Evidence of Selection upon Genomic GC-Content in Bacteria

The genomic GC-content of bacteria varies dramatically, from less than 20% to more than 70%. This variation is generally ascribed to differences in the pattern of mutation between bacteria. Here we test this hypothesis by examining patterns of synonymous polymorphism using datasets from 149 bacterial species. We find a large excess of synonymous GC→AT mutations over AT→GC mutations segregating in all but the most AT-rich bacteria, across a broad range of phylogenetically diverse species. We show that the excess of GC→AT mutations is inconsistent with mutation bias, since it would imply that most GC-rich bacteria are declining in GC-content; such a pattern would be unsustainable. We also show that the patterns are probably not due to translational selection or biased gene conversion, because optimal codons tend to be AT-rich, and the excess of GC→AT SNPs is observed in datasets with no evidence of recombination. We therefore conclude that there is selection to increase synonymous GC-content in many species. Since synonymous GC-content is highly correlated to genomic GC-content, we further conclude that there is selection on genomic base composition in many bacteria.     

Global patterns and predictions of seafloor biomass using random forests

A comprehensive seafloor biomass and abundance database has been constructed from 24 oceanographic institutions worldwide within the Census of Marine Life (CoML) field projects. The machine-learning algorithm, Random Forests, was employed to model and predict seafloor standing stocks from surface primary production, water-column integrated and export particulate organic matter (POM), seafloor relief, and bottom water properties. The predictive models explain 63% to 88% of stock variance among the major size groups. Individual and composite maps of predicted global seafloor biomass and abundance are generated for bacteria, meiofauna, macrofauna, and megafauna (invertebrates and fishes). Patterns of benthic standing stocks were positive functions of surface primary production and delivery of the particulate organic carbon (POC) flux to the seafloor. At a regional scale, the census maps illustrate that integrated biomass is highest at the poles, on continental margins associated with coastal upwelling and with broad zones associated with equatorial divergence. Lowest values are consistently encountered on the central abyssal plains of major ocean basins The shift of biomass dominance groups with depth is shown to be affected by the decrease in average body size rather than abundance, presumably due to decrease in quantity and quality of food supply. This biomass census and associated maps are vital components of mechanistic deep-sea food web models and global carbon cycling, and as such provide fundamental information that can be incorporated into evidence-based management.     

Is Calluna vulgaris a suitable bio-monitor of management-mediated nutrient pools in heathland ecosystems?

In the face of ongoing atmospheric nutrient loads the employment of management measures to remove nutrients from heathland ecosystems has increased in importance. The present study is the first to analyse whether Calluna vulgaris is a suitable bio-monitor of management-mediated nutrient pools in heathland ecosystems. If Calluna vulgaris proves to be an appropriate indicator, its bio-indicative usage may prove to be a helpful tool for an assessment of management success in heathland ecosystems. In the Lüneburger Heide nature reserve (NW Germany) we analysed the impacts of grazing, mowing, prescribed burning, choppering and sod-cutting on the nutritional status of Calluna vulgaris by measuring nutrient contents (N, P, Ca, Mg, K) of current year's shoots 1 and 5 years after application of management measures. Results were related to management-induced nutrient flows and nutrient pools at the focal heath sites. Our results indicate that the less the physical environment of a heath site was affected by management measures the better the nutrient contents of current year's shoots of Calluna vulgaris mirrored changes in nutrient pools. For low-intensity measures (i.e. grazing, mowing, prescribed burning), shoot nutrient contents were a suitable indicator for changes in nutrient pools, particularly for nutrients with conservative cycles such as P. At grazed and mown sites high output rates of P caused by these measures were well reflected by decreased shoot P content. At burned sites, Calluna vulgaris proved to be a good indicator of changes in nutrient pools of the organic layer, mainly attributable to the deposition of nutrients with ash. In contrast, at sites subjected to high-intensity measures, shoot nutrient contents did not reflect management-mediated shifts in nutrient pools, despite the high nutrient losses caused by choppering and sod-cutting. At these sites, shoot nutrient contents mirrored only the effects of altered mineralisation rates attributable to changes in the physical environment following high-intensity measures. As plant growth and competition in heathlands is considered to be controlled by N or P, shoot N:P ratios are recommended as a tool to indicate whether plant growth tends to be limited by N, by P or by N and P. This, in turn, allows for an assessment of long-term effects of both atmospheric nutrient loads and management-mediated shifts in N and P pools at a focal heath site.     

Tumor Invasion of Salmonella enterica Serovar Typhimurium Is Accompanied by Strong Hemorrhage Promoted by TNF-α

Background

Several facultative anaerobic bacteria with potential therapeutic abilities are known to preferentially colonize solid tumors after systemic administration. How they efficiently find and invade the tumors is still unclear. However, this is an important issue to be clarified when bacteria should be tailored for application in cancer therapy.

Methodology/Principal Findings

We describe the initial events of colonization of an ectopic transplantable tumor by Salmonella enterica serovar Typhimurium. Initially, after intravenous administration, bacteria were found in blood, spleen, and liver. Low numbers were also detected in tumors associated with blood vessels as could be observed by immunohistochemistry. A rapid increase of TNF-α in blood was observed at that time, in addition to other pro-inflammatory cytokines. This induced a tremendous influx of blood into the tumors by vascular disruption that could be visualized in H&E stainings and quantified by hemoglobin measurements of tumor homogenate. Most likely, together with the blood, bacteria were flushed into the tumor. In addition, blood influx was followed by necrosis formation, bacterial growth, and infiltration of neutrophilic granulocytes. Depletion of TNF-α retarded blood influx and delayed bacterial tumor-colonization.

Conclusion

Our findings emphasize similarities between Gram-negative tumor-colonizing bacteria and tumor vascular disrupting agents and show the involvement of TNF-α in the initial phase of tumor-colonization by bacteria.     

Endoscopic Vascular Harvest in Coronary Artery Bypass Grafting Surgery: A Consensus Statement of the International Society of Minimally Invasive Cardiothoracic Surgery (ISMICS) 2005

OBJECTIVE:: This purpose of this consensus statement was to compare endoscopic vascular graft harvesting (EVH) with conventional open vascular harvesting (OVH) in adults undergoing coronary artery bypass grafting (CABG) surgery and to determine which resulted in improved clinical and resource outcomes. METHODS:: Before the consensus conference, the consensus panel reviewed the best available evidence, whereby systematic reviews, randomized trials, and nonrandomized trials were considered in descending order of importance. Evidence-based statements were created, and consensus processes were used to determine the ensuing statements. The AHA/ACC system was used to label the level of evidence and class of recommendation. RESULTS:: The consensus panel agreed upon the following statements: CONCLUSIONS:: Given these evidence-based statements, the consensus panel stated that EVH should be the standard of care for patients who require saphenous vein grafts for coronary revascularization (Class I, Level B). Future research should address long-term safety, cost-effectiveness, and endoarterial harvest.     

Mikroben unter Strom

Microbes wired up – From wastewater treatment to bioelectrotechnology Electron conducting microbes – this still sounds like science fiction or at least like an exotic natural phenomenon. Groundbreaking research in this area, however, indicates that this process seems to be widely spread within anaerobic microbial ecology. Microbes “wire up” with their living and non‐living surrounding to construct energetic networks. With microbial bioelectrochemical systems, we try to utilize this knowledge for environmental and biotechnological applications. While initially, the recovery of energy as electric current in microbial fuel cells was the main R&D target, our new scientific insights of microbial extracellular electron transfer allow us to make controlled use of this phenomenon for a multitude of further applications.     

Characterization of a new myrosinase in Brassica napus

A full-length cDNA clone defining the new myrosinase gene family MC in Brassica napus was isolated and sequenced. Southern hybridization showed that the MC family probably consists of 3 or 4 genes in B. napus. MC genes are expressed in the developing seed, but not in the vegetative tissues investigated. In situ hybridizations to developing seeds showed that the MC genes are expressed in the myrosin cells of the embryo axis and the cotyledons. Complexes with myrosinase and myrosinase-binding protein (MBP) were purified and characterized. Sequencing of peptides from myrosinases occurring in the complexes showed that the 70 kDa myrosinase is encoded by the MC genes, whereas the 65 kDa myrosinase is encoded by the MB genes. This is in contrast to the 75 kDa myrosinase which occurs in free form and is encoded by the MA genes. Deglycosylations of the myrosinase complexes and the free myrosinase showed that the molecular sizes of the myrosinases could be reduced significantly by this treatment, and that the size differences between the different myrosinases are mainly due to differences in glycosylation.