Correlated evolution between climate and suites of traits along a fast–slow continuum in the radiation of Protea

Evolutionary radiations are responsible for much of Earth's diversity, yet the causes of these radiations are often elusive. Determining the relative roles of adaptation and geographic isolation in diversification is vital to understanding the causes of any radiation, and whether a radiation may be labeled as “adaptive” or not. Across many groups of plants, trait–climate relationships suggest that traits are an important indicator of how plants adapt to different climates. In particular, analyses of plant functional traits in global databases suggest that there is an “economics spectrum” along which combinations of functional traits covary along a fast–slow continuum. We examine evolutionary associations among traits and between trait and climate variables on a strongly supported phylogeny in the iconic plant genus Protea to identify correlated evolution of functional traits and the climatic‐niches that species occupy. Results indicate that trait diversification in Protea has climate associations along two axes of variation: correlated evolution of plant size with temperature and leaf investment with rainfall. Evidence suggests that traits and climatic‐niches evolve in similar ways, although some of these associations are inconsistent with global patterns on a broader phylogenetic scale. When combined with previous experimental work suggesting that trait–climate associations are adaptive in Protea, the results presented here suggest that trait diversification in this radiation is adaptive.     

On the theoretical concept of the potential natural vegetation and proposals for an up-to-date modification

In the extent to which it is used, the concept of the potential natural vegetation (PNV) is one of the most successful novelties in vegetation science over the last decades. However, previous applications of the concept have shown that the theoretical principles were used inconsistently or interpreted in an incorrect sense. The present problems in application (which become evident when visualizing historical aspects of the concept) mainly result from (a) inconsistent treatment of the construction criteria; (b) failure to distinguish between the “potential natural vegetation”, the “reconstructed natural vegetation” and the vegetation developing during succession, (c) the lack of a precise definition for reference terms to construct potential natural vegetation (e.g. treating reversible vs. irreversible changes of vegetation). For a sensible application of the concept it is suggested (a) to construct the potential natural vegetation on the basis of natural site conditions as well as permanently effective site changes as a consequence of human impact, (b) to consider the PNV to be in balance with all site conditions taken as basis for its construction. In practice, however, the construction basis may also derive from a particular question underlying the making of a PNV-map. A suggestion for a re-definition of the term “potential natural vegetation” as well as a key for PNV-mapping (valid for landscapes of Northern Germany) are given.     

Identification of rays through DNA barcoding: an application for ecologists

DNA barcoding potentially offers scientists who are not expert taxonomists a powerful tool to support the accuracy of field studies involving taxa that are diverse and difficult to identify. The taxonomy of rays has received reasonable attention in Australia, although the fauna in remote locations such as Ningaloo Reef, Western Australia is poorly studied and the identification of some species in the field is problematic. Here, we report an application of DNA-barcoding to the identification of 16 species (from 10 genera) of tropical rays as part of an ecological study. Analysis of the dataset combined across all samples grouped sequences into clearly defined operational taxonomic units, with two conspicuous exceptions: the Neotrygon kuhlii species complex and the Aetobatus species complex. In the field, the group that presented the most difficulties for identification was the spotted whiptail rays, referred to as the 'uarnak' complex. Two sets of problems limited the successful application of DNA barcoding: (1) the presence of cryptic species, species complexes with unresolved taxonomic status and intra-specific geographical variation, and (2) insufficient numbers of entries in online databases that have been verified taxonomically, and the presence of lodged sequences in databases with inconsistent names. Nevertheless, we demonstrate the potential of the DNA barcoding approach to confirm field identifications and to highlight species complexes where taxonomic uncertainty might confound ecological data.     

Family Dinner and Adolescent Overweight

Objective: The purpose of this study was to examine both cross‐sectional and longitudinal associations between frequency of family dinner and overweight status in a large sample of 9‐ to 14‐year‐old children. Research Methods and Procedures: We studied a cohort of 7784 girls and 6647 boys, 9 to 14 years of age at baseline in 1996, participating in the Growing Up Today Study. From annual mailed surveys, we calculated BMI from self‐reported height and weight and assessed frequency of family dinner over the previous year. We defined “overweight” as age‐ and sex‐specific BMI >85th percentile. We performed multiple logistic regression analyses; the longitudinal analyses assessed the association of previous year family dinner consumption with 1‐year incidence of becoming overweight, using prospective data from 1996 through 1999. Results: At baseline in 1996, 16% of participants had family dinner “never or some days,” 40% on “most days,” and 44% “every day.” Across these categories, overweight prevalence for girls was 19.4%, 16.6%, and 16.7% and for boys was 24.6%, 23.3%, and 22.7%, respectively. In cross‐sectional analyses, adjusting for potential confounders, the odds of being overweight was 0.85 [95% confidence interval (CI): 0.76, 0.96] among children who ate family dinner on “most days” or “every day” compared with those who ate family dinner “never or some days.” In longitudinal multivariate models, the odds ratios between previous year frequency of eating family dinner and 1‐year incidence of becoming overweight were 0.95 (95% CI: 0.78, 1.16) and 1.04 (95% CI: 0.85, 1.27) for children who ate family dinner on “most days” and “every day,” respectively, compared with those who ate family dinner “never or some days.” Discussion: The frequency of eating family dinner was inversely associated with overweight prevalence at baseline but not with likelihood of becoming overweight in longitudinal analyses.     

Bias in vegetation databases? A comparison of stratified‐random and preferential sampling

Aim: Vegetation plots collected since the early 20th century and stored in large vegetation databases are an important source of ecological information. These databases are used for analyses of vegetation diversity and estimation of vegetation parameters, however such analyses can be biased due to preferential sampling of the original data. In contrast, modern vegetation survey increasingly uses stratified‐random instead of preferential sampling. To explore how these two sampling schemes affect vegetation analyses, we compare parameters of vegetation diversity based on preferentially sampled plots from a large vegetation database with those based on stratified‐random sampling. Location: Moravian Karst and Silesia, Czech Republic. Methods: We compared two parallel analyses of forest vegetation, one based on preferentially sampled plots taken from a national vegetation database and the other on plots sampled in the field according to a stratified‐random design. We repeated this comparison for two different regions in the Czech Republic. We focussed on vegetation properties commonly analysed using data from large vegetation databases, including alpha (within‐plot) diversity, cover and participation of different species groups, such as endangered and alien species within plots, total species richness of data sets, beta diversity and ordination patterns. Results: The preferentially sampled data sets obtained from the database contained more endangered species and had higher beta diversity, whereas estimates of alpha diversity and representation of alien species were not consistently different between preferentially and stratified‐randomly sampled data sets. In ordinations, plots from the preferential samples tended to be more common at margins of plot scatters. Conclusions: Vegetation data stored in large databases are influenced by researcher subjectivity in plot positioning, but we demonstrated that not all of their properties necessarily differ from data sets obtained by stratified‐random sampling. This indicates the value of vegetation databases for use in biodiversity studies; however, some analyses based on these databases are clearly biased and their results must be interpreted with caution.     

What's History Got to Do with It? A Response to Seddon's Definition of Reintroduction

A recent article in Restoration Ecology by Philip Seddon aims at unraveling the definitions of various types of species translocations—from reintroductions to assisted colonization—and points out the slippery slope of misused words. I argue here that defining reintroduction is not as straightforward as Seddon presents it. Commonly used definitions of what constitutes a reintroduction all include some reference to “historical” conditions, but what exactly that encompasses is left open. I examine two parts of the reintroduction confusion: first, how the guidance documents and laws define reintroduction and second, how these definitions might be interpreted when reintroductions are presented in public forums. Rather than moving away from reintroductions toward interventions of other names, I encourage scientists to use a broad definition of reintroduction presented by the IUCN to open up reintroduction as a viable label for bringing a species back to an area regardless of when it was previously there or why it became extinct.     

Exploring the potential of nuclear and mitochondrial sequencing data generated through genome‐skimming for plant phylogenetics: A case study from a clade of neotropical lianas

Few botanical studies have explored the potential of nuclear ribosomal DNA (nrDNA) and mitochondrial DNA (mtDNA) data obtained through genome skimming for phylogeny reconstruction. Here, we analyzed the phylogenetic information included in the nrDNA and mtDNA of 44 species of the “Adenocalymma‐Neojobertia” clade (Bignoniaceae). To deal with intraindividual polymorphisms within the nrDNA, different coding schemes were explored through the analyses of four datasets: (i) “nrDNA contig,” with base call following the majority rule; (ii) “nrDNA ambiguous,” with ambiguous base calls; (iii) “nrDNA informative,” with ambiguities converted to multistate characters; and, (iv) “mitochondrial,” with 39 mitochondrial genes. Combined analyses using the nrDNA and mtDNA data and previously published “plastid” datasets were also conducted. Trees were obtained using Maximum Likelihood and Bayesian criteria. The congruence among genomes was assessed. The nrDNA datasets were shown to be highly polymorphic within individuals, while the “mitochondrial” dataset was the least informative, with 0.36% of informative bases within the ingroup. The topologies inferred using the nrDNA and mtDNA datasets were broadly congruent with the tree derived from the analyses of the “plastid” dataset. The topological differences recovered were generally poorly supported. The topology that resulted from the analyses of the “combined” dataset largely resembles the “plastid” tree. These results highlight limitations of nuclear ribosomal DNA and mitochondrial genes for phylogeny reconstruction obtained through genome skimming and the need to include more data from both genomes. The different topologies observed among genomes also highlight the importance of exploring data from various genomes in plant phylogenetics.     

Spectral response characteristics and identification of typical plant species in Ebinur lake wetland national nature reserve (ELWNNR) under a water and salinity gradient

The spectral characteristics of variable selection are particularly important for wetland vegetation mapping. In the present study, we combined soil salt and water content with spectral data collected in the Ebinur Lake Wetland National Nature Reserve (ELWNNR) in Western China to understand the effects of soil salt and water content on plant spectra. The results showed the following: (1) the distribution of plants reflect the macroscopic response characteristics of plants on water and salt environment; (2) a certain response rule exists between the spectra of different plants under a water and salt gradient, e.g., with increase in water and salt gradient, the spectral reflectivity of salt-dilution plant decreases, and salt-exclusion plant increases; (3) a response pattern is formed between the “trilateral” characteristics of plant spectrum and water salt gradient. With the increase of salinity gradient, the “red edge”, “blue edge”, and “yellow edge” shows the most obvious changes in the 0.8 order derivatives, e.g., when the soil salt content was range from 4.2 to 8.8 g/kg, the spectral characteristics of the plants were the most obvious; (4) Fisher linear discriminant analysis found that during fractional order to integer promotion, classification accuracy of the 0.8 order derivative was higher than the integer order derivatives. Therefore, the “trilateral” characteristics of plants spectra in the 0.8 order derivatives were more accurate than the first derivative. The 0.8 order derivative was more advantageous to distinguishing plants, with a classification accuracy of 89.37%, indicating the potential of 0.8-order derivative for hyperspectral remote sensing of plants. This study introduced a fractional order derivative to hyperspectral remote sensing for the quantitative analysis of differences in the vegetation spectrum, provided new insights to the research and application of vegetation remote sensing.     

Aspects of the Phænogamic Vegetation of Rodriguez,with Descriptions of new Plants from the Island.

As regards the history of its flora, the island of Rodriguez bears a striking resemblance to St. Helena. We read of the latter island that fire, goats, and finally introduced foreign plants well nigh exterminated the indigenous flora; and the same causes have operated and, I regret to say, are still operating in Rodriguez. The result is that the primitive vegetation has been in great part destroyed, leaving the island a field for the rank and rapid growth of common tropical weeds. The old and luxuriant vegetation of two hundred years ago—thus quaintly described by Leguat*, “We could hardly take our eyes off from the little mountains of which the island entirely consists; they are so richly spread with great and tall trees,” and, again, “‘Tis as I have hinted, composed of lovely hills covered all with fine trees whose perpetual verdure is entirely charming”—has now, to a large extent, disappeared, and is represented by only a few species, many of which are confined to the more unfrequented and less accessible places. It is indeed difficult to recognize in the barren and arid Rodriguez of the present day the “little Eden,”“lovely isle,”“earthly paradise” of Leguat. The flora, as it now exists, is an exceedingly fragmentary one; it is therefore a matter of some difficulty to determine its exact limits and to draw conclusions as to its affinities with the floras of other oceanic islands and of adjacent continents. This is the more to be regretted, as, from the geographical position of the island and the physical condition of climate to which it is subject, its flora might be expected, whether taken singly or as part of that of the Mascarene group, to contribute very important data towards the solution of the problem of the distribution of plant‐life in that region. The following general statements may, however, be made:—     

Classification of vegetation: Past,present and future

Abstract. This paper is a report on the past, status-quo and perspectives of vegetation classification, still a major occupation of many vegetation scientists. The history of vegetation classification is discussed against a background of several controversial issues such as the problem of continuum vs. discontinuum, naturalness vs. arbitrariness of the nature of plant communities, universality vs. ad hoc character of syntaxonomic schemes, as well as classical versus numerical approaches to data analysis for classification purposes. The development of the methodology of vegetation science and the present image of vegetation classification is documented by a bibliometric analysis of the publication record of four majorjournals: Journal of Vegetation Science, Vegetatio, Phytocoenologia and Tuexenia. This analysis revealed a persisting controversy between traditional and numerical approaches to vegetation classification. A series of important changes in vegetation science (foundation of new journals, change of editorial policy by the established, important meetings) punctuate a period called the ‘Innovation period’. Several trends in the development of methods of vegetation systematics are summarized under the headings formalism, pluralism, functionalism, pragmatism and indeterminism. Some new features, such as the development and improvement of numerical tools, use of large data banks and attempts to summarize the theory of vegetation classification are discussed. The new growth-form system of Barkman initiated a revival of physiognomy-based vegetation classification. Within this framework the use of the character-type concept and the development of new numerical methods for studying the hierarchical structure of character-set types seems to be a promising approach. The achievements of population biology and ecophysiology have affected vegetation science by emphasizing the functionality of species within plant communities. The use of guilds and other functional groups has experienced an increasing interest from vegetation scientists. Applied in vegetation science, fuzzy-set theory has bridged the techniques of classification and ordination of plant communities.     

The rhetoric of Islamophobia: an analysis of the means of persuasion in Hege Storhaug’s writings on Islam and Muslims

Few actors have had a greater impact on the “framing of Muslims” as a social and political “problem” in Norway since 2001 than Hege Storhaug of the government- and corporate billionaire funded civil society organization Human Rights Service (HRS). Using the methodological tools of the “rhetorical branch” of Critical Discourse Analysis (CDA), and applying the Aristotelian concepts of ethos, logos and pathos, we analyze the bestselling popular title on Islam and Muslims ever published in Norway, namely Storhaug’s self-published 2015 title “Islam – The Eleventh Plague”. We argue that Storhaug’s popular success must be understood in light of her rhetorical appeals to femonationalism, the critique of religion and “Enlightenment” values. We show how she in her writings incites fear of the Muslim “Other” through specific rhetorical devices and a positioning of herself as a defender of the “nation” and the “people” – against national and international “elites”.     

“Solution-Focused Risk Assessment”: A Proposal for the Fusion of Environmental Analysis and Action

For 30 years, more attention and resources have been expended on dissecting problems (risk assessment) than on evaluating actual solutions that reduce risks. The basic dogma holds that risk assessment must precede risk management. But there is an opposite and perhaps better way: the opening question should not be “How bad is the problem?” but “How good are the solutions we might apply to the problem?” Rethinking risk assessment in this context offers three classes of benefits over the status quo. First, it can help break the endless cycle of analysis: when the goal is to know enough to decide, rather than to know everything, natural stopping points emerge. Second, it can lead to more decisions that actually achieve risk reduction, rather than pronouncements about how much risk reduction would be optimal. Third, it can highlight ways to resolve multiple risks simultaneously, avoid needless and tragic risk-risk tradeoffs, and involve affected stakeholders in debating what should be done. Arguably, the longer the disembodied analysis of risk information is allowed to proceed, the more likely it is that the “problem” will be defined in a way that blunts the free-wheeling discussion of solutions, to the detriment of human health, the environment, and the economy.     

In and out: Effects of shoot- vs. rooted-presence sampling methods on plant diversity measures in mountain grasslands

Plant diversity measures (e.g., alpha- and beta-diversity) provide the basis for a number of ecological indication and monitoring methods. These measures are based on species counts in sampling units (plots or quadrats). However, there are two alternative conventions for defining a vascular plant species as “present” in a plot, i.e. “shoot presence” (a species is recorded if the vertical projection of any above-ground part falls within the plot) and “rooted presence” (a species is recorded only when an individual is rooted inside the plot). Very few studies addressed the effects of the two sampling conventions on species richness and diversity indices. We sampled mountain dry grasslands in Italy across different plot sizes and vegetation types to assess how large is the difference in alpha- and beta-diversity values and in sample-based rarefaction curves between the two methods. We found that the difference is greatly dependent on plot size, being more relevant, both in absolute and percentage values, at smaller grain; it is also dependent on habitat type, being larger in shallow-soil communities, as they have a sparser vegetation structure and host life-form types with a larger lateral spread. At fine spatial scales (<1 m²) the difference is large enough to bias statistical inference, and we conclude that at such scales one should not attempt to compare plant diversity indices if they were not obtained with the same sampling convention.     

Aphyly: identifying the flotsam and jetsam of systematics

Many taxon names in any classification will be composed of taxa that have yet to be demonstrated as monophyletic, that is, characterized by synapomorphies. Such taxa might be called aphyletic, the flotsam and jetsam in systematics, simply meaning they require taxonomic revision. The term aphyly is, however, the same as, if not identical to, Hennig's “Restkörper” and Bernardi's merophyly. None of these terms gained common usage. We outline Hennig's use of “Restkörper” and Bernardi's use of merophyly and compare it to aphyly. In our view, application of aphyly would avoid the oft made assumption that when a monophyletic group is discovered from within an already known and named taxon, then the species left behind are rendered paraphyletic. By identifying the flotsam and jetsam in systematics, we can focus on taxa in need of attention and avoid making phylogenetic faux pas with respect to their phylogenetic status.     

Camels Out of Place and Time: The Dromedary (Camelus dromedarius) in Australia

The deserts of the Australian outback are ideal territories for dromedary camels, Camelus dromedarius. Dromedaries' flexible adaptations allow them to eat 80% of Australian plant species and they obtain much of their water through ingesting vegetation; they thrive where other species perish. In many ways, the dromedary could be said to “belong” in this harsh environment. Yet for numerous Australians, particularly ranchers, conservation managers, and increasingly local and national governments, camels are perceived as pests and unwelcome invaders. Anthropologists studying human classifications of non-human animals have suggested that those species or populations that fail to fit neatly into existing classification systems come to be considered “out of place,” particularly when they enter human domains or disturb existing perceptual boundaries of environmental order. Through exploring and analyzing academic, government, and media publications, this review proposes that today's Australian dromedaries exemplify “animals out of place” and discusses how and why they have developed this status. It is further suggested that in addition to being classified as “out of place” in Australia, the dromedary has also become “out of time,” as its classification has transformed with temporal shifts in human circumstances, cultural values, and worldviews.     

On the highest units in the system of plant communities

It is evident that some higher syntaxonomic unit above the classes is needed. The “circle of vegetation”, proposed byBraun-Blanquet is a geographical, not a synecological unit; the “formation”, recommended recently byPassarge, is based on physiognomy and therefore inconsistent with the principles of lower entities. The “division” proposed recently by Jakucs seems to be identical with the “type of vegetation”, published already 11 years ago by the present author.     

Vegetation of Southern Patagonia in the 1970s – Digitization of a gray-literature data set as a monitoring baseline in a changing world

Monitoring vegetation trends against objective baselines is fundamental to quantify the impacts of global change on plant biodiversity. Vegetation plot time series are a gold standard in vegetation monitoring, but such data are missing for many regions. Southern Patagonia is an example of a region strongly impacted by climate change but lacking time series data. Monitoring in this region could benefit from a comparison with vegetation survey data gathered between 1975 and 1979, as part of the multidisciplinary research program “Transecta botánica de la Patagonia austral” (hereafter Transecta). Published in 1985, it contains data on 668 vegetation plots, which were so far inaccessible to most researchers: Transecta has never been reprinted, nor fully digitized, and can only be found in specialized libraries. Here, we created a reproducible workflow, documenting how vegetation plot data from historical sources can be extracted and harmonized. The resulting open-access database we created fills a major regional gap and provides a needed baseline to assess the impacts of global change on southern Patagonia vegetation. By making these data available, we hope to inspire a new generation of vegetation scientists to resurvey the area and continue the legacy of the pioneer researchers who compiled Transecta.     

DarkDivNet – A global research collaboration to explore the dark diversity of plant communities

DarkDivNet is a global research collaboration which explores dark diversity — the set of species that are absent from a site despite being suitable under the site conditions and present in the region. Participants of the network survey vascular plant diversity both at local (10  m × 10 m) and regional scales (radius 10 km) using a standardized approach. They also measure simple plant traits and collect soil samples. Observed and dark diversity together form the site‐specific species pool, and the ratio of observed diversity and dark diversity describes community completeness. We shall explore how observed and dark diversity, site‐specific species pool and community completeness vary across natural and anthropogenic gradients. We link plant diversity measures to the information obtained from environmental DNA: soil biota and plant taxa that occurred at the site before. We will refine existing dark diversity methods and use large vegetation databases to infer species habitat suitability. We expand the dark diversity concept from a purely taxonomy‐based approach to include the functional and phylogenetic aspects of diversity. DarkDivNet currently includes 161 planned sampling areas globally, but new participants are welcome. The main vegetation sampling period is scheduled until September 2020, with the first research papers being produced after that.     

Fine‐scale habitat heterogeneity influences browsing damage by elephant and giraffe

Effects of large mammalian herbivores on woody vegetation tend to be heterogeneous in space and time, but the factors that drive such heterogeneity are poorly understood. We examined the influence of fine‐scale habitat heterogeneity on the distribution and browsing effects of two of the largest African terrestrial mammals, the elephant and giraffe. We conducted this study within a 120‐ha (500 x 2,400 m) ForestGEO long‐term vegetation monitoring plot located at Mpala Research Center, Kenya. The plot traverses three distinct topographic habitats (“plateau,” “steep slopes,” and “valley”) with contrasting elevation, slope, soil properties, and vegetation composition. To quantify browsing damage, we focused on Acacia mellifera, a palatable tree species that occurs across the three habitat categories. Overall tree density, species richness, and diversity were highest on the steep slopes and lowest on the plateau. Acacia mellifera trees were tallest and had the lowest number of stems per tree on the steep slopes. Both elephant and giraffe avoided the steep slopes, and their activity was higher during the wet season than during the dry season. Browsing damage on Acacia mellifera was lowest on the steep slopes. Elephant browsing damage was highest in the valley, whereas giraffe browsing damage was highest on the plateau. Our findings suggest that fine‐scale habitat heterogeneity is an important factor in predicting the distribution of large herbivores and their effects on vegetation and may interact with other drivers such as edaphic variations to influence local variation in vegetation structure and composition.