 markers. High performance of the employed algorithm allows systematic treatment of the problem of verification of the obtained multilocus orders on the basis of computing-intensive bootstrap and/or jackknife approaches for detecting and removing questionable marker scores, thereby stabilizing the resulting maps. Parallel calculation technology can easily be adopted for further acceleration of the proposed algorithm. Real data analysis (on maize chromosome 1 with 230 markers) is provided to illustrate the proposed methodology.


Forests ◽  
2021 ◽  
Vol 12 (6) ◽  
pp. 753
Author(s):  
Guadalupe Sáez-Cano ◽  
Marcos Marvá ◽  
Paloma Ruiz-Benito ◽  
Miguel A. Zavala

The prediction of tree growth is key to further understand the carbon sink role of forests and the short-term forest capacity on climate change mitigation. In this work, we used large-scale data available from three consecutive forest inventories in a Euro-Mediterranean region and the Bertalanffy–Chapman–Richards equation to model up to a decade’s tree size variation in monospecific forests in the growing stages. We showed that a tree-level fitting with ordinary differential equations can be used to forecast tree diameter growth across time and space as function of environmental characteristics and initial size. This modelling approximation was applied at different aggregation levels to monospecific regions with forest inventories to predict trends in aboveground tree biomass stocks. Furthermore, we showed that this model accurately forecasts tree growth temporal dynamics as a function of size and environmental conditions. Further research to provide longer term prediction forest stock dynamics in a wide variety of forests should model regeneration and mortality processes and biotic interactions.


2021 ◽  
Vol 25 (11) ◽  
pp. 1-10
Author(s):  
K. Vasumathi ◽  
Raja Vadivu G. Nadana ◽  
E.M. Nithiya ◽  
K. Sundar ◽  
M. Premalatha

Microalgae, the photosynthetic microorganism growing abundantly in marine and aquatic ecosystems, are potential source for biological sequestration of CO2. The carbon uptake differs in the presence of other nutrients, light intensity etc. The biomass yield of Scenedesmus arcuatus var capitatus was studied based on the Face Centred Central Composite design (FCCD) of Response Surface Methodology (RSM) for nitrate, phosphate and carbonate under different conditions (laboratory, room and sunlight conditions). Various pre-treatments (osmotic shock, autoclaving, microwave and ultrasonication) were employed to find the best method for maximum lipid yield. The biomass yield reached a maximum of 1 g/L under sunlight conditions of nitrate concentration 500 ppm and carbonate 2000 ppm. The laboratory conditions resulted in a biomass yield of 0.59 g/L at 500 ppm nitrate, 1000 ppm carbonate and 250 ppm phosphate. Under room conditions, the yield was very low (0.11 g/L). Osmotic shock resulted in higher lipid yield than the other pre-treatment methods. The ability of Scenedesmus arcuatus to uptake high carbon under sunlight conditions and to adapt to high light intensity and fluctuations in light intensity concludes that this species is suitable for large-scale open pond cultivation for CO2 sequestration and production of metabolites.


1973 ◽  
Vol 51 (3) ◽  
pp. 333-347 ◽  
Author(s):  
John C. Holmes

That parasites actively select specific sites in their hosts is well known. Some parasites respond to changing conditions within the host by making diel or other short-term migrations, which may be modified by the presence of other parasites.Evidence is presented to support the hypothesis that continued interactions between parasites lead to niche diversification, and that site segregation, and consequently narrow site specificity, is an important part of niche specialization. The paucity of cases of interactive site segregation as compared with those of genetically stabilized selective site segregation suggests that parasite faunas are mature communities, the diversity of which has been established to an important extent through biotic interactions.


2019 ◽  
Author(s):  
Marion Poupard ◽  
Paul Best ◽  
Jan Schlüter ◽  
Helena Symonds ◽  
Paul Spong ◽  
...  

Killer whales (Orcinus orca) can produce 3 types of signals: clicks, whistles and vocalizations. This study focuses on Orca vocalizations from northern Vancouver Island (Hanson Island) where the NGO Orcalab developed a multi-hydrophone recording station to study Orcas. The acoustic station is composed of 5 hydrophones and extends over 50 km 2 of ocean. Since 2015 we are continuously streaming the hydrophone signals to our laboratory in Toulon, France, yielding nearly 50 TB of synchronous multichannel recordings. In previous work, we trained a Convolutional Neural Network (CNN) to detect Orca vocalizations, using transfer learning from a bird activity dataset. Here, for each detected vocalization, we estimate the pitch contour (fundamental frequency). Finally, we cluster vocalizations by features describing the pitch contour. While preliminary, our results demonstrate a possible route towards automatic Orca call type classification. Furthermore, they can be linked to the presence of particular Orca pods in the area according to the classification of their call types. A large-scale call type classification would allow new insights on phonotactics and ethoacoustics of endangered Orca populations in the face of increasing anthropic pressure.


BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Xiujin Li ◽  
Hailiang Song ◽  
Zhe Zhang ◽  
Yunmao Huang ◽  
Qin Zhang ◽  
...  

Abstract Background With the emphasis on analysing genotype-by-environment interactions within the framework of genomic selection and genome-wide association analysis, there is an increasing demand for reliable tools that can be used to simulate large-scale genomic data in order to assess related approaches. Results We proposed a theory to simulate large-scale genomic data on genotype-by-environment interactions and added this new function to our developed tool GPOPSIM. Additionally, a simulated threshold trait with large-scale genomic data was also added. The validation of the simulated data indicated that GPOSPIM2.0 is an efficient tool for mimicking the phenotypic data of quantitative traits, threshold traits, and genetically correlated traits with large-scale genomic data while taking genotype-by-environment interactions into account. Conclusions This tool is useful for assessing genotype-by-environment interactions and threshold traits methods.


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