Complete Genome Sequence of Streptococcus pneumoniae Serotype 19F Strain EF3030.

We report the complete genome sequence of Streptococcus pneumoniae EF3030, a serotype 19F isolate that colonizes the nasopharynx of mice while being mostly noninvasive. Such attributes make this strain highly attractive in pneumococcal carriage studies. The availability of its complete genomic sequence is likely to advance studies in the field.

Defining cooperativity in gene regulation locally through intrinsic noise.

Regulatory networks in cells may comprise a variety of types of molecular interactions. The most basic are pairwise interactions, in which one species controls the behaviour of another (e.g. a transcription factor activates or represses a gene). Higher-order interactions, while more subtle, may be important for determining the function of networks. Here, the authors systematically expand a simple master equation model for a gene to derive an approach for robustly assessing the cooperativity (effective copy number) with which a transcription factor acts. The essential idea is that moments of a joint distribution of protein copy numbers determine the Hill coefficient of a cis-regulatory input function without non-linear fitting. The authors show that this method prescribes a definition of cooperativity that is meaningful even in highly complex situations in which the regulation does not conform to a simple Hill function. To illustrate the utility of the method, the authors measure the cooperativity of the transcription factor CI in simulations of phage- and show how the cooperativity accurately reflects the behaviour of the system. The authors numerically assess the effects of deviations from ideality, as well as possible sources of error. The relationship to other definitions of cooperativity and issues for experimentally realising the procedure are discussed.

Determining the partial photoionization cross-sections of ethyl radicals.

Using a crossed laser-molecular beam scattering apparatus, these experiments photodissociate ethyl chloride at 193 nm and detect the Cl and ethyl products, resolved by their center-of-mass recoil velocities, with vacuum ultraviolet photoionization. The data determine the relative partial cross-sections for the photoionization of ethyl radicals to form C2H5+, C2H4+, and C2H3+ at 12.1 and 13.8 eV. The data also determine the internal energy distribution of the ethyl radical prior to photoionization, so we can assess the internal energy dependence of the photoionization cross-sections. The results show that the C2H4++H and C2H3++H2 dissociative photoionization cross-sections strongly depend on the photoionization energy. Calibrating the ethyl radical partial photoionization cross-sections relative to the bandwidth-averaged photoionization cross-section of Cl atoms near 13.8 eV allows us to use these data in conjunction with literature estimates of the Cl atom photoionization cross-sections to put the present bandwidth-averaged cross-sections on an absolute scale. The resulting bandwidth-averaged cross-section for the photoionization of ethyl radicals to C2H5+ near 13.8 eV is 8+/-2 Mb. Comparison of our 12.1 eV data with high-resolution ethyl radical photoionization spectra allows us to roughly put the high-resolution spectrum on the same absolute scale. Thus, one obtains the photoionization cross-section of ethyl radicals to C2H5+ from threshold to 12.1 eV. The data show that the onset of the C2H4++H dissociative photoionization channel is above 12.1 eV; this result offers a simple way to determine whether the signal observed in photoionization experiments on complex mixtures is due to ethyl radicals. We discuss an application of the results for resolving the product branching in the O+allyl bimolecular reaction.