Site-directed mutagenesis to determine essential residues of ribulose-bisphosphate carboxylase ofRhodospirillum rubrum

Both Lys-166 and His-291 of ribulosebisphosphate carboxylase/oxygenase fromRhodospirillum rubrum have been implicated as the active-site residue that initiates catalysis. To decide between these two candidates, we resorted to site-directed mutagenesis to replace Lys-166 and His-291 with several amino acids. All 7 of the position-166 mutants tested are severely deficient in carboxylase activity, whereas the alanine and serine mutants at position 291 are ∼40% and ∼18% as active as the native carboxylase, essentially ruling out His-291 in theRhodospirillum rubrum carboxylase (and by inference His-298 in the spinach enzyme) as a catalytically essential residue. The ability of some of the mutant proteins to undergo carbamate formation or to bind either ribulosebisphosphate or a transition-state analogue remains largely unimpaired. This implies that Lys-166 is not required for substrate binding; rather, the results corroborate the earlier postulate that Lys-166 functions as an acid-base group in catalysis or in stabilizing a transition state in the reaction pathway.     

Separation of multiple isomers of inositol phosphates formed in GH3 cells.

A high-performance-liquid-chromatography (h.p.l.c.) separation was developed, which resolves isomers of inositol monophosphate (IP), inositol bisphosphate (IP2), and inositol trisphosphate (IP3) in a single run. In GH3 cells labelled with [3H]inositol, treated with Li+ and thyrotropin-releasing hormone (TRH), radiolabelled components identified as inositol 1-phosphate (I1P), inositol 2-phosphate (I2P), inositol 4-phosphate (I4P), inositol 1,4-bisphosphate [I(1,4)P2], inositol 1,3,4-trisphosphate [I(1,3,4)P3] and inositol 1,4,5-trisphosphate [I(1,4,5)P3] are present, as are multiple unidentified IP2 peaks. After TRH stimulation, both I1P and I4P increase, the increase in I4P preceding that of I1P; I(1,4)P2 and an unknown IP2 increase; and both I(1,3,4)P3 and I(1,4,5)P3 increase, the increase in I(1,4,5)P3 being rapid and transient, whereas the increase in I(1,3,4)P3 is slower and more sustained. The most rapidly appearing inositol phosphates produced after TRH stimulation are I(1,4)P2 and I(1,4,5)P3.     

Gene regulation during dedifferentiation in Dictyostelium discoideum

During development of Dictyostelium discoideum, cells acquire the capacity to rapidly recapitulate morphogenesis. Therefore, when cells at the loose aggregate stage are disaggregated and challenged to reaggregate, they do so in a tenth of the original time. If loose aggregate cells are disaggregated and resuspended in buffered dextrose solution (erasure medium), they retain the capacity of rapid recapitulation for 80 min, then completely lose this capacity in a single, synchronous step referred to as the "erasure event." The erasure event sets in motion a program of dedifferentiation during which cells lose developmentally acquired characteristics at different times. The erasure event is inhibited by the addition of 10(-4) M cAMP to erasure medium. The synthesis of 33 growth-associated polypeptides, the synthesis of 53 development-associated polypeptides, and the level of 2 development-associated RNAs have been monitored during the erasure program and in cultures inhibited from erasing by the addition of 10(-4) M cAMP. Growth-associated polypeptides begin to be resynthesized and development-associated polypeptides exhibit dramatic decreases in rate of synthesis at different times throughout the first 240 min in erasure medium. Inhibiting the erasure event with cAMP has no major effect in the resynthesis of the majority of growth-associated polypeptides. Only one growth-associated polypeptide, V28, is completely inhibited by cAMP, suggesting that it may play a role in the erasure process. In contrast, inhibiting the erasure event with cAMP has a marked effect on the synthesis of development-associated polypeptides, causing a dramatic reduction in the rate at which synthesis decreases for 6 polypeptides, and completely inhibits the decrease in the synthetic rate of 8 polypeptides. The two development-associated RNAs, 16G1 and 10C3, exhibit two distinctly different patterns of loss during erasure, but in both cases cAMP added at time zero of the erasure process dramatically retards or inhibits loss. In addition, when cAMP is added just prior to the erasure event, it inhibits the erasure event and stimulates a rapid increase in the level of 16G1 RNA back to the developmental level. The level of 16G1 RNA then remains at this level for at least 400 min. When cAMP is added after the erasure event, it causes a low, transient increase in the level of 16G1 RNA. These results are considered both in relation to the program of erasure, and in relation to the role of cAMP in the expression of developmental genes during the forward program of development.     

Metal ion size selectivity in ligands with groups containing the neutral oxygen donor atom. A crystallographic and thermodynamic study

The coordinating properties of open-chain ligands containing alcoholic or ethereal oxygen donors are examined. Addition of oxygen donors usually leads to complex stabilisation for large metal ions (Pb²⁺, Cd²⁺) and to less favourable effects on complex stability for small metal ions (Cu²⁺, Ni²⁺). The formation constants of these metal ions with the set of ligands RN(CH₂CHOH·CH₃)₂ where R is ---H, ---CH₂CHOH·CH₃, ---CH₂CH₂OCH₃, ---CH₂CH₂OCH₂CH₂OH, and ---CH₂---CHOCH₂CH₂CH₂ are reported. The largest stabilisation for each case where R is an O-donor group relative to R = H occurs for Pb²⁺, the largest metal ion, while Cu²⁺, the smallest metal ion, shows the smallest stabilisation. The crystal structure of [Ni(HOCH₂CH₂NHCH₂CH₂NH₂)₂] (NO₃)₂ is reported. The space group is P , with cell constants a = 13.098(3), b = 8.737(4), and c = 7.746(3) Å, β = 112.66(3), β = 90.65(3), and γ = 85.03(2), and Z = 2. Disorder of the nitrate anions hindered refinement, with the result that a final conventional R factor of 0.0903 was achieved. The Ni---N bond lengths average 2.06(1) (secondary nitrogen) and 2.10(2) (primary nitrogen). The Ni---O bond lengths are rather long, averaging 2.15(1) Å, which is used to support the idea that the steric effects are responsible for destabilising the complexes of small metal ions such as Ni(11) when neutral oxygen donors are present.     

Vertical nutrient transport and its effects on epilimnetic phosphorus in four calcareous lakes

The influence of vertical nutrient transport on epilimnetic phosphorus was studied comparatively in four calcareous Wisconsin lakes during 1972. In the two lakes with steep metalimnetic nutrient gradients (Mendota, Delavan), upward fluxes by entrainment and eddy diffusion exceeded all other influxes combined; here epilimnetic total-P concentrations increased during period of high windpower and thermocline migration, and decreased during comparatively stagnant intervals. In the two lakes lacking upper metalimnetic P gradients (Green, Fish), higher windpower had little or no effect on epilimnetic phosphorus.In each of the four lakes epilimnetic P declined in early summer until a quasi steady-state was achieved between P influxes and P sedimentation. In Mendota and Delavan steady-state featured higher concentrations of total-P, and much higher epilimnetic concentrations of particulate-P and chlorophyll, than in Green and Fish Lakes — mainly on account of the high fluxes of molybdate-reactive, biologically-available P through the seasonal thermocline. The flux analysis illustrates why mean lake TP concentration after ice-out is an inconsistent measure (not sufficient statistic) for estimating nutrient potential and chlorophyll standing crops during the following summer in stratified lakes.     

Impact d'une pollution urbaine sur la partie zooplanctonique d'un systeme neitique (Marseille - Cortiou)

Sewage of Marseilles' main outfall permanently pollutes a large coastal area centered around Cortiou, south of the city. In order to study the impact of that urban pollution on the zooplankton, more than 200 samples were collected between 1977 and 1981, according to several sampling strategies.Quantitatively, the study area showed a rather poor zooplankton. The more important populations were encountered near Cortiou, the non-perturbated reference point with lowest abundance of organisms. Sampling sites located near the outfall are sometimes azoic. Qualitatively, the observed communities are not characteristic of a heavily polluted environment, but correspond to an impoverished neritic community. In the more polluted area, the community is organized around the copepods Clausocalanus sp., Paracalanus sp. and Oithona helgolandica, and a group of less important species (Oithona nana and the cladoceran Evadne spinifera). Centropagidae, Coryceidae, Onceidae, but also Chaetognathians, Fritilliarins and the meroplanktonic larvae are more frequently encountered in clean water. Community structure is higher during the cold months than summer. The latter period frequently shows a disorganized zooplankton. In most situations, the copepod Acartia clausi plays a minor role in the structural definition of the communities.The variations observed seem largely independent of the parameters reflecting pollution intensity. Stress integration, in relation with the anterior community history (intensity of contact with polluted water, trophic potential of the area) seem to be the main regulator factors.

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Impact d'une pollution urbaine sur la partie zooplanctonique d'un systeme neitique (Marseille - Cortiou)

Resumé Le rejet permanent du grand émissaire de Marseille (5 m³, sec^–1) perturbe considérablement, par son importance, le système néritique du secteur de Cortiou. Afin d'approcher l'impact de cette pollution sur la partie zooplanctonique du système, plus de 200 prélèvements, concernant l'hydrologie et le plancton, ont of é\'t é réalises entre 1977 et 1981, selon différentes strategiés d'échantillonnage (suivi de masse d'eau, radiales, réseaux).Quantitativement on observe, sur l'ensemble de la zone étudiée, une abondance générale en zooplancton moyenne, voire faible. Les effectifs les plus importants se rencontrent cependant dans la cuvette de Cortiou, alors que le point de référence considéré comme non perturbé présente les effectifs les plus faibles. Les stations situées face à l'égout sont parfois azoïques.Qualitativement les peuplements ne paraissent pas trés caractéristiques d'un secteur pollué mais correspondent plutôt à un appauvrissement du peuplement néritique. Dans le secteur le plus pollué, la composition spécifique varie au cours du temps autour d'une communauté composée d'un groupe important avec Clausocalanus sp., Paracalanus sp., Oithona helgolandica et d'un groups de taxons moins fréquents représentés par des larves méroplanctoniques, Oithona nana et Evadne spinifera, tandis que les coryceidés, onceidés, Centropages typicus, chaetognathes et fritillaires se retrouvent plus fréquemment en eaux propres. La structure des populations est plus importante en période froide qu'en période chaude, période durant laquelle la communauté planctonique est fortement désorganisée. Paradoxalement Acartia clausi joue un rôle assez secondaire dans la définition structurelle de la communauté.Les fluctuations observées paraissent cependant peu liées à des paramètres reflétant l'intensité de la pollution. L'intégration du stress, en relation avec l'histoire antérieure de la communauté (intensité et durée du contact avec la nappe de dilution, potentialités trophiques) semblent ainsi prépondérantes.

     

Comparative organization of nitrogen fixation-specific genes from Azotobacter vinelandii and Klebsiella pneumoniae: DNA sequence of the nifUSV genes.

In the facultative anaerobe Klebsiella pneumoniae 17 nitrogen fixation-specific genes (nif genes) have been identified. Homologs to 12 of these genes have now been isolated from the aerobic diazotroph Azotobacter vinelandii. Comparative studies have indicated that these diverse microorganisms share striking similarities in the genetic organization of their nif genes and in the primary structure of their individual nif gene products. In this study the complete nucleotide sequence of the nifUSV gene clusters from both K. pneumoniae and A. vinelandii were determined. These genes are identically organized on their respective genomes, and the individual genes and their products exhibit a high degree of interspecies sequence homology.     

Calorimetric studies of oxygen and carbon monoxide binding to human hemoglobin. Sequential binding heats for oxygen

Two high precision techniques, titration microcalorimetry and thin-layer optical binding measurements, have made possible the evaluation of enthalpy changes for the overall oxygenation reactions for human hemoglobin (HbAo). Although the heat of adding three oxygen molecules could not be evaluated due to the indeterminate contribution of this species to the oxygen binding curve of the protein (Gill, S. J., Di Cera, E., Doyle, M. L., Bishop, G. A., and Robert, C. H. (1987) Biochemistry, 26, 3995-4002), the heats for binding two and four oxygen molecules were found to be simple multiples of the first binding heat. A direct consequence of equal stepwise heats is invariance of the shape of the binding curve with temperature, as pointed out by Wyman (Wyman, J. (1939) J. Biol. Chem. 127, 581-599). Titration microcalorimetry was also performed for the binding of carbon monoxide to hemoglobin. While the tight binding of CO precludes high-precision binding measurements, it does allow one to accurately determine the heat of ligation as a function of the CO bound. In these titrations a uniform heat of reaction is not observed, but the heat of binding increases markedly near the end point. This implies that the stepwise binding enthalpy for adding the third CO molecule is anomalously endothermic and for adding the fourth strongly exothermic. A similar phenomenon cannot be ruled out in the case of oxygen because of imprecision intrinsic in the analysis of the weaker ligand binding.     

The effect of 2,3-diphosphoglycerate on the tetramer-dimer equilibrium of carbon monoxide hemoglobin in dilute solution. Correlation between sedimentation and kinetic behavior

The effect of 2,3-diphospho-D-glycerate on the sedimentation coefficient of carbon monoxide hemoglobin was correlated with the fraction of rapidly reacting hemoglobin observed subsequent to flash photolysis at 23 degrees C at pH 7.30 in buffers of 0.1 M ionic strength. Concentrations of the organic phosphate up to about 5 mM resulted in an increase in S20,w, consistent with an increase in the fraction of tetrameric hemoglobin. A decrease in rapidly reacting hemoglobin parallelled the increase in the sedimentation coefficient. Between 5 and 20 mM 2,3-diphosphoglycerate, S20,w decreased, suggesting that dissociation to dimers was enhanced. An increase in rapidly reacting hemoglobin was also observed in this concentration range. Similar sedimentation results were obtained with oxyhemoglobin at pH 7.00 and carbon monoxide hemoglobin at pH 7.06. Assuming single binding sites on each species, the dissociation constants for 2,3-diphosphoglycerate binding to tetrameric and dimeric HbCO are 0.2-0.3 mM and 2-5 mM at pH 7.30. This biphasic effect of this physiologically important organic phosphate on the state of aggregation of R state hemoglobin has not been previously reported, but it is similar to that previously noted with inositol hexaphosphate, which enhanced tetramer formation at low concentrations, while at higher concentrations it promoted hemoglobin dissociation to dimers (White, S. L. (1976) J. Biol. Chem. 251, 4763-4769; Gray, R. D. (1980) J. Biol. Chem. 255, 1812-1818).     

Characterization of binding of human fibrinogen to the surface of germ-tubes and mycelium of candida albicans

The binding of human fibrinogen to germ-tubes and mycelium of Candida albicans, forms usually found in infected tissues, was studied in vitro by an immunofluorescence assay. Binding was quantified by using 125I-labelled fibrinogen. The degree of binding differed according to the morphological form of the fungus. Binding relative to that of the yeast form was greater for mycelium (12-fold) than for germ-tube (7.7-fold). Pretreatment of yeasts with fragments D and E (terminal degradation products of fibrinogen) before fibrinogen binding showed that fragment D possessed a higher affinity for C. albicans than fragment E. Binding of fibrinogen was diminished when C. albicans was pretreated with 2-mercaptoethanol alone or in combination with pronase, or pretreated with alpha-mannosidase or trypsin. Binding was not decreased by pretreatment with pronase alone or chitinase. Inhibition experiments using C. albicans dialysed culture filtrate, C. albicans mannan, chitin, sugars or amino sugars were done by preabsorbing the fibrinogen with each of the above mentioned compounds. C. albicans dialysed culture filtrate inhibited the binding more strongly than C. albicans mannan. However, fibrinogen binding to C. albicans was not significantly reduced by mannose, several other sugars or chitin. These studies demonstrate the existence of a fibrinogen-binding factor (FBF) strongly associated with the surface of germ-tube and filamentous forms of C. albicans, and indicate a possible role for FBF in the pathogenicity of C. albicans.