DNA sequence evidence for speciation,paraphyly and a Mesozoic dispersal of cancellothyridid articulate brachiopods

Because the classification of extant and fossil articulate brachiopods is based largely upon shell characters observable in fossils, it identifies morphotaxa whose biological status can, in practice, best be inferred from estimates of genetic divergence. Allozyme polymorphism and restriction fragment length polymorphism of mitochondrial DNA (mtDNA RFLP) have been used to show that nuclear and mitochondrial genetic divergence between samples of the cancellothyridid brachiopods Terebratulina septentrionalis from Canada and T. retusa from Europe is compatible with biological speciation, but the genetic distances obtained were biased by methodological limitations. Here, we report estimates of divergence in 12S rDNA mitochondrial sequences within and between samples of these brachiopods. The sequence-based genetic distance between these samples (5.98ǂ.07% SE) is at least 10 times greater than within them and, since they also differ in a complex life-history trait, their species status is considered to be securely established. Divergence levels between 12S rDNA genes of three other cancellothyridids, T. unguicula from Alaska, T. crossei from near Japan, and Cancellothyris hedleyi from near Australia are higher than between the two North Atlantic species, and the mean nucleotide distance between all these cancellothyrids is similar to the mean distance between species of Littorina (Mollusca: Gastropoda). Sequences of both 12S and 16S genes from cancellothyridids and other short-looped brachiopod species show neither saturation nor lineage-specific rate differences and, when analysed with different outgroups, either separately or together, yield one unexpected, but well-supported, tree with Alaskan T. unguicula basal and C. hedleyi nested within Terebratulina, i.e. these genera are paraphyletic. A geologically dated divergence between Antarctic and New Zealand species of the short-looped brachiopod Liothyrella is used to calibrate the rate of 12S divergence at ca. 0.1% per million years (MY), and this rate is used to infer that T. septentrionalis and T. retusa have been diverging for ca. 60 MY and that they and T. unguicula have been diverging from their last common ancestor for ca. 100 MY. This indicates a Mesozoic origin for the present-day distribution of cancellothyridids and the basal position of T. unguicula suggests a possible North Pacific centre of origin, with separate Atlantic and Pacific radiations. The inclusion of Cancellothyris within Terebratulina also shows that adult shell characters such as umbo, foramen and symphytium shape, whilst probably indispensible for the practical classification of fossils, are not reliable guides to genealogy.     

Fourth-corner correlation is a score test statistic in a log-linear trait–environment model that is useful in permutation testing

Ecologists wish to understand the role of traits of species in determining where each species occurs in the environment. For this, they wish to detect associations between species traits and environmental variables from three data tables, species count data from sites with associated environmental data and species trait data from data bases. These three tables leave a missing part, the fourth-corner. The fourth-corner correlations between quantitative traits and environmental variables, heuristically proposed 20 years ago, fill this corner. Generalized linear (mixed) models have been proposed more recently as a model-based alternative. This paper shows that the squared fourth-corner correlation times the total count is precisely the score test statistic for testing the linear-by-linear interaction in a Poisson log-linear model that also contains species and sites as main effects. For multiple traits and environmental variables, the score test statistic is proportional to the total inertia of a doubly constrained correspondence analysis. When the count data are over-dispersed compared to the Poisson or when there are other deviations from the model such as unobserved traits or environmental variables that interact with the observed ones, the score test statistic does not have the usual chi-square distribution. For these types of deviations, row- and column-based permutation methods (and their sequential combination) are proposed to control the type I error without undue loss of power (unless no deviation is present), as illustrated in a small simulation study. The issues for valid statistical testing are illustrated using the well-known Dutch Dune Meadow data set.     

Planning nature-based solutions: Principles,steps, and insights

Nature-based solutions (NBS) find increasing attention as actions to address societal challenges through harnessing ecological processes, yet knowledge gaps exist regarding approaches to landscape planning with NBS. This paper aims to provide suggestions of how planning NBS can be conceptualized and applied in practice. We develop a framework for planning NBS by merging insights from literature and a case study in the Lahn river landscape, Germany. Our framework relates to three key criteria that define NBS, and consists of six steps of planning: Co-define setting, Understand challenges, Create visions and scenarios, Assess potential impacts, Develop solution strategies, and Realize and monitor. Its implementation is guided by five principles, namely Place-specificity, Evidence base, Integration, Equity, and Transdisciplinarity. Drawing on the empirical insights from the case study, we suggest suitable methods and a checklist of supportive procedures for applying the framework in practice. Taken together, our framework can facilitate planning NBS and provides further steps towards mainstreaming.Electronic supplementary materialThe online version of this article (10.1007/s13280-020-01365-1) contains supplementary material, which is available to authorized users.     

Pollution in coastal fog at Alto Patache,Northern Chile

Background  

The Atacama Desert in Northern Chile is one of the most arid places on earth. However, fog occurs regularly at the coastal mountain range and can be collected at different sites in Chile to supply settlements at the coast with freshwater. This is also planned in the fog oasis Alto Patache (20°49′S, 70°09′W). For this pilot study, we collected fog water samples in July and August 2008 for chemical analysis to find indications for its suitability for domestic use.     

The copper level dependence in vegetable crops at pesticide treatment

Abstract

Pesticides containing copper are used on wide range in vegetable production, especially in the open field. Copper has an excellent fungicidal effect against diseases of tomato, pepper, onion and in practical use it is essential as bactericide in the above mentioned crops.

The fungicides containing copper are freely available on the market, they are not expensive and widely used without any special knowledge. They are popular in simple home gardens as well as in hi‐tech vegetable production and are used even in all forms of “bio”; culture.

From the other side, copper can be toxic. The allowable level is 10 mg Cu/kg product. This concentration may be found after the first treatment and it increases after every further application.

In our experiments the copper absorbancy and accumulation has been investigated at different pesticide doses and under different experimental conditions.

The analytical measurements, the sample preparation, the instrument calibration have been made by the Inductively Coupled Plasma Spectrometer at the Department of Chemistry of the University of Horticulture and Food Industry.     

Principal response curves technique for the analysis of multivariate biomonitoring time series

Although chemical and biological monitoring is often used to evaluate the quality of surface waters for regulatory purposes and/or to evaluate environmental status and trends, the resulting biological and chemical data sets are large and difficult to evaluate. Multivariate techniques have long been used to analyse complex data sets. This paper discusses the methods currently in use and introduces the principal response curves method, which overcomes the problem of cluttered graphical results representation that is a great drawback of most conventional methods. To illustrate this, two example data sets are analysed using two ordination techniques, principal component analysis and principal response curves. Whereas PCA results in a difficult-to-interpret diagram, principal response curves related methods are able to show changes in community composition in a diagram that is easy to read. The principal response curves method is used to show trends over time with an internal reference (overall mean or reference year) or external reference (e.g. preferred water quality or reference site). Advantages and disadvantages of both methods are discussed and illustrated.     

Quantifying summed fullerene nC60 and related transformation products in water using LC LTQ Orbitrap MS and application to environmental samples

The application of engineered nanomaterials increases strongly. Development of analytical techniques and their application to environmental samples is essential for human and environmental risk assessment of the nanoparticles. The objective of this study was to develop a sensitive analytical method to quantify nC(60) in water, using accurate mass screening liquid chromatography-hybrid linear ion trap Orbitrap mass spectrometry. nC(60) can be transformed by oxidation, reduction and photochemical reaction. Therefore, the formation of some transformation products of nC(60) was studied as well. Finally, the developed analytical method was applied to surface water samples from several locations in the Netherlands. The developed method enabled to detect and quantify aqueous concentrations of the summed nC(60) and its transformation products as low as 5 ng/L. It was observed that nC(60) transformation products exceed quantities of the parent C(60). Despite the high sensitivity of the developed method, no nC(60) or transformation products were detected in an array of Dutch surface waters. This might be due to low emissions, losses in the aqueous phase by sedimentation, sorption or further transformation processes.     

Hematology and Some Biochemical Parameters of Wild Rodents in Pistachio Gardens of Kerman Province, Southeast Iran

Wild rodents were collected using live snap traps in pistachio gardens of Kerman Province, Southeast Iran from 2007 to 2009, then some physiological parameters of them were measured. The samples were identified as follow: Nesokia indica, Meriones persicus, Meriones lybicus and Tatera indica. Blood samples were obtained from the heart, then the blood parameters (glucose, cholesterol, triglyceride, total protein, HDL, red and white blood cell number) in wild species of rodents and laboratory rat were compared. The results showed that there were no significant differences in serum glucose, triglyceride, HDL and total protein levels among different experimental groups. The concentration of cholesterol in T. indica was more than that in N. indica (P < 0.01). The total numbers of red blood cells also showed significant difference between wild garden rodent species and laboratory rat (P < 0.01), while the numbers of white blood cells showed no significant difference.