Neanderthal medics? Evidence for food, cooking, and medicinal plants entrapped in dental calculus

Neanderthals disappeared sometime between 30,000 and 24,000?years ago. Until recently, Neanderthals were understood to have been predominantly meat-eaters; however, a growing body of evidence suggests their diet also included plants. We present the results of a study, in which sequential thermal desorption-gas chromatography-mass spectrometry (TD-GC-MS) and pyrolysis-gas chromatography-mass spectrometry (Py-GC-MS) were combined with morphological analysis of plant microfossils, to identify material entrapped in dental calculus from five Neanderthal individuals from the north Spanish site of El Sidrón. Our results provide the first molecular evidence for inhalation of wood-fire smoke and bitumen or oil shale and ingestion of a range of cooked plant foods. We also offer the first evidence for the use of medicinal plants by a Neanderthal individual. The varied use of plants that we have identified suggests that the Neanderthal occupants of El Sidrón had a sophisticated knowledge of their natural surroundings which included the ability to select and use certain plants.     

Prenatal diagnosis of a fetus with terminal deletion of chromosome 1 (q41)

Many authors have suggested that individuals affected by a terminal 1q deletion display a phenotypically definable and recognizable syndrome. In all of the 27 cases reported to date, the breakpoints were at band q42 or distally to it. To our knowledge, we report the first case of a terminal 1q41 deletion. Diagnosis was made prenatally by amniocentesis, following ultrasonographic diagnosis of omphalocele, cerebral ventriculomegaly, and increased nuchal fold thickness in a 19-week female fetus. Multiple facial and extremity features were consistent with the proposed distal 1q deletion syndrome; omphalocele, however, has not been reported previously. The absence of liver herniation into the omphalocele sac in this case supports the previously reported association of this finding with chromosomal anomalies.     

Resolution of DNA linkage discrepancies through analysis of a VNTR locus in a family study of cystic fibrosis

First-trimester prenatal diagnosis of a fetus at 25 per cent risk for cystic fibrosis (CF) was performed by indirect linkage analysis of polymorphic markers using Southern blotting and polymerase chain reaction (PCR) amplification. The results revealed discrepancies in the allelic patterns between the father and the affected child, thereby complicating the prediction of fetal outcome. Analysis of a highly polymorphic VNTR locus within the human retinoblas-toma (RB) gene on chromosome 13 showed that the affected child and the fetus did not have the same biological father, and therefore the affected child could not be used to determine linkage of markers in the father of the fetus. The analysis of VNTR loci can be an effective method of resolving conflicting data during prenatal diagnosis of monogenic diseases.     

A new neosuchian with Asian affinities from the Jurassic of northeastern Brazil

Phylogenetic relationships near the origin of extant crocodylians are weakly supported, and this lack of resolution makes for poor estimates of taxonomic and morphological diversity. Previously known taxa are found throughout the Cretaceous in Laurasia and at a few sites from Brazil, Australia, and northern Africa. Here, we report Batrachomimus pastosbonensis gen. et sp. nov. from the Late Jurassic of northeastern Brazil, which is deeply nested within Neosuchia and associated to the Cretaceous Asian paralligatorids. The new taxon predates all other members of Paralligatoridae and its immediate sister group (including Eusuchia) by 30 million years. A nearly complete skull, osteoderms, and limb bones were recovered, and autapomorphies of B. pastosbonensis include a scalloped lateral margin of the rostrum in dorsal view, unsculpted alveolar margin at the caudalmost portion of the maxilla, blunt lateral prongs on the jugal at the base of the postorbital bar, hourglass shaped choanae, and pterygoid choanal septum extended between the palatal shelves of the palatines. The crocodyloid-like skull proportions and the slender, conical teeth suggest an amphibious and piscivorous life history to this 1 m long animal.

     

Manganese in the urban atmosphere: identifying anomalous concentrations and sources

Purpose  

Industrial emissions can raise urban background levels of inhalable Mn particles in an order of magnitude above normal, eclipsing the contribution made by natural sources and traffic.     

Evaluation of geomorphic changes and retreat rates of a coastal pyroclastic cliff in the Campi Flegrei volcanic district,southern Italy

Geomorphic evolution of sea cliffs has significant impact on coastal settlements worldwide, so that evaluation of cliff instability processes, failure factors, and retreat rates involves a growing number of scientists for coastal risk and management purposes. Aerial photogrammetry and lidar are among the most used techniques for topographic characterization and geomorphic monitoring of coastal environments. A crucial role in the combined use of such techniques is the evaluation of different spatial accuracy and co-registration between derived terrain models, so that a robust error analysis is required. In this study, we present a change detection analysis of the Torrefumo coastal cliff, in the Campi Flegrei volcanic area (Southern Italy). Aerial images taken in 1956 and 1974, processed through digital photogrammetry, and an airborne lidar point cloud acquired in 2008 were used to produce Digital Elevation Models of the cliff. The analysis was based on the multi-temporal comparison of these models and included the calculation of volumetric changes and average retreat rates of the cliff face with reference to the 1956–1974 and 1974–2008 time intervals. The spatially variable elevation uncertainty of each Digital Elevation Model was evaluated with a probabilistic approach based on the fuzzy set theory. The results of this study showed significant eroded volumes during the period 1956–1974 and relatively smaller volumes in the 1974–2008 time span, with mean annual retreat rates of 1.2 m/year and 0.17 m/year, respectively. We infer that the significant decrease of erosion characterizing the second period was induced by the sheltering effect at the base of the cliff produced by the construction of a seawall in the early 80’s.     

Translating habitat class to land cover to map area of habitat of terrestrial vertebrates

Area of habitat (AOH) is defined as the “habitat available to a species, that is, habitat within its range” and is calculated by subtracting areas of unsuitable land cover and elevation from the range. The International Union for the Conservation of Nature (IUCN) Habitats Classification Scheme provides information on species habitat associations, and typically unvalidated expert opinion is used to match habitat to land-cover classes, which generates a source of uncertainty in AOH maps. We developed a data-driven method to translate IUCN habitat classes to land cover based on point locality data for 6986 species of terrestrial mammals, birds, amphibians, and reptiles. We extracted the land-cover class at each point locality and matched it to the IUCN habitat class or classes assigned to each species occurring there. Then, we modeled each land-cover class as a function of IUCN habitat with (SSG, using) logistic regression models. The resulting odds ratios were used to assess the strength of the association between each habitat and land-cover class. We then compared the performance of our data-driven model with those from a published translation table based on expert knowledge. We calculated the association between habitat classes and land-cover classes as a continuous variable, but to map AOH as binary presence or absence, it was necessary to apply a threshold of association. This threshold can be chosen by the user according to the required balance between omission and commission errors. Some habitats (e.g., forest and desert) were assigned to land-cover classes with more confidence than others (e.g., wetlands and artificial). The data-driven translation model and expert knowledge performed equally well, but the model provided greater standardization, objectivity, and repeatability. Furthermore, our approach allowed greater flexibility in the use of the results and uncertainty to be quantified. Our model can be modified for regional examinations and different taxonomic groups.     

A permutation-based combination of sign tests for assessing habitat selection

The analysis of habitat selection in radio-tagged animals is approached by comparing the portions of use against the portions of availability observed for each habitat type. Since data are linearly dependent with singular variance-covariance matrices, standard multivariate statistical tests cannot be applied. To bypass the problem, compositional data analysis is customarily performed via log-ratio transform of sample observations. The procedure is criticized in this paper, emphasizing the several drawbacks which may arise from the use of compositional analysis. An alternative nonparametric solution is proposed in the framework of multiple testing. The habitat use is assessed separately for each habitat type by means of the sign test performed on the original observations. The resulting p values are combined in an overall test statistic whose significance is determined permuting sample observations. The theoretical findings of the paper are checked by simulation studies. Applications to case studies previously considered in literature are discussed.     

Optimisation of a microbial bioassay for contaminated soil monitoring: bacterial inoculum standardisation and comparison with Microtox assay

This work represents the first step to set up a toxicity testing procedure and to evaluate the sensitivity of the test microorganism to several classes of environmental pollutants. First, three different techniques were employed to standardise the microbial inoculum, then two different toxicity assessment protocols have been compared: Microtox and a dehydrogenase (DHase) activity inhibition test. The main goal was the optimisation of a microbial bioassay based on the dehydrogenase activity (DHase) inhibition in Pseudomonas fluorescens bacterial strain ATCC 13525. Triphenyl tetrazolium chloride (TTC) was used as electron acceptor and its reduction produces Triphenyl formazane (TPF). The P. fluorescens DHase inhibition bioassay was investigated for being a reliable and rapid method for assessing toxicity. The optimisation of the operating conditions resulted in a repeatable bioassay. Then, P. fluorescens and Vibrio fischeri sensitivity were firstly compared by testing Zn++, one of the reference compounds for Microtox test. In addition, other compounds (Ni++, Cd++, Cu++, phenol) were also tested with both bioassays. A high statistical significance of data was obtained with the logistic curve. The present work has demonstrated that P. fluorescens is as sensitive as Microtox culture (V. fischeri), for some of the metal ions. With reference to organic compounds, the lower sensitivity of P. fluorescens to phenol makes its use difficult in organic polluted samples.