Parameterisation of the chemical effects of sprites in the middle atmosphere

Transient luminous events, such as red sprites, occur in the middle atmosphere in the electric field above thunderstorms. We here address the question whether these processes may be a significant source of odd nitrogen and affect ozone or other important trace species. A well-established coupled ion-neutral chemical model has been extended for this purpose and applied together with estimated rates of ionisation, excitation and dissociation based on spectroscopic ratios from ISUAL on FORMOSAT-2. This approach is used to estimate the NO<sub>x</sub> and ozone changes for two type cases. <br><br> The NO<sub>x</sub> enhancements are at most one order of magnitude in the streamers, which means a production of at most 10 mol per event, or (given a global rate of occurrence of three events per minute) some 150–1500 kg per day. The present study therefore indicates that sprites are insignificant as a global source of NO<sub>x</sub>. Local effects on ozone are also negligible, but the local enhancement of NO<sub>x</sub> may be significant, up to 5 times the minimum background at 70 km in extraordinary cases

Relativistic electron beams above thunderclouds

Non-luminous relativistic electron beams above thunderclouds have been detected by the radio signals of low frequency ∼40–400 kHz which they radiate. The electron beams occur ∼2–9 ms after positive cloud-to-ground lightning discharges at heights between ∼22–72 km above thunderclouds. Intense positive lightning discharges can also cause sprites which occur either above or prior to the electron beam. One electron beam was detected without any luminous sprite which suggests that electron beams may also occur independently of sprites. Numerical simulations show that beams of electrons partially discharge the lightning electric field above thunderclouds and thereby gain a mean energy of ∼7 MeV to transport a total charge of ∼−10 mC upwards. The impulsive current ∼3 × 10<sup>−3</sup> Am<sup>−2</sup> associated with relativistic electron beams above thunderclouds is directed downwards and needs to be considered as a novel element of the global atmospheric electric circuit

Spatial coupling of particle and fluid models for streamers: where nonlocality matters

Particle models for streamer ionization fronts contain correct electron energy distributions, runaway effects and single electron statistics. Conventional fluid models are computationally much more efficient for large particle numbers, but create too low ionization densities in high fields. To combine their respective advantages, we here show how to couple both models in space. We confirm that the discrepancies between particle and fluid fronts arise from the steep electron density gradients in the leading edge of the fronts. We find the optimal position for the interface between models that minimizes computational effort and reproduces the results of a pure particle model.Comment: 4 pages, 5 figure

Focus on high energy particles and atmospheric processes

The letters published in the ‘Focus issue on high energy particles and atmospheric processes’ serve to broaden the discussion about the influence of high energy particles on the atmosphere beyond their possible effects on clouds and climate. These letters link climate and meteorological processes with atmospheric electricity, atmospheric chemistry, high energy physics and aerosol science from the smallest molecular cluster ions through to liquid droplets. Progress in such a disparate and complex topic is very likely to benefit from continued interdisciplinary interactions between traditionally distinct science areas

Reciprocal Interaction of Wnt and RXR-alpha Pathways in Hepatocyte Development and Hepatocellular Carcinoma

Genomic analysis of human hepatocellular carcinoma (HCC) is potentially confounded by the differentiation state of the hepatic cell-of-origin. Here we integrated genomic analysis of mouse HCC (with defined cell-of-origin) along with normal development. We found a major shift in expression of Wnt and RXR-alpha pathway genes (up and down, respectively) coincident with the transition from hepatoblasts to hepatocytes. A combined Wnt and RXR-alpha gene signature categorized HCCs into two subtypes (high Wnt, low RXR-alpha and low Wnt, high RXR-alpha), which matched cell-of-origin in mouse models and the differentiation state of human HCC. Suppression of RXR-alpha levels in hepatocytes increased Wnt signaling and enhanced tumorigenicity, whereas ligand activation of RXR-alpha achieved the opposite. These results corroborate that there are two main HCC subtypes that correspond to the degree of hepatocyte differentation and that RXR-alpha, in part via Wnt signaling, plays a key functional role in the hepatocyte-like subtype and potentially could serve as a selective therapeutic target

A new molecular breast cancer subclass defined from a large scale real-time quantitative RT-PCR study

BACKGROUND: Current histo-pathological prognostic factors are not very helpful in predicting the clinical outcome of breast cancer due to the disease's heterogeneity. Molecular profiling using a large panel of genes could help to classify breast tumours and to define signatures which are predictive of their clinical behaviour. METHODS: To this aim, quantitative RT-PCR amplification was used to study the RNA expression levels of 47 genes in 199 primary breast tumours and 6 normal breast tissues. Genes were selected on the basis of their potential implication in hormonal sensitivity of breast tumours. Normalized RT-PCR data were analysed in an unsupervised manner by pairwise hierarchical clustering, and the statistical relevance of the defined subclasses was assessed by Chi2 analysis. The robustness of the selected subgroups was evaluated by classifying an external and independent set of tumours using these Chi2-defined molecular signatures. RESULTS: Hierarchical clustering of gene expression data allowed us to define a series of tumour subgroups that were either reminiscent of previously reported classifications, or represented putative new subtypes. The Chi2 analysis of these subgroups allowed us to define specific molecular signatures for some of them whose reliability was further demonstrated by using the validation data set. A new breast cancer subclass, called subgroup 7, that we defined in that way, was particularly interesting as it gathered tumours with specific bioclinical features including a low rate of recurrence during a 5 year follow-up. CONCLUSION: The analysis of the expression of 47 genes in 199 primary breast tumours allowed classifying them into a series of molecular subgroups. The subgroup 7, which has been highlighted by our study, was remarkable as it gathered tumours with specific bioclinical features including a low rate of recurrence. Although this finding should be confirmed by using a larger tumour cohort, it suggests that gene expression profiling using a minimal set of genes may allow the discovery of new subclasses of breast cancer that are characterized by specific molecular signatures and exhibit specific bioclinical features

Genome-Wide Divergence of DNA Methylation Marks in Cerebral and Cerebellar Cortices

Emerging evidence suggests that DNA methylation plays an expansive role in the central nervous system (CNS). Large-scale whole genome DNA methylation profiling of the normal human brain offers tremendous potential in understanding the role of DNA methylation in brain development and function.Using methylation-sensitive SNP chip analysis (MSNP), we performed whole genome DNA methylation profiling of the prefrontal, occipital, and temporal regions of cerebral cortex, as well as cerebellum. These data provide an unbiased representation of CpG sites comprising 377,509 CpG dinucleotides within both the genic and intergenic euchromatic region of the genome. Our large-scale genome DNA methylation profiling reveals that the prefrontal, occipital, and temporal regions of the cerebral cortex compared to cerebellum have markedly different DNA methylation signatures, with the cerebral cortex being hypermethylated and cerebellum being hypomethylated. Such differences were observed in distinct genomic regions, including genes involved in CNS function. The MSNP data were validated for a subset of these genes, by performing bisulfite cloning and sequencing and confirming that prefrontal, occipital, and temporal cortices are significantly more methylated as compared to the cerebellum.These findings are consistent with known developmental differences in nucleosome repeat lengths in cerebral and cerebellar cortices, with cerebrum exhibiting shorter repeat lengths than cerebellum. Our observed differences in DNA methylation profiles in these regions underscores the potential role of DNA methylation in chromatin structure and organization in CNS, reflecting functional specialization within cortical regions