Higher taxonomic descriptors for vegetation classification

A model of direct and diffuse solar radiation on slopes of varying angle and aspect suggests that radiation differences within hilly terrain are maximized in the beginning of the dry season in the monsoon tropics. The differences between north and south facing slopes are greater than those found during the summer in the temperate zone. Within a study area near Mt. Bundey, Northern Territory, floristic and structural vegetational variability is closely related to June radiation as estimated by the model. However, the distribution patterns of monsoon thicket and eucalypt forest relate more to relative five protection than to the effects of incident radiation on temporal patterns of moisture availability. Within both major formations, site rockiness is an important influence on vegetation floristics and structure, both for five protection and through its influence on moisture availability.     

The reality of the higher taxonomic categories

A higher category is the result of a population's breaking-throuh into a new adaptive zone (attaining a new grade), and the subsequent adaptive radiation tiere. The taxonomic level of the new group is determined by the amount (quantitative and ualitative) of radiation that occurs; and tgis amount in turn is determined by the number of open sub-zones in the new zone and by the genetic plasticity of the new population. The more the new adaptive zone differs from the old one, the less likely a new population can survive in it. Should such survival occur, however, adaptations of the new population to the new zone will appear quickly. The new population will rapidly become quite different from the old one, minimizing the likelihood of finding intermediate forms, i. e., “missing links.” In addition, the intermediate population – the early entrants into the new zone – will be less well adapted to it than their descendents, and will become extinct. The combination of rapid extinction and an ephemeral transitional population explains the apparent gaps between higher-category taxa. These ideas do not help in solving such dilemmas of taxonomists as equivalence of taxa in different groups, and the taxonomic level at which to place a given group of species. But a higher taxonomic category itself is the result of a very real biological phenomenon, and that fact must influence systematicists.     

On the use of grammars in vegetation analysis

Grammars provide a means of generating large amounts of variability from relatively small resources, and seem especially relevant when the variation to be modelled is discontinuous since they describe the organisation symbols from some alphabet. In order to use grammars, it is desirable that they be inferred from observational data, and we present three examples of such inference. Two involve temporal successions, while the third is based on spatial transects of aquatic vegetation in wetlands in Victoria, Australia. The temporal successions were adequately represented by simpler regular grammars, suggesting that the processes involved may be modelled in a relatively simple manner. The spatial data requires a context-free grammar, reflecting the greater complexity of the spatial series, the uniqueness of each site, and the difficulties of modelling parallel systems with serial models. Examining the grammars further leads to some suggestions concerning the features of them which are important for ecological interpretation. It further leads to a novel view of the nature of groups in classification.     

The anArchive taxonomic Checklist for Italian botanical data banking and vegetation analysis: Theoretical basis and advantages

In recent years, research in botany was increasingly related with the use of large data-sets and data banks, in order to address emerging issues such as the severe risk of species, habitats and biodiversity loss. In this frame, the anArchive taxonomic Checklist, an online synonymized list of botanical species names, developed to support the botanical data banking and vegetation analysis, is presented and discussed here. The benefits deriving from such a supervised and referenced tool are emphasized. They include the possibility to keep track of old and new species names, pointing out the latest reviewed accepted scientific name and its synonyms, and harmonizing different taxonomic points of view. Furthermore, the list is open access and expert qualified customers can collaborate to its improvement. The basic unit of the taxonomic Checklist is an object including the taxon name at specific or, when present, infraspecific level; the taxonomic frame stops at the level of family and ranks higher than genus are not treated hierarchically. Some technical features, the main taxonomic references and the current state of the art are reported.     

Quantifying the effects of nutrient addition on the taxonomic distinctness of serpentine vegetation

Traditional diversity indices summarize the information about the relative abundances of species within a community without regard to differences between species. However, intuitively, a community composed of dissimilar taxa is more diverse than a community composed of more similar taxa. Therefore, useful indices of diversity should account for taxonomic relations among species. In this paper, a new parametric diversity index that combines species relative abundances and their taxonomic distinctiveness is used to quantify the way in which soil fertilization affects the diversity of a garigue community on ultramafic soils of Tuscany (central Italy). Results show that, while ultramafic soils generally host plant communities of limited taxonomic diversity with respect to similar communities on other substrates, fertilization significantly enhances the biomass production of species that are not exclusive to ultramafic soils. As a consequence, if diversity is measured combining species relative abundances with their taxonomic distinctiveness, nutrient addition tends to increase the diversity of ultramafic communities.     

Validation of models for analysis of ranks in horse breeding evaluation

Background

Ranks have been used as phenotypes in the genetic evaluation of horses for a long time through the use of earnings, normal score or raw ranks. A model, ("underlying model" of an unobservable underlying variable responsible for ranks) exists. Recently, a full Bayesian analysis using this model was developed. In addition, in reality, competitions are structured into categories according to the technical level of difficulty linked to the technical ability of horses (horses considered to be the "best" meet their peers). The aim of this article was to validate the underlying model through simulations and to propose a more appropriate model with a mixture distribution of horses in the case of a structured competition. The simulations involved 1000 horses with 10 to 50 performances per horse and 4 to 20 horses per event with unstructured and structured competitions.

Results

The underlying model responsible for ranks performed well with unstructured competitions by drawing liabilities in the Gibbs sampler according to the following rule: the liability of each horse must be drawn in the interval formed by the liabilities of horses ranked before and after the particular horse. The estimated repeatability was the simulated one (0.25) and regression between estimated competing ability of horses and true ability was close to 1. Underestimations of repeatability (0.07 to 0.22) were obtained with other traditional criteria (normal score or raw ranks), but in the case of a structured competition, repeatability was underestimated (0.18 to 0.22). Our results show that the effect of an event, or category of event, is irrelevant in such a situation because ranks are independent of such an effect. The proposed mixture model pools horses according to their participation in different categories of competition during the period observed. This last model gave better results (repeatability 0.25), in particular, it provided an improved estimation of average values of competing ability of the horses in the different categories of events.

Conclusions

The underlying model was validated. A correct drawing of liabilities for the Gibbs sampler was provided. For a structured competition, the mixture model with a group effect assigned to horses gave the best results.     

On the taxonomic position of Tomentypnum Loeske

Abstract

Evidence is presented for removing Tomentypnum from the usual position near Homalotheeium in the Brachytheciaceae and placing it near Drepanoeladus vernieosus and D. lapponieus in the Amblystegiaceae.     

Towards the analysis of vegetation succession

Attention is drawn to canonical analysis as a plausible model for analyzing vegetation succession. An assessment of the opportunities afforded by canonical analysis for this purpose is then made by reference to two applications of the method. The applications deal with characteristics of hydroseral processes and with the dynamic status of an area of lowland tropical rain forest. On the basis of these and other studies the conclusion is drawn that canonical analysis could contribute usefully in efforts to place the study of dynamic ecosystem processes on a more analytic footing.This work was supported by a Natural Sciences and Engineering Research Council award to L. Orlóci. It is a pleasure to acknowledge my indebtedness both to Dr. Orlóci for his support and encouragement and to the Department of Plant Sciences at the University of Western Ontario for hospitality and help. Appreciation is expressed also to Dr. John Ogden, Research School of Pacific Studies, The Australian National University, Canberra for kindly placing his rain forest data at my disposal and for his invaluable help in interpreting the results of analyses of these data.     

On the compatibility of binary qualitative taxonomic characters

In this note we prove that an entire collection of binary qualitative taxonomic characters is compatible if each character in the collection is compatible with every other character. An apparently more general definition of compatibility is presented and shown to be equivalent to the old one.     

A Thurstonian model for quantitative genetic analysis of ranks: a Bayesian approach

A fully Bayesian method for quantitative genetic analysis of data consisting of ranks of, e.g., genotypes, scored at a series of events or experiments is presented. The model postulates a latent structure, with an underlying variable realized for each genotype or individual involved in the event. The rank observed is assumed to reflect the order of the values of the unobserved variables, i.e., the classical Thurstonian model of psychometrics. Parameters driving the Bayesian hierarchical model include effects of covariates, additive genetic effects, permanent environmental deviations, and components of variance. A Markov chain Monte Carlo implementation based on the Gibbs sampler is described, and procedures for inferring the probability of yet to be observed future rankings are outlined. Part of the model is rendered nonparametric by introducing a Dirichlet process prior for the distribution of permanent environmental effects. This can lead to potential identification of clusters of such effects, which, in some competitions such as horse races, may reflect forms of undeclared preferential treatment.     

Molecular taxonomic tools provide more accurate estimates of species richness at less cost than traditional morphology-based taxonomic practices in a vegetation survey

Vegetation surveys are conducted to obtain a catalogue of the plant species that occupy an area of interest, and are used to inform the decisions of policymakers about conservation, development, and remediation efforts. Currently, vegetation surveys rely on traditional morphology-based taxonomic practices to identify collected specimens. By implementing recent advances in molecular taxonomy, it may be possible to improve upon these methods and reduce the associated costs. In this study, we used both morphological and molecular taxonomic methods to sample 337 forest vegetation plots in northeastern Ontario, Canada. DNA barcoding—a molecular taxonomic tool—was used to identify specimens collected in the molecular taxonomic survey. The molecular taxonomic survey identified a mean of 12.4 species per plot and 202 species in total, whereas the morphological taxonomic survey identified a mean of 9.8 species per plot and 142 species in total; both surveys provided identical estimates of community similarity. The morphological taxonomic survey was 37 % more expensive than molecular taxonomic survey, owing largely to the increased time required in the field to collect specimens that flowered at different times. Our results indicate that molecular taxonomic tools are more cost-effective than traditional morphology-based taxonomic practices for species identification in vegetation surveys. Taxonomy underpins all conservation, and the implementation of molecular taxonomic tools for vegetation surveys has promise to lessen the consequences of the taxonomic impediment and increase the effectiveness of conservation efforts.     

Coastal vegetation planting projects for tsunami disaster mitigation: effectiveness evaluation of new establishments

Coastal vegetation acts as a natural barrier against extreme natural and anthropogenic activities, protecting infrastructure and human lives. Establishment of hard infrastructure for tsunami protection is not feasible in developing countries due to its cost-intensive nature. Coastal vegetation can therefore be a feasible alternative for tsunami and general coastal protection in developing countries. This study investigates the effectiveness of current coastal vegetation projects and reports a pilot-scale vegetation project, which provides insights into the management and sustainability of such projects. Thirty-seven establishments of coastal vegetation for tsunami protection were identified for the study from Hambantota to Colombo along the southern coast in Sri Lanka. Evaluation was carried out to assess whether the coastal vegetation establishments fulfilled the planning objectives, such as vegetation alignment to tsunami direction, tree density and tree species, and whether monoculture or mixed species are grown. The study also assessed continuous maintenance and awareness about coastal vegetation, community participation and long-term institutional support from government, nongovernment groups, academic institutions, and other institutions within an integrated framework. Approximately 50% of the sites were found to be effective in terms of fulfilling the above requirements and had reasonable protection against future tsunami-type events. Continuous maintenance is ensured only for 35% of sites with community participation. The survey also revealed the importance of adopting scientific and nonscientific methods of vegetation establishment and selecting appropriate species and structure of vegetation strips for tsunami protection. It is expected that this will lead to the development of coastal vegetation guidelines for local authorities.     

On the characteristics and taxonomic position of symbiotic Chlorella

Three strains of symbiotic Chlorella (NC64A, CE/76, UTEX-130) could be assigned to C. vulgaris by physiological and DNA-hybridization studies and a fourth symbiotic strain, 3N8/13-1, exhibited characteristics intermediate between C. vulgaris and C. sorokiniana. None of the strains contained detectable sporopollenin or was nutritionally fastidious but the capacity for sugar release (usually maltose) may be a characteristic of all symbiotic Chlorella.     

Searching for a model for use in vegetation analysis

Summary Indirect gradient analysis methods require an explicit vegetation model which must be based on direct gradient analysis studies. Various vegetation models are reviewed. Field evidence for the models is discussed. Experimental studies of species response to environmental gradients are reviewed and discussed. Three types of gradient are recognized as important for development of models: indirect environmental gradients where the environmental factor has no direct physiological influence on plant growth e.g. elevation; direct environmental gradients where the factor has a direct physiological effect on growth but is not an essential resource, e.g. pH; resource gradients where the factor is an essential resource for plant growth. The behaviour of the ecological carrying capacity and the role of competition along such gradients are shown to be important for developing vegetation models.