Mechanistic implications for Escherichia coli cofactor-dependent phosphoglycerate mutase based on the high-resolution crystal structure of a vanadate complex

The structure of Escherichia coli cofactor-dependent phosphoglycerate mutase (dPGM), complexed with the potent inhibitor vanadate, has been determined to a resolution of 1.30 A (R-factor 0.159; R-free 0.213). The inhibitor is present in the active site, principally as divanadate, but with evidence of additional vanadate moieties at either end, and representing a different binding mode to that observed in the structural homologue prostatic acid phosphatase. The analysis reveals the enzyme-ligand interactions involved in inhibition of the mutase activity by vanadate and identifies a water molecule, observed in the native E.coli dPGM structure which, once activated by vanadate, may dephosphorylate the active protein. Rather than reflecting the active conformation previously observed for E.coli dPGM, the inhibited protein's conformation resembles that of the inactive dephosphorylated Saccharomyces cerevisiae dPGM. The provision of a high-resolution structure of both active and inactive forms of dPGM from a single organism, in conjunction with computational modelling of substrate molecules in the active site provides insight into the binding of substrates and the specific interactions necessary for three different activities, mutase, synthase and phosphatase, within a single active site. The sequence similarity of E.coli and human dPGMs allows us to correlate structure with clinical pathology.     

Anisakis simplex: dangerous--dead and alive?

The risk of infection with Anisakis simplex and related parasites of fish has been recognized for some time, but it is now emerging that ingestion of material from dead parasites in food is also potentially dangerous. The resulting allergic reactions range from rapid onset and potentially lethal anaphylactic reactions to chronic, debilitating conditions. This review discusses the problems and clinical implications associated with A. simplex, other related conditions, and the way in which disease manifestations vary from person to person.     

A comparative study of interspecific variation in fruit size among Australian eucalypts

We examined variation in woody fruit size among 362 Australian Eucalyptus species with respect to predictions relating fruit size to fire exposure and rainfall. Predictions for fruit size variation were established that focussed on selection for small or large seeds, given a positive allometric relationship between fruit and seed size within the genus, and on the potential for fruits to protect their valuable seed contents. Comparatively smaller fruits were found in species that continually experience frequent disturbance by fire, while both small and large fruits were found among species subjected to both short and long fire intervals. In the latter case where a broad range of fire intervals is possible, some species have adopted a strategy of producing small seeds that provide superior colonisation ability in disturbed conditions, while other species have adopted a strategy of producing large seeds which are more competitive during longer intervals between disturbance by fire. Only when taxonomic membership at the subgeneric level was accounted for in analyses across all species, did a significant relationship emerge between fruit size and rainfall independently of fire interval and plant height; comparatively larger fruits were found in species experiencing lower average annual rainfall in the subgenera Eucalyptus and Symphyomyrtus. In contrast to previous studies, larger fruits were found only in short species, while small fruits were found in both short and tall species. Many short species have adopted a strategy of protecting their seeds from high fire intensity by producing larger fruit. Since tall species can elevate their fruit far above high fire intensity, they make considerable energy savings by producing smaller fruit. It remains an open question as to why small fruit size occurs in some short species, but we suggest that these species may invest more heavily in vegetative regrowth after fire than in re-establishment by seed.     

A method for identification of inhibitors of the phosphorylation reactions of bacterial response regulator proteins using (31)P nuclear magnetic resonance spectroscopy.

Bacterial response regulators are attractive targets for antibacterial drug development, yet random screening against these targets has failed as yet to identify chemicals that constitute viable leads. Alternative methods to provide leads for drug development based on identification and optimization of low affinity ligands from NMR screens have been described. However, leads from these processes still require verification in a bioassay, which is often problematic if compounds have unfavorable optical and solubility properties. A simple method, based on using NMR to observe the activity of the target, is described. It has the advantages of being able to characterize both low affinity leads and a wider selection of compounds in a structure activity relationships series, without the problems affecting a fluorescence assay. In this example we use (31)P to monitor the turnover of a bacterial response regulator, but the generic approach could be applied to other nuclei and thus a range of biological systems.     

Targeted Gene Misexpression in Chick Limb Buds Using Avian Replication-Competent Retroviruses

The methods and applications for using avian replication-competent retroviruses to target gene misexpression in the developing limb bud of the chicken are described. These viruses provide the means to exploit the strengths of the chick as a model system in experimental embryology in conjunction with a genetic approach for ectopically expressing a gene of interest. The applications and strengths of the system are detailed. All the steps required to produce a virus carrying a transgene of interest and the methodologies behind designing and carrying out misexpression strategies are outlined, and some useful techniques for analyzing infected embryos are described.     

Higher Taxonomic Relationships among Extant Mammals Based on Morphology, with Selected Comparisons of Results from Molecular Data

Until a few decades ago, phylogenetic relationships among placental orders were ambiguous and usually depicted to radiate as an unresolved “bush.” Resolution of this bush by various workers has been progressing slowly, but with promising results corroborated by nondental, dental, and molecular characters. In this study we continue to seek resolution. A total of 258 nondental and 2 dental characters was analyzed by PAUP and MacClade on 39 vertebrate taxa (3 reptiles, 1 nonmammalian therapsid, and 35 mammals; 20 of the mammals are extant and 15 are extinct) to study higher taxonomic relationships with emphasis on Placentalia (Eutheria). About two-thirds of the characters are osteological, the rest concern soft tissues, including myological but excluding molecular characters (most are our data, the rest are from the literature). Cladistic analysis included all 39 taxa (fossil taxa help to evaluate polarities of characters) and all characters were given equal weight. Extant Mammalia are divided into Prototheria and Theria, the latter into Marsupialia and Placentalia. Placentalia comprises Xenarthra and Epitheria. Within Epitheria, Lipotyphla and Preptotheria (emended) are sister-taxa. Preptotherian taxa group into: ungulate-related taxa and various nonungulates. The former include Carnivora, Pholidota, Tubulidentata, Artiodactyla, Cetacea, Perissodactyla, Hyracoidea, Proboscidea, and Sirenia. A possible association to embrace Lagomorpha, Rodentia, Macroscelidea, Scandentia, Primates, Chiroptera, and Dermoptera is suggested. Significant differences between our findings and those of recent investigators include the dissociation of Pholidota from Xenarthra and the plesiomorphous position of Lipotyphla within Epitheria. Congruence between morphological and molecular results is closer than previously reported.     

The selection and genetic analysis of esterase electromorphs in an organophosphate-resistant strain ofCulex pipiens from Italy

An Italian organophosphate-resistant strain ofCulex pipiens (Lucca) was found to be polymorphic for elevated and nonelevated esterases. Selection for high esterase activity produced a strain homozygous for elevated esterases A2 and B2. Selection for low activity produced a strain homozygous for nonelevated esterases, A4ⁱ and B1ⁱ. Crossing experiments showed that A2 and B2 are coded by separate but closely linked genes, as are A4ⁱ and B1ⁱ. Results indicate that elevated A2 and nonelevated A4ⁱ are alleles of a single gene (Est-3 locus), as are elevated B2 and nonelevated B1ⁱ (Est-2 locus). Selection for electromorph variants gave four elevated A variants and three elevated B variants. These esterases were not selected in the field. In Lucca, A2 and B2 replaced A1, suggesting a selective advantage to the former over the latter in the presence of chlorpyrifos. It is hypothesized that the degree of amplification is an important factor in the selection of a particular esterase electromorph as a resistance mechanism and that migrating individuals with amplified genes could have an advantage when invading a population under selection.     

Isolation and mapping of discrete DXS101 loci in Xq22 near the X-linked agammaglobulinaemia gene locus

The X-linked agammaglobulinaemia (XLA) gene locus has previously been mapped to Xq22 in genetic linkage studies. The DXS101 locus has shown no recombinations with XLA in the ten informative meioses investigated so far. The DXS101 sequence, recognised by the cX52.5 plasmid, is moderately repeated in Xq22. We have isolated cosmids which contain this sequence; two copies of which have been found to lie near DXS178 and XLA, and a third copy which lies near the PLP gene, distal to these loci. We have used the cosmids to generate probes which should be of use for RFLP analysis, and thus in both prenatal diagnosis and carrier testing for XLA, and in constructing a genetic map of this region. These probes will also be used to complement the genetic map in the construction of a complete physical map of Xq22.