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Concept: Stratum

27

Fourteen rare earth elements were determined in mosses (Pleurozium schreberi) and soils (subhorizon-Ofh and -Ol, mixed horizon-AE and AEB) from south-central Poland. The results were normalized against North American Shale Composite (NASC) and Post-Archean Australian Shales (PAAS). The distribution of REEs in the moss-soil system differed considerably, but all the samples showed the average percent of increase of medium rare earth elements. The shale-normalized concentration ratios calculated for selected elements (LaN/YbN, GdN/YbN, LaN/SmN) were in the range of 1.22-2.43, 1.74-3.10 and 0.86-1.09. Both subhorizon-Ofh (-Ol) and horizon-AE (-AEB) showed a weak enrichment of Gd. The shale-normalized patterns of soils showed a somewhat negative Eu anomaly in the horizon-AE (-AEB), and a slightly negative Ce anomaly in the subhorizon-Ofh (-Ol). A strongly positive Eu anomaly and a somewhat negative Nd anomaly were found in the moss samples.

Concepts: Concentration, Rare earth element, Stratum, Mosses

12

Desmostylia is a clade of marine mammals belonging to either Tethytheria or Perissodactyla. Rich fossil records of Desmostylia were found in the Oligocene to Miocene strata of the Northern Pacific Rim, especially in the northwestern region, which includes the Japanese archipelago. Fossils in many shapes and forms, including whole or partial skeletons, skulls, teeth, and fragmentary bones have been discovered from this region. Despite the prevalent availability of fossil records, detailed taxonomic identification based on fragmentary postcranial materials has been difficult owing to to our limited knowledge of the postcranial diagnostic features of many desmostylian taxa. In this study, I propose the utilization of diagnostic characters found in the humerus to identify desmostylian genus. These characters can be used to identify isolated desmostylian humeri at the genus level, contributing to a better understanding of the stratigraphic and geographic distributions of each genus.

Concepts: Japan, Geology, Fossil, Paleontology, International Code of Zoological Nomenclature, Stratum, Desmostylia

10

Background There is substantial variability in the perioperative administration of aspirin in patients undergoing noncardiac surgery, both among patients who are already on an aspirin regimen and among those who are not. Methods Using a 2-by-2 factorial trial design, we randomly assigned 10,010 patients who were preparing to undergo noncardiac surgery and were at risk for vascular complications to receive aspirin or placebo and clonidine or placebo. The results of the aspirin trial are reported here. The patients were stratified according to whether they had not been taking aspirin before the study (initiation stratum, with 5628 patients) or they were already on an aspirin regimen (continuation stratum, with 4382 patients). Patients started taking aspirin (at a dose of 200 mg) or placebo just before surgery and continued it daily (at a dose of 100 mg) for 30 days in the initiation stratum and for 7 days in the continuation stratum, after which patients resumed their regular aspirin regimen. The primary outcome was a composite of death or nonfatal myocardial infarction at 30 days. Results The primary outcome occurred in 351 of 4998 patients (7.0%) in the aspirin group and in 355 of 5012 patients (7.1%) in the placebo group (hazard ratio in the aspirin group, 0.99; 95% confidence interval [CI], 0.86 to 1.15; P=0.92). Major bleeding was more common in the aspirin group than in the placebo group (230 patients [4.6%] vs. 188 patients [3.8%]; hazard ratio, 1.23; 95% CI, 1.01, to 1.49; P=0.04). The primary and secondary outcome results were similar in the two aspirin strata. Conclusions Administration of aspirin before surgery and throughout the early postsurgical period had no significant effect on the rate of a composite of death or nonfatal myocardial infarction but increased the risk of major bleeding. (Funded by the Canadian Institutes of Health Research and others; POISE-2 ClinicalTrials.gov number, NCT01082874 .).

Concepts: Clinical trial, Myocardial infarction, Stroke, Bleeding, Placebo, Initiation, Stratum

4

Spatial patterns of Zn, Pb and Cd deposition in Cape Krusenstern National Monument (CAKR), Alaska, adjacent to the Red Dog Mine haul road, were characterized in 2001 and 2006 using Hylocomium moss tissue as a biomonitor. Elevated concentrations of Cd, Pb, and Zn in moss tissue decreased logarithmically away from the haul road and the marine port. The metals concentrations in the two years were compared using Bayesian posterior predictions on a new sampling grid to which both data sets were fit. Posterior predictions were simulated 200 times both on a coarse grid of 2,357 points and by distance-based strata including subsets of these points. Compared to 2001, Zn and Pb concentrations in 2006 were 31 to 54% lower in the 3 sampling strata closest to the haul road (0-100, 100-2000 and 2000-4000 m). Pb decreased by 40% in the stratum 4,000-5,000 m from the haul road. Cd decreased significantly by 38% immediately adjacent to the road (0-100m), had an 89% probability of a small decrease 100-2000 m from the road, and showed moderate probabilities (56-71%) for increase at greater distances. There was no significant change over time (with probabilities all ≤ 85%) for any of the 3 elements in more distant reference areas (40-60 km). As in 2001, elemental concentrations in 2006 were higher on the north side of the road. Reductions in deposition have followed a large investment in infrastructure to control fugitive dust escapement at the mine and port sites, operational controls, and road dust mitigation. Fugitive dust escapement, while much reduced, is still resulting in elevated concentrations of Zn, Pb and Cd out to 5,000 m from the haul road. Zn and Pb levels were slightly above arctic baseline values in southern CAKR reference areas.

Concepts: Probability, Geology, Heavy metal music, Dust, 2001, The Road, Stratum, National Park Service

2

The fossil record is well known to be incomplete. Read literally, it provides a distorted view of the history of species divergence and extinction, because different species have different propensities to fossilize, the amount of rock fluctuates over geological timescales, as does the nature of the environments that it preserves. Even so, patterns in the fossil evidence allow us to assess the incompleteness of the fossil record. While the molecular clock can be used to extend the time estimates from fossil species to lineages not represented in the fossil record, fossils are the only source of information concerning absolute (geological) times in molecular dating analysis. We review different ways of incorporating fossil evidence in modern clock dating analyses, including node-calibrations where lineage divergence times are constrained using probability densities and tip-calibrations where fossil species at the tips of the tree are assigned dates from dated rock strata. While node-calibrations are often constructed by a crude assessment of the fossil evidence and thus involves arbitrariness, tip-calibrations may be too sensitive to the prior on divergence times or the branching process and influenced unduly affected by well-known problems of morphological character evolution, such as environmental influence on morphological phenotypes, correlation among traits, and convergent evolution in disparate species. We discuss the utility of time information from fossils in phylogeny estimation and the search for ancestors in the fossil record.This article is part of the themed issue ‘Dating species divergences using rocks and clocks’.

Concepts: DNA, Evolution, Phylogenetics, Geology, Fossil, Paleontology, Charles Darwin, Stratum

2

Cueva Victoria has provided remains of more than 90 species of fossil vertebrates, including a hominin phalanx, and the only specimens of the African cercopithecid Theropithecus oswaldi in Europe. To constrain the age of the vertebrate remains we used paleomagnetism, vertebrate biostratigraphy and (230)Th/U dating. Normal polarity was identified in the non-fossiliferous lowest and highest stratigraphic units (red clay and capping flowstones) while reverse polarity was found in the intermediate stratigraphic unit (fossiliferous breccia). A lower polarity change occurred during the deposition of the decalcification clay, when the cave was closed and karstification was active. A second polarity change occurred during the capping flowstone formation, when the upper galleries were filled with breccia. The mammal association indicates a post-Jaramillo age, which allows us to correlate this upper reversal with the Brunhes-Matuyama boundary (0.78 Ma). Consequently, the lower reversal (N-R) is interpreted as the end of the Jaramillo magnetochron (0.99 Ma). These ages bracket the age of the fossiliferous breccia between 0.99 and 0.78 Ma, suggesting that the capping flowstone was formed during the wet Marine Isotopic Stage 19, which includes the Brunhes-Matuyama boundary. Fossil remains of Theropithecus have been only found in situ ∼1 m below the B/M boundary, which allows us to place the arrival of Theropithecus to Cueva Victoria at ∼0.9-0.85 Ma. The fauna of Cueva Victoria lived during a period of important climatic change, known as the Early-Middle Pleistocene Climatic Transition. The occurrence of the oldest European Acheulean tools at the contemporaneous nearby site of Cueva Negra suggest an African dispersal into SE Iberia through the Strait of Gibraltar during MIS 22, when sea-level was ∼100 m below its present position, allowing the passage into Europe of, at least, Theropithecus and Homo bearing Acheulean technology.

Concepts: Geology, Paleontology, Dinosaur, Stratum, Georges Cuvier, Geologic time scale, Biostratigraphy, Law of superposition

1

Recent advances have allowed for both morphological fossil evidence and molecular sequences to be integrated into a single combined inference of divergence dates under the rule of Bayesian probability. In particular, the fossilized birth-death tree prior and the Lewis-Mk model of discrete morphological evolution allow for the estimation of both divergence times and phylogenetic relationships between fossil and extant taxa. We exploit this statistical framework to investigate the internal consistency of these models by producing phylogenetic estimates of the age of each fossil in turn, within two rich and well-characterized datasets of fossil and extant species (penguins and canids). We find that the estimation accuracy of fossil ages is generally high with credible intervals seldom excluding the true age and median relative error in the two datasets of 5.7% and 13.2%, respectively. The median relative standard error (RSD) was 9.2% and 7.2%, respectively, suggesting good precision, although with some outliers. In fact, in the two datasets we analyse, the phylogenetic estimate of fossil age is on average less than 2 Myr from the mid-point age of the geological strata from which it was excavated. The high level of internal consistency found in our analyses suggests that the Bayesian statistical model employed is an adequate fit for both the geological and morphological data, and provides evidence from real data that the framework used can accurately model the evolution of discrete morphological traits coded from fossil and extant taxa. We anticipate that this approach will have diverse applications beyond divergence time dating, including dating fossils that are temporally unconstrained, testing of the ‘morphological clock’, and for uncovering potential model misspecification and/or data errors when controversial phylogenetic hypotheses are obtained based on combined divergence dating analyses.This article is part of the themed issue ‘Dating species divergences using rocks and clocks’.

Concepts: Evolution, Phylogenetics, Normal distribution, Geology, Statistical inference, Fossil, Paleontology, Stratum

0

We estimated the impact of obesity on bladder cancer with stratification by smoking status using nationally representative data on the Korean population from the National Health Insurance System (NHIS). Of the 45,850,458 people who underwent at last one health examination from 2009 to 2012, 23,378,895 without bladder cancer were followed from the January 2009 to the December 2015. First, the HR for bladder cancer was lowest in people with a BMI < 18.5 (HR = 0.92) and highest for those with BMI ≥ 30 (HR = 1.17) in multiple Cox regression analyses. The positive association between bladder cancer and BMI showed an increasing trend beyond the reference BMI. Second, an analysis of HR for bladder cancer stratified by obesity across smoking status strata showed a significant trend of increasing HR for bladder cancer across obesity and smoking status in multivariate-adjusted models. Conclusively, this population-based study showed that increasing BMI was a risk factor for bladder cancer independent of confounding variables. When stratified by smoking status, there was still a positive association between bladder cancer and BMI (P for trend < 0.01).

Concepts: Regression analysis, Statistics, Nutrition, Obesity, Body mass index, Bladder cancer, Trend estimation, Stratum

0

The milk and meat from animals with a pasture-based diet have higher proportions of CLA and C18:3 and lower omega-6:omega-3 ratios than products from animals with diets based on corn silage and concentrate. However, most of the published studies have evaluated fatty acid profiles in temperate climate grasses and the literature with tropical grasses is scarce. Thus, the aim of this study was to evaluate the morphological and fatty acid compositions in the vertical strata of elephant grass (Pennisetum purpureum Schum.) swards subjected to grazing heights (90 or 120 cm pre-grazing heights) and levels of defoliation (50% or 70% removal of the initial pre-grazing height). There were no interactions among pre-grazing height, the level of defoliation and grazing stratum. However, higher proportion of C18:3 (58% and 63%) was found in the 90-cm swards and in the half upper stratum. A higher proportion of C18:3 was associated with a higher leaf proportion and crude protein content. Thus, the upper stratum of sward or a grazing management scheme (e.g. first-last stocking) resulting in a higher proportion of leaves and crude protein both provide higher proportions of C18:3 to animals grazing in elephant grass swards.

Concepts: Nutrition, Climate, Poaceae, Maize, Leaf, Livestock, Stratum, Pennisetum purpureum

0

Genome-wide association meta-analyses (GWAMAs) conducted separately by two strata have identified differences in genetic effects between strata, such as sex-differences for body fat distribution. However, there are several approaches to identify such differences and an uncertainty which approach to use. Assuming the availability of stratified GWAMA results, we compare various approaches to identify between-strata differences in genetic effects. We evaluate type I error and power via simulations and analytical comparisons for different scenarios of strata designs and for different types of between-strata differences. For strata of equal size, we find that the genome-wide test for difference without any filtering is the best approach to detect stratum-specific genetic effects with opposite directions, while filtering for overall association followed by the difference test is best to identify effects that are predominant in one stratum. When there is no a priori hypothesis on the type of difference, a combination of both approaches can be recommended. Some approaches violate type I error control when conducted in the same data set. For strata of unequal size, the best approach depends on whether the genetic effect is predominant in the larger or in the smaller stratum. Based on real data from GIANT (>175 000 individuals), we exemplify the impact of the approaches on the detection of sex-differences for body fat distribution (identifying up to 10 loci). Our recommendations provide tangible guidelines for future GWAMAs that aim at identifying between-strata differences. A better understanding of such effects will help pinpoint the underlying mechanisms.

Concepts: Effect, Difference, Identification, A priori, Stratum