Determination of prey capture rates in the stony coral Galaxea fascicularis: a critical reconsideration of the clearance rate concept

In order to determine optimal feeding regimes for captive corals, prey capture by the scleractinian coral Galaxea fascicularis was determined by measuring clearance of prey items from the surrounding water. Colonies of G. fascicularis (sized between 200 and 400 polyps) were incubated in 1300 ml incubation chambers. Nauplii of the brine shrimp Artemia sp. were used as the prey item. A series of incubation experiments was conducted to determine the maximal capture per feeding event and per day. To determine maximal capture per feeding event, total uptake of nauplii after one hour was determined for different prey item availabilities ranging from 50 to 4000 nauplii per polyp. To determine maximal capture per day, the corals were subjected to four repetitive feeding events at three different prey item densities (50, 100 and 150 nauplii per polyp). Alongside these quantitative experiments, it was tested to what extent the feeding response of corals is triggered by chemical cues. One hour after food addition, extract of Artemia nauplii was added to the incubation chambers to test its effect on subsequent prey capture rates. In all experiments, prey capture was expressed as the number of nauplii consumed per coral polyp. Total capture of Artemia nauplii by G. fascicularis after a single feeding event increased linearly up till a prey item availability of 2000 nauplii per polyp. Maximal capture per feeding event was estimated at 1200 nauplii per polyp, which is higher than rates reported in previous studies. It became apparent that at high densities of Artemia nauplii, the clearance rate method does not discriminate between active capture and passive sedimentation. Repetitive feeding with 50 nauplii per polyp resulted in a constant total prey capture per feeding event. At a supply of 100 nauplii per polyp, total capture decreased after the first feeding event, and remained constant during the subsequent feeding events at a level comparable to the lower food availability. However, at a supply of 150 nauplii per polyp, total capture per event was higher throughout the entire four-hour incubation period, which obfuscates an accurate estimation of the maximal daily food uptake. In all incubations, a decrease in capture efficiency was observed within the course of the feeding event. In all repetitive feeding experiments, capture efficiency increased immediately upon addition of a new batch of food. This increase in efficiency was not caused by a priming effect of extract of Artemia. The inconsistencies in the data show that estimates of prey capture based on clearance rates should be interpreted with caution, because this method does not take into account potential dynamics of prey capture and release

Effects of privatization and agencification on citizens and citizenship: an international comparison

This study has been compiled as an internationally comparative contribution to the parliamentary inquiry by the Dutch Senate into the effects of privatization and agencification on the relationship between citizens and the (national) government. Knowledge on this topic is scarce and scattered across different sources. Therefore, this paper consists of three different sections. Each section deals with a different question and uses different sources. In this overview we summarize the main findings of the three sections

Biotransformation pathway maps in WikiPathways enable direct visualization of drug metabolism related expression changes.

In recent decades, our knowledge of the genetics and functional genomics of drug-metabolizing enzymes has increased and a wealth of data on drug-related 'omics' has become available. Despite the availability of large amounts of biological information on xenobiotic biotransformation, the number of available biotransformation pathway maps that can easily be used for visualization of multiple omics data is limited. Here, we created integrated biotransformation pathway maps suitable for multiple omics analysis using PathVisio. The ease of visualizing data on these maps was demonstrated by using published microarray data from human hepatocyte-like cell models, exemplifying - where a sufficient capacity for metabolizing chemicals is a prerequisite for a suited model - how the biotransformation pathway maps can be used for model selection

Mapping and elucidating the function of modified bases in DNA

Chemically modified bases exist naturally in genomic DNA. Research into these bases has been invigorated by the discovery of several modified bases in the mammalian genome, in particular 5-methylcytosine and its oxidized derivatives, such as 5-(hydroxymethyl)cytosine and 5-formylcytosine, as well as the enzymes that form and process them, such as the DNA methyltransferases and the ten-eleven translocation enzymes. In this Review, we provide an overview of natural modified bases that have been reported in DNA, our current knowledge of their roles, and the techniques that have enabled us to probe their functions. Analytical methods have been invaluable in helping to advance this field. For example, chemical and enzymatic methods have provided the means to detect and decode modified bases, giving rise to an expanding array of sequencing approaches. Advanced liquid chromatography and tandem mass spectrometry have provided the means to detect and quantify modified bases with very high sensitivity, increasing the prospect of discovering unknown modifications. It is already evident that natural modified DNA bases and their associated enzymology are of fundamental importance to normal biology and to disease. The next decade promises to yield more insights, discoveries and applications from this burgeoning field of research.The Balasubramanian laboratory is supported by core funding from Cancer Research UK (C14303/A17197). S.B. is a senior investigator of the Wellcome Trust (Grant No. 099232/z/12/z)

Bcl-2–regulated apoptosis and cytochrome c release can occur independently of both caspase-2 and caspase-9

Apoptosis in response to developmental cues and stress stimuli is mediated by caspases that are regulated by the Bcl-2 protein family. Although caspases 2 and 9 have each been proposed as the apical caspase in that pathway, neither is indispensable for the apoptosis of leukocytes or fibroblasts. To investigate whether these caspases share a redundant role in apoptosis initiation, we generated caspase-2−/−9−/− mice. Their overt phenotype, embryonic brain malformation and perinatal lethality mirrored that of caspase-9−/− mice but were not exacerbated. Analysis of adult mice reconstituted with caspase-2−/−9−/− hematopoietic cells revealed that the absence of both caspases did not influence hematopoietic development. Furthermore, lymphocytes and fibroblasts lacking both remained sensitive to diverse apoptotic stimuli. Dying caspase-2−/−9−/− lymphocytes displayed multiple hallmarks of caspase-dependent apoptosis, including the release of cytochrome c from mitochondria, and their demise was antagonized by several caspase inhibitors. These findings suggest that caspases other than caspases 2 and 9 can promote cytochrome c release and initiate Bcl-2–regulated apoptosis