New ophthalmosaurid ichthyosaurs from the European lower cretaceous demonstrate extensive ichthyosaur survival across the Jurassic–Cretaceous boundary

Background Ichthyosauria is a diverse clade of marine amniotes that spanned most of the Mesozoic. Until recently, most authors interpreted the fossil record as showing that three major extinction events affected this group during its history: one during the latest Triassic, one at the Jurassic–Cretaceous boundary (JCB), and one (resulting in total extinction) at the Cenomanian-Turonian boundary. The JCB was believed to eradicate most of the peculiar morphotypes found in the Late Jurassic, in favor of apparently less specialized forms in the Cretaceous. However, the record of ichthyosaurs from the Berriasian–Barremian interval is extremely limited, and the effects of the end-Jurassic extinction event on ichthyosaurs remains poorly understood. Methodology/Principal Findings Based on new material from the Hauterivian of England and Germany and on abundant material from the Cambridge Greensand Formation, we name a new ophthalmosaurid, Acamptonectes densus gen. et sp. nov. This taxon shares numerous features with Ophthalmosaurus, a genus now restricted to the Callovian–Berriasian interval. Our phylogenetic analysis indicates that Ophthalmosauridae diverged early in its history into two markedly distinct clades, Ophthalmosaurinae and Platypterygiinae, both of which cross the JCB and persist to the late Albian at least. To evaluate the effect of the JCB extinction event on ichthyosaurs, we calculated cladogenesis, extinction, and survival rates for each stage of the Oxfordian–Barremian interval, under different scenarios. The extinction rate during the JCB never surpasses the background extinction rate for the Oxfordian–Barremian interval and the JCB records one of the highest survival rates of the interval. Conclusions/Significance There is currently no evidence that ichthyosaurs were affected by the JCB extinction event, in contrast to many other marine groups. Ophthalmosaurid ichthyosaurs remained diverse from their rapid radiation in the Middle Jurassic to their total extinction at the beginning of the Late Cretaceous

Prognostic DNA methylation markers for sporadic colorectal cancer: a systematic review

Background Biomarkers that can predict the prognosis of colorectal cancer (CRC) patients and that can stratify high-risk early stage patients from low-risk early stage patients are urgently needed for better management of CRC. During the last decades, a large variety of prognostic DNA methylation markers has been published in the literature. However, to date, none of these markers are used in clinical practice. Methods To obtain an overview of the number of published prognostic methylation markers for CRC, the number of markers that was validated independently, and the current level of evidence (LoE), we conducted a systematic review of PubMed, EMBASE, and MEDLINE. In addition, we scored studies based on the REMARK guidelines that were established in order to attain more transparency and complete reporting of prognostic biomarker studies. Eighty-three studies reporting on 123 methylation markers fulfilled the study entry criteria and were scored according to REMARK. Results Sixty-three studies investigated single methylation markers, whereas 20 studies reported combinations of methylation markers. We observed substantial variation regarding the reporting of sample sizes and patient characteristics, statistical analyses, and methodology. The median (range) REMARK score for the studies was 10.7 points (4.5 to 17.5) out of a maximum of 20 possible points. The median REMARK score was lower in studies, which reported a p value below 0.05 versus those, which did not (p = 0.005). A borderline statistically significant association was observed between the reported p value of the survival analysis and the size of the study population (p = 0.051). Only 23 out of 123 markers (17%) were investigated in two or more study series. For 12 markers, and two multimarker panels, consistent results were reported in two or more study series. For four markers, the current LoE is level II, for all other markers, the LoE is lower. Conclusion This systematic review reflects that adequate reporting according to REMARK and validation of prognostic methylation markers is absent in the majority of CRC methylation marker studies. However, this systematic review provides a comprehensive overview of published prognostic methylation markers for CRC and highlights the most promising markers that have been published in the last two decades

Identifying mechanisms of shore platform erosion using Structure-from-Motion (SfM) photogrammetry

Shore platforms control wave energy transformation which, in turn, controls energy delivery to the cliff toe and nearshore sediment transport. Insight into shore platform erosion rates has conventionally been constrained at mm-scales using micro-erosion metres, and at m-scales using cartographic data. On apparently slowly eroding coasts, such approaches are fundamentally reliant upon long-term observation to capture emergent erosion patterns. Where in practise timescales are short, and where change is either below the resolution or saturates the mode of measurement, the collection of data that enables the identification of the actual mechanisms of erosion is hindered. We developed a method to monitor shore platform erosion at millimetre resolution within metre-scale monitoring plots using Structure-from-Motion photogrammetry. We conducted monthly surveys at 15 0.25 m2 sites distributed across the Hartle Loup platform in North Yorkshire, UK, over one year. We derived topographic data at 0.001 m resolution, retaining a vertical precision of change detection of 0.001 m. We captured a mean erosion rate of 0.528 mm yr-1, but this varied considerably both across the platform and through the year. We characterised the volume and shape of eroded material. The detachment volume-frequency and shape distributions suggest that erosion happens primarily via removal of shale platelets. We identify that the at-a-point erosion rate can be predicted by the distance from the cliff and the tidal level, whereby erosion rates are higher closer to the cliff and at locations of higher tidal duration. The size of individual detachments is controlled by local micro-topography and rock structure, whereby larger detachments are observed on more rough sections of the platform. Faster erosion rates and larger detachments occur in summer months, rather than in more energetic winter conditions. These results have the potential to form the basis of improved models of how platforms erode over both short- and long-timescales

Controls on the geotechnical response of sedimentary rocks to weathering

Weathering reduces the strength of rocks and so is a key control on the stability of rock slopes. Recent research suggests that the geotechnical response of rocks to weathering varies with ambient stress conditions resulting from overburden loading and/or stress concentrations driven by near-surface topography. In addition, the stress history experienced by the rock can influence the degree to which current weathering processes cause rock breakdown. To address the combined effect of these potential controls, we conducted a set of weathering experiments on two sedimentary lithologies in laboratory and field conditions. We firstly defined the baseline geotechnical behaviour of each lithology, characterising surface hardness and stress-strain behaviour in unconfined compression. Weathering significantly reduced intact rock strength, but this was not evident in measurements of surface hardness. The ambient compressive stress applied to samples throughout the experiments did not cause any observable differences in the geotechnical behaviour of the samples. We created a stress history effect in sub-sets of samples by generating a population of microcracks that could be exploited by weathering processes. We also geometrically modified groups of samples to cause near-surface stress concentrations that may allow greater weathering efficacy. However, even these pronounced sample modifications resulted in insignificant changes in geotechnical behaviour when compared to unmodified samples. The observed reduction in rock strength changed the nature of failure of the samples, which developed post-peak strength and underwent multiple stages of brittle failure. Although weakened, these samples could sustain greater stress and strain following exceedance of peak strength. On this basis, the multi-stage failure style exhibited by weaker weathered rock may permit smaller-magnitude, higher-frequency events to trigger fracture through intact rock bridges as well as influencing the characteristics of pre-failure deformation. These findings are consistent with patterns of behaviour observed in field monitoring results