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The Strongest Meaning Hypothesis (SMH henceforth), a pragmatic principle motivated in Dalrymple et al.'s (1998) study of reciprocals, has recently been applied to problems in implicatures (Chierchia et al. to appear) and Vagueness (Cobreros et al. 2011). In this snippet, I argue that the SMH can apply to embedded sentences, which is perhaps unusual for a pragmatic principle.
This paper presents epistemological and methodological problems found in work on the subgrouping of Sino-Tibetan languages and the reconstruction of features of the languages. A key problem is the lack of an accepted standard for judging this work, one that can stand up to statistical evaluation. An alternative methodology that involves using fixed sets of features to give us the statistical probability of common origin is suggested.
The prognostic impact of epidermal growth factor receptor in patients with metastatic gastric cancer
(2012)
Background: The epidermal growth factor receptor (EGFR) is a potential target of anticancer therapy in gastric cancer. However, its prognostic role in metastatic gastric or gastroesophageal junction (GE) cancer has not been established yet.
Methods: EGFR status was analyzed by immunohistochemistry (IHC) in paraffin-embedded samples from 357 patients who received chemotherapy in 4 first-line trials. Automated RNA extraction from paraffin and RT-quantitative PCR were additionally used to evaluate EGFR mRNA expression in 130 patients.
Results: EGFR protein expression (any grade) and overexpression (3+) were observed in 43% and 11% of patients, respectively. EGFR positivity correlated with intestinal type histology (p = 0.05), but not with other clinicopathologic characteristics. Median follow-up was 18.2 months. Median overall survival (OS) was similar in patients with EGFR positive vs. those with EGFR negative tumors, regardless whether positivity was defined as ≥1+ (10.6 vs. 10.9 months, p = 0.463) or as 3+ (8.6 vs. 10.8 months, p = 0.377). The multivariate analysis indicated that EGFR status is not an independent prognostic factor (hazard ratio 0.85, 0.56 to 1.12, p = 0.247). There were also no significant differences in overall survival when patients were categorized according to median (p = 0.116) or quartile (p = 0.767) distribution of EGFR mRNA gene expression. Similar distributions of progression-free survival according to EGFR status were observed.
Conclusions: Unlike different cancer types where EGFR-positive disease is associated with an adverse prognostic value, EGFR positivity is not prognostic of patient outcome in metastatic gastric or GE cancer.
Attention-deficit/hyperactivity disorder (ADHD) is a common, highly heritable neurodevelopmental disorder. Genetic loci have not yet been identified by genome-wide association studies. Rare copy number variations (CNVs), such as chromosomal deletions or duplications, have been implicated in ADHD and other neurodevelopmental disorders. To identify rare (frequency ≤1%) CNVs that increase the risk of ADHD, we performed a whole-genome CNV analysis based on 489 young ADHD patients and 1285 adult population-based controls and identified one significantly associated CNV region. In tests for a global burden of large (>500 kb) rare CNVs, we observed a nonsignificant (P=0.271) 1.126-fold enriched rate of subjects carrying at least one such CNV in the group of ADHD cases. Locus-specific tests of association were used to assess if there were more rare CNVs in cases compared with controls. Detected CNVs, which were significantly enriched in the ADHD group, were validated by quantitative (q)PCR. Findings were replicated in an independent sample of 386 young patients with ADHD and 781 young population-based healthy controls. We identified rare CNVs within the parkinson protein 2 gene (PARK2) with a significantly higher prevalence in ADHD patients than in controls (P=2.8 × 10(-4) after empirical correction for genome-wide testing). In total, the PARK2 locus (chr 6: 162 659 756-162 767 019) harboured three deletions and nine duplications in the ADHD patients and two deletions and two duplications in the controls. By qPCR analysis, we validated 11 of the 12 CNVs in ADHD patients (P=1.2 × 10(-3) after empirical correction for genome-wide testing). In the replication sample, CNVs at the PARK2 locus were found in four additional ADHD patients and one additional control (P=4.3 × 10(-2)). Our results suggest that copy number variants at the PARK2 locus contribute to the genetic susceptibility of ADHD. Mutations and CNVs in PARK2 are known to be associated with Parkinson disease.
The metastasis-associated lung adenocarcinoma transcript 1, MALAT1, is a long non-coding RNA (lncRNA) that has been discovered as a marker for lung cancer metastasis. It is highly abundant, its expression is strongly regulated in many tumor entities including lung adenocarcinoma and hepatocellular carcinoma as well as physiological processes, and it is associated with many RNA binding proteins and highly conserved throughout evolution. The nuclear transcript MALAT-1 has been functionally associated with gene regulation and alternative splicing and its regulation has been shown to impact proliferation, apoptosis, migration and invasion.
Here, we have developed a human and a mouse knockout system to study the loss-of-function phenotypes of this important ncRNA. In human tumor cells, MALAT1 expression was abrogated using Zinc Finger Nucleases. Unexpectedly, the quantitative loss of MALAT1 did neither affect proliferation nor cell cycle progression nor nuclear architecture in human lung or liver cancer cells. Moreover, genetic loss of Malat1 in a knockout mouse model did not give rise to any obvious phenotype or histological abnormalities in Malat1-null compared with wild-type animals. Thus, loss of the abundant nuclear long ncRNA MALAT1 is compatible with cell viability and normal development.
Ten years ago, neuroscientists began to study cultural phenomena by using functional MRI. Since then the number of publications in this field, termed cultural neuroscience (CN), has tremendously increased. In these studies, particular concepts of culture are implied, but rarely explicitly discussed. We argue that it is necessary to make these concepts a topic of debate in order to unravel the foundations of CN. From 40 fMRI studies we extracted two strands of reasoning: models investigating universal mechanisms for the formation of cultural groups and habits and, models assessing differences in characteristics among cultural groups. Both strands simplify culture as an inflexible set of traits and specificities. We question this rigid understanding of culture and highlight its hidden evaluative nature.
In the North Atlantic, the waters surrounding the Cape Verde Islands are a "potential hot spot" for cookiecutter shark Isistius spp. interactions with cetaceans. These occurrences were recently identified by the improved efforts of researchers to document cetacean strandings in the Cape Verde archipelago, as well as by the photo identification efforts of live whales and dolphins. The documentation of individual and mass stranding events confirmed that cookiecutter shark interactions with cetaceans in Cape Verde seas are remarkably common.
On 6 October 2012, the remains of a frigatebird were recovered at João Barrosa beach (16°01.387’N, 022°43.610’W), southeastern Boavista, Cape Verde Islands. The carcass had been found in mid September 2012, during a beach survey to monitor loggerhead turtle nesting activity in the area and was then buried in the sand. The field assistant of the Cabo Verde Natura 2000 turtle project who found the bird indicated the location of the corpse to the first author. His description of the bird allowed it to be identified as an adult female magnificent frigatebird Fregata magnificens Mathews, 1914. The remains consisted of numerous black and white feathers as well as several bones, including the skull, thorax and wing bones, which are preserved at the Cabo Verde Natura 2000 headquarters at Sal Rei, Boavista. Some feathers, together with remains of an egg and tissue of a mummified male found at Ilhéu de Baluarte in 2005 (see below), were deposited at the Centro de Análise Molecular, Centro de Investigação em Biodiversidade e Recursos Genéticos (CMA/CIBIO), Vairão, Portugal.
On 30 November 2012, we observed a white presumed Cape Verde buzzard Buteo bannermani Swann, 1919 in the northern mountains of Santo Antão, Cape Verde Islands. The bird was defending a territory on the west side of the road between Corda and Vila da Ribeira Grande. Judging from the amount of time it spent in aerial display, it probably concerned a male. RP managed to make a series of photos, including some of the bird perched at a distance of ca. 60 m (Fig. 1 & 2). In these it was possible to confirm that the eyes were dark and neither pale nor reddish, identifying the bird as an adult and excluding the possibility of an albino. Its apparent mate was a bird of normal appearance.
The diet of feral cats Felis catus on Santa Luzia, Cape Verde Islands, was studied. A total of 147 prey items were identified during the analysis of 26 scat groups collected during the summer of 2010. House mouse Mus musculus was the most important prey, both in percentage of biomass and number of preys consumed (89.7% and n= 117, respectively). Reptiles were the second most important prey, represented by one skink species (Chioninia stangeri) and an unidentified gecko species. The remainder of the identified prey consisted of one bird species (Passer iagoensis) and one undetermined Tettigoniidae species (Insecta). No endangered species were identified in scats of this introduced predator, but future surveys must be carried out to further avoid threats to the island's biodiversity.
An old specimen of the extinct giant skink Chioninia coctei (Duméril & Bibron, 1839), endemic to the islets of Branco and Raso, Cape Verde Islands, in the Naturalis Biodiversity Center, Leiden, the Netherlands, had been misidentified as Leiolopisma telfairii (Desjardin, 1831). The specimen, acquired by the Leiden Museum from the Muséum national d'Histoire naturelle in Paris during the 19th century, is demonstrated to be one of the specimens of C. coctei sent to Portugal by João da Silva Feijó during the 1780s. It was brought from Lisbon to Paris by Étienne Geoffroy Saint-Hilaire during the Napoleonic invasion in 1808. Together with the specimen remaining in the Paris museum, it is the oldest known of the species. The likely pathway of dispersal, as well as the general characteristics of the specimen, are discussed.
To actively protect sea turtles on their nesting beaches, it is essential to obtain knowledge about trends in abundance. The way sea turtles live makes it extremely difficult to identify how many individuals there are in a population at any point in time. Due to practical problems, given their entirely marine life with limited visibility and great oceanic dispersal, counting males or juveniles is currently quite difficult and imprecise. Counting females and nests on beaches during the nesting season is the best feasible but still imperfect method, since only an unknown portion of adult females nest every season. It is impossible to know the real number of females in the population by merely counting females and nests in a given year. The number of nesting females can vary greatly from year to year and it is therefore advisable to count them incessantly in subsequent years. Variations in nesting females between years can be independent of general population fluctuations and be due to chance or (unknown) environmental factors. Since the work has to be done at night and the majority of individuals must be marked and recaptured in order to be effective, carrying out censuses of females is complex. Yearly censuses of nests is suggested as the most effective method and the best way to obtain knowledge about the abundance of individuals in a population, their numerical development over time, the conservation status of the population and the effectiveness of conservation measures. The capture frequency of females and poached nests on beaches also requires counting the numbers involved.
On 10 February 2012, at 0845 UTC, a mass stranding involving seven (six adults and a juvenile) pygmy killer whales Feresa attenuata Gray, 1874 occurred at Praia de Boa Esperança (16º12’26”N, 22º52’00”W), along the northern coast of Boavista island, Cape Verde Islands. The event was witnessed by a group of kite-surfers, who managed to move three animals (two adults and a juvenile) back to the sea. No re-strandings were noted. At 1330 UTC, staff of the Protected Areas Department visited the site and recorded four specimens (two alive and two dead). At 1700 UTC, only two carcasses were found on the beach, the others apparently having been washed out to sea.
Recent data on status and distribution of resident and migrant birds in the Cape Verde Islands are presented, including records of nine taxa new to the archipelago, viz. Ixobrychus sturmii, Botaurus stellaris, Butorides striatus, Circus cyaneus, Porzana pusilla, Fulica atra, Chlidonias niger, Acrocephalus schoenobaenus and Hippolais polyglotta. Also presented are data on a number of breeding taxa, including the first record of the endemic Raso lark Alauda razae outside the islet of Raso. The alarming situation of the magnificent frigatebird Fregata magnificens, of which probably only two individuals remain in Cape Verde, constituting the entire population in the East Atlantic, is highlighted. During the past decade, breeding populations of common moorhen Gallinula chloropus appear to have become well-established on the islands of Santiago and Boavista. Following its expansion through Northwest Africa and the Canary Islands, Eurasian collared dove Streptopelia decaocto has now also colonized the Cape Verde Islands.
A bibliography (including an author index) of the literature on the land and freshwater molluscs of the Cape Verde Islands is presented, encompassing 81 entries, of which 61 are directly related to land and freshwater molluscs, while another 20 deal with marine Pulmonata and/or brackish and saltwater inhabiting Hydrobiidae. A historical synopsis of the exploration of the land and freshwater mollusc fauna of the Cape Verde archipelago is presented. An annotated check-list of the land-bound gastropods of the Cape Verde Islands is also included, differentiating between freshwater, land and marine species and completed by a list of taxa that have been erroneously mentioned for the archipelago due to misidentification or confusion about the location of origin.
Reproduction of mosquitoes (Diptera: Culicidae) in Santa Cruz, Santiago island, Cape Verde Islands
(2012)
Mosquitoes are dipterous insects with an important role in the transmission of diseases like malaria and dengue. During a dengue fever outbreak in the Cape Verde Islands in 2009, several studies were undertaken to support vector control. The present study was carried out in the district of Santa Cruz, Santiago island, to evaluate previous measures taken to control mosquito populations. Results show that mosquitoes use domestic water containers to breed. Barrels, drums and pots were all used. Of these, drums were most frequently found being infested with mosquito larvae or pupae. Morphological identification showed that Anopheles arabiensis and Aedes aegypti were present in the study area. Ae. aegypti was the commonest of the two and the only one found throughout the study area. Results show that socio-economic factors influence container positivity.
Grass savannas on lateritic crusts are characteristic landscape elements of the Sudanian savannas. In the W National Park and its surroundings in SE-Burkina Faso, plant diversity of savannas on and adjacent to bowé was assessed by a survey of 19 bowal areas with relevés along transects in each of these. The vegetation structure and species composition of the herb and shrub strata, soil depth, particle size and the concentration of Na+, K+, Mg2+, Ca2+, H+, C and N were recorded on each bowal and its surroundings. Our results show that soils on lateritic crusts are rather shallow and acidic compared to the surrounding savanna woodlands. Nutrient availability is hence comparatively low. The observed flora comprises 130 species mainly belonging to the families Combretaceae, Cyperaceae, Leguminosae and Poaceae with a predominance of therophytes and a comparatively high share of C4 species. In the pastures surrounding the National Park a higher species richness was found than inside the Park due to the occurrence of pioneers, ruderal and unpalatable plants. Savannas on lateritic crusts exhibit due to their extreme edaphic and hydrological conditions a specific flora distinct from their surroundings.
Most of the grass savannas on lateritic crusts found in the North-Western of Benin are free of trees and a shrub layer is only sparsely developed. The only constant member of the shrub layer is Terminalia laxiflora. Intermediate constancy show Entada africana and Annona senegalensis. With regard to the herbaceous layer two types can be identified: On very shallow soils (<2 cm) Loudetia togoensis is highly constant and often dominating. The same is true for Andropogon pseudapricus on soils of a little bit more than 2 cm. In those types, Lepidagathis anobrya and Spermacoce filifolia show very high constancy (constancy class V) and Cyanotis lanata and Melliniella micrantha occur with high constancy (IV).
Termite mounds represent abundant microhabitats of high biodiversity in tropical savanna ecosystems and are an important source of landscape heterogeneity in Sub–Saharan West Africa. Floristic composition as well as density, structure and zonation of plant cover on the mounds were investigated in northern Benin and compared to the adjacent savanna vegetation. A total of 57 abandoned and densely vegetated termite mounds of comparable size and similarly affected by erosion located in different types of savannas inside and outside of the W National Park and in cotton fields were studied. This study revealed that termitaria are special habitats differing in density, composition and structure from surrounding savannas. The plant cover of termite mounds showed a distinctive zonation. Succulents, geophytes, and lianas were much more abundant on mounds, the family Capparaceae was found exclusively on mounds. The floristic composition and vegetation on termitaria proved to be rather homogeneous; although those mounds located in cotton fields differed by higher abundance of Poaceae and lower species richness.
The Transylvanian Plateau in Romania is well known to host large areas of a variety of dry grassland types, still traditionally managed by low-intensity mowing or grazing. While this natural heritage is now under threat from changes in agricultural practices, the diversity of Transylvanian dry grasslands is still little understood. There is a lack of both field data sampled with standardised methods and a syntaxonomic treatment with modern statistical methods and supra-regional perspective. Therefore, the European Dry Grassland Group (EDGG) carried out its first international Research Expedition in Transylvania 2009 to study syntaxonomy, vegetation-environment relationships, and biodiversity patterns of these communities. In various locations across Transylvania, we sampled 10-m² vegetation plots (n = 82) and nested-plot series from 0.0001 m² to 100 m² (n = 20), including all vascular plant, bryophyte, and lichen species, as well as structural and soil data. The vegetation classification was carried out with modified TWINSPAN, followed by determination of diagnostic species with phi values and a small-scale re-assignment of relevés with the aim of crispness maximisation. Both TWINSPAN and ordination revealed three major groups of syntaxa, which were matched to three orders from the class of basiphilous dry grasslands, Festuco-Brometea, represented by one alliance each: rocky dry grasslands (Stipo pulcherrimae-Festucetalia pallentis: Seslerion rigidae); xeric grasslands on deep soils (Festucetalia valesiacae: Stipion lessingianae) and meso-xeric grasslands on deep soils (Brachypodietalia pinnati: Cirsio-Brachypodion pinnati). We accepted nine association-level units plus two that potentially merit association status but were only represented by one relevé each. Most of the units could be identified with one or several previously described associations. To support nomenclatural stability, we provide a nomenclatural revision and designate nomenclatural types where previously there were none. Further, we used DCA ordination and analysis of variance to determine the main environmental drivers of floristic differentiation and to determine ecological and structural differences between the vegetation types. The strongest differentiation occurred along the aridity gradient with the dense, particularly diverse stands on more or less level sites on the one hand (Brachypodietalia pinnati) and the more open, less diverse stands on steep south-facing slopes on the other end of the gradient (Stipo pulcherrimae- Festucetalia pallentis, Festucetalia valesiacae). The two xeric orders were then separated along the second DCA axis, with the Stipo pulcherrimae-Festucetalia pallentis inhabiting the stone-rich sites at higher altitudes while the Festucetalia valesiacae occur on soft, deep substrata at lower altitudes. The analysed dry grassland communities have extraordinarily high -diversity at all spatial scales for all plants and for vascular plants, but are relatively poor in bryophytes and lichens. Some formerly mown stands of the Festuco sulcatae-Brachypodietum pinnati (Brachypodietalia pinnati) are even richer in vascular plant species than any other recorded vegetation type worldwide on the spatial scales of 0.1 m² (43) and 10 m² (98); the respective relevés are documented here for the first time. Also, the b-diversity of the grasslands was unexpectedly high, with a mean z-value of 0.275. Despite its limited extent, the methodological thoroughness of this study allows us to shed new light on the syntaxonomy of dry grasslands in Romania and to raise the awareness that Transylvania still hosts High Nature Value grasslands that are bio - diversity hotspots at a global scale but at the same time are highly endangered through changes in agricultural practices.