Alternative primer sets for PCR detection of genotypes involved in bacterial aerobic BTEX degradation: distribution of the genes in BTEX degrading isolates and in subsurface soils of a BTEX contaminated industrial site

Eight new primer sets were designed for PCR detection of (i) mono-oxygenase and dioxygenase gene sequences involved in initial attack of bacterial aerobic BTEX degradation and of (ii) catechol 2,3-dioxygenase gene sequences responsible for meta-cleavage of the aromatic ring. The new primer sets allowed detection of the corresponding genotypes in soil with a detection limit of 10(3)-10(4) or 10(5)-10(6) gene copies g(-1) soil, assuming one copy of the gene per cell. The primer sets were used in PCR to assess the distribution of the catabolic genes in BTEX degrading bacterial strains and DNA extracts isolated from soils sampled from different locations and depths (vadose, capillary fringe and saturated zone) within a BTEX contaminated site. In both soil DNA and the isolates, tmoA-, xylM- and xylE1-like genes were the most frequently recovered BTEX catabolic genes. xylM and xylE1 were only recovered from material from the contaminated samples while tmoA was detected in material from both the contaminated and non-contaminated samples. The isolates, mainly obtained from the contaminated locations, belonged to the Actinobacteria or Proteobacteria (mainly Pseudomonas). The ability to degrade benzene was the most common BTEX degradation phenotype among them and its distribution was largely congruent with the distribution of the tmoA-like genotype. The presence of tmoA and xylM genes in phylogenetically distant strains indicated the occurrence of horizontal transfer of BTEX catabolic genes in the aquifer. Overall, these results show spatial variation in the composition of the BTEX degradation genes and hence in the type of BTEX degradation activity and pathway, at the examined site. They indicate that bacteria carrying specific pathways and primarily carrying tmoA/xylM/xylE1 genotypes, are being selected upon BTEX contamination.     

Variation in Detrital Resource Stoichiometry Signals Differential Carbon to Nutrient Limitation for Stream Consumers Across Biomes

Stoichiometric ratios of resources and consumers have been used to predict nutrient limitation across diverse terrestrial and aquatic ecosystems. In forested headwater streams, coarse and fine benthic organic matter (CBOM, FBOM) are primary basal resources for the food web, and the distribution and quality of these organic matter resources may therefore influence patterns of secondary production and nutrient cycling within stream networks or among biomes. We measured carbon (C), nitrogen (N), and phosphorus (P) content of CBOM and FBOM and calculated their stoichiometric ratios (C/N, C/P, N/P) from first- to fourth-order streams from tropical montane, temperate deciduous, and boreal forests, and tallgrass prairie, to compare the magnitude and variability of these resource types among biomes. We then used the ratios to predict nutritional limitations for consumers of each resource type. Across biomes, CBOM had consistently higher %C and %N, and higher and more variable C/N and C/P than FBOM, suggesting that microbial processing results in more tightly constrained elemental composition in FBOM than in CBOM. Biome-specific differences were observed in %P and N/P between the two resource pools; CBOM was lower in %P but higher in N/P than FBOM in the tropical montane and temperate deciduous forest biomes, while CBOM was higher in %P but similar in N/P than FBOM in the grassland and boreal forest biomes. Stable ¹³C isotopes suggest that FBOM likely derives from CBOM in tropical and temperate deciduous forest, but that additional non-detrital components may contribute to FBOM in boreal forests and grasslands. Comparisons of stoichiometric ratios of CBOM and FBOM to estimated needs of aquatic detritivores suggest that shredders feeding on CBOM are more likely to experience nutrient (N and/or P) than C limitation, whereas collector–gatherers consuming FBOM are more likely to experience C than N and/or P limitation. Our results suggest that differences in basal resource elemental content and stoichiometric ratios have the potential to affect consumer production and ecosystem rates of C, N, and P cycling in relatively consistent ways across diverse biomes.     

Angiogenic Activity of Breast Cancer Patients’ Monocytes Reverted by Combined Use of Systems Modeling and Experimental Approaches

Angiogenesis plays a key role in tumor growth and cancer progression. TIE-2-expressing monocytes (TEM) have been reported to critically account for tumor vascularization and growth in mouse tumor experimental models, but the molecular basis of their pro-angiogenic activity are largely unknown. Moreover, differences in the pro-angiogenic activity between blood circulating and tumor infiltrated TEM in human patients has not been established to date, hindering the identification of specific targets for therapeutic intervention. In this work, we investigated these differences and the phenotypic reversal of breast tumor pro-angiogenic TEM to a weak pro-angiogenic phenotype by combining Boolean modelling and experimental approaches. Firstly, we show that in breast cancer patients the pro-angiogenic activity of TEM increased drastically from blood to tumor, suggesting that the tumor microenvironment shapes the highly pro-angiogenic phenotype of TEM. Secondly, we predicted in silico all minimal perturbations transitioning the highly pro-angiogenic phenotype of tumor TEM to the weak pro-angiogenic phenotype of blood TEM and vice versa. In silico predicted perturbations were validated experimentally using patient TEM. In addition, gene expression profiling of TEM transitioned to a weak pro-angiogenic phenotype confirmed that TEM are plastic cells and can be reverted to immunological potent monocytes. Finally, the relapse-free survival analysis showed a statistically significant difference between patients with tumors with high and low expression values for genes encoding transitioning proteins detected in silico and validated on patient TEM. In conclusion, the inferred TEM regulatory network accurately captured experimental TEM behavior and highlighted crosstalk between specific angiogenic and inflammatory signaling pathways of outstanding importance to control their pro-angiogenic activity. Results showed the successful in vitro reversion of such an activity by perturbation of in silico predicted target genes in tumor derived TEM, and indicated that targeting tumor TEM plasticity may constitute a novel valid therapeutic strategy in breast cancer.     

Cyclosporin A augments angiotensin II-stimulated rise in intracellular free calcium in vascular smooth muscle cells.

Pretreatment of rat vascular smooth muscle cells with the immunosuppressive drug cyclosporin A caused concentration- and time-dependent increases in both the amplitude and duration of the angiotensin II-induced rise in cytosolic free calcium, as measured with quin 2. Cyclosporin A had no significant effect on basal quin 2 fluorescence. However, cyclosporin A increased the basal 45Ca2+ influx. This stimulation of 45Ca2+ influx was not blocked by nifedipine (10(-6) M). Cyclosporin A also augmented the angiotensin II-stimulated influx and efflux of 45Ca2+. These results demonstrate that cyclosporin A increases the permeability of the plasma membrane for Ca2+ and also augments the angiotensin II-induced increases in cytosolic free calcium.     

SYSTEMIC RELEASE OF SOLUBLE TNF RECEPTORS AFTER HIGH-DOSE TNF IN ISOLATED LIMB PERFUSION

Isolated limb perfusion (ILP) with high dose tumour necrosis factor (TNF), interferon γ and melphalan (TIM) is an efficient treatment for patients with regionally advanced melanoma and sarcoma. In 44 patients, we determined the kinetics of soluble TNF receptors (sTNF-RI and RII) plasma concentrations, and correlated them with systemic TNF and interleukin 6 (IL-6) levels and shock. Seven patients treated conventionally by ILP without cytokine served as controls.Elevated levels of both sTNF-Rs were observed within 30 min after beginning of the TIM-ILP. A first peak of sTNF-Rs levels was observed 3 h after ILP and was followed by a rapid decrease reaching a nadir at 12–14 h post ILP. This first peak was followed by a second, long-lasting elevation of both sTNF-Rs levels persisting for 4 to 5 days after TIM-ILP. Patients treated by ILP without TNF/interferon γ (IFN-γ) had no detectable increase in either sTNF-Rs or in circulating TNF, demonstrating that the release of TNF-Rs was dependent upon the administration of TNF/IFN-γ. High plasma levels of TNF and IL-6 were observed in patients that had more than 5% leakage during the TIM-ILP, but no significant correlation between TNF levels and the peak values of both sTNF-Rs was observed. The levels of TNF and IL-6 were, however, significantly related to each other. TNF systemic levels, but not sTNF-Rs concentrations, correlated significantly with the severity of the shock observed after TIM-ILP. Patients in which sTNF-RII concentration was in excess over circulating TNF, had no shock or grade I shock only, suggesting that sTNF-RII may play a protective, although limited, role in inhibiting activity of circulating TNF.     

cGMP-dependent protein kinase decreases calcium sensitivity of skinned cardiac fibers

Chemically skinned (Lubrol WX) cardiac muscle fibers produce half-maximum isometric tension at pCa 6.18 (pH 6.7) in presence of MgATP (10 mM). After addition of cGMP (5 microM) and cGMP-dependent protein kinase (0.1 microM), the pCa required for half-maximum activation is 5.96, while maximum tension is not affected. Similar shifts in the tension/pCa-relationship have been observed after incubation of skinned cardiac muscle fibers with cAMP of catalytic subunit of the cAMP-dependent protein kinase. The shift in the Ca2+-sensitivity is associated with an increased incorporation of radioactivity into a Mr 28000 band (presumably troponin-I) and a Mr 145000 band.     

Inactivation and solubilization of opiate receptors by phospholipases A2

(1) As previously shown, stereospecific binding of opiates to membrane bound receptors is inhibited by treatment with small amounts of phospholipase A2 from Vipera russelli. This effect is quantified and compared with the enzymes from the venoms of Naja Naja siamensis, Apis Mellifica and from porcine pancreas. All enzymes are equally effective. The inhibition is due to partial phospholipid hydrolysis leading to inactivation of membrane-bound receptor. (2) Bee venom phospholipase A2 together with the synergistically acting peptide, melittin, causes receptor solubilization up to 80% of preformed receptor-ligand complex can be solubilized in this manner. (3) Lysophosphatidylcholine, a product of phospholipid hydrolysis, solubilizes performed receptor-ligand complex to a similar extent. Several other detergents were tested for their ability to solubilize receptor-ligand complex. Digitonin appears to be most effective in solubilizing such a complex.     

Superkontraktion glycerinextrahierter asynchroner Insektenmuskeln in Gegenwart von ITP

Zusammenfassung Glycerinextrahierte Fasern aus den longitudinalen Flugmuskeln der tropischen Wasserwanze Lethocerus maximus verkürzen sich mit ATP maximal auf 80% L ₀. Mit ITP lassen sich dagegen Verkürzungen auf 30% L ₀ induzieren. Übereinstimmend wird ITP stärker gespalten als ATP. Die enzymatische Aktivität sinkt mit der Verkürzung und bleibt zwischen 70% und 50% L ₀ gleich. Das Längen-Spannungsdiagramm mit ITP ist biphasisch, da bei rund 80% L ₀ ein Spannungsminimum erreicht wird und weitere Verkürzung auf 60% L ₀ wieder zu vermehrter Spannung führt.Die verschiedenen Verkürzungsstadien wurden elektronenmikroskopisch untersucht. Bei Ausgangslänge (L ₀) der Fasern und selbst in gedehnten Präparaten wurden die für die asynchronen Insektenmuskeln typischen Verbindungen der Primärfilamente mit der Z- Scheibe bestätigt. Bei Verkürzung auf 90% L ₀ tritt eine Verdichtung und Verbreiterung des Z- Scheibenkomplexes ein, die bei 80% L ₀ ihr Maximum zeigen und die auf eine Stauchung der Primärfilamente an der Z- Scheibe hindeuten. Gleichzeitig bildet sich durch Doppelüberlappung der Sekundärfilamente in der Sarcomerenmitte ein C _M-Band aus.Verkürzungen, die über 80% L ₀ hinausgehen, sind mit einer Auflockerung der Filamentanordnung innerhalb der Myofibrillen verbunden und führen so zu deren Verbreiterung. Die Primärfilamente verlaufen auch dann noch faserparallel. Sie durchstoßen die Z-Scheibe jedoch, wenn überhaupt, dann nur in sehr geringem Umfange, denn im Querschnitt ist ihre Zahl pro Myofibrille bei 60% L ₀ praktisch ebenso groß wie bei 100% L ₀. Ihre Länge muß sich infolgedessen mit zunehmender Superkontraktion verringern. Dementsprechend ist der Durchmesser der Primärfilamente in den auf 60% L ₀ verkürzten Fasern etwa 30% dicker als in erschlafften Fasern.

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Supercontraction of glycerol extracted insect flight muscles in presence of ITP

Summary Glycerol extracted fibers from the longitudinal flight muscles of the tropical waterbug Lethocerus maximus are able to shorten to 80% of their resting length (L ₀) in the presence of 5 mM Mg-ATP. With ITP on the other hand the fibers shorten to 30% L ₀. The isometric tension is also much larger (about 1 kg/cm²) with ITP than with ATP and accordingly the ITPase activity is higher than the ATPase activity. The enzymatic activity decreases during shortening to 70% L ₀ and remains constant between 70% and 50% L ₀. The tension length relationship is biphasic since during shortening to 80% L ₀ the tension decreases to a low value and increases again during further shortening to 60 % L ₀.The different states of shortening have been examined with the electron microscope after glutaraldehyde/OsO₄ fixation. At resting length and even in stretched preparations the thick filaments are linked to the Z discs by means of thin connections as shown by previous authors. At 90-80% L ₀ the region of the Z disc increases in thickness and density, suggesting, perhaps, that the primary filaments become squashed. In the middle of the sarcomere the thin filaments — the length of which remains strictly constant — double-overlap, i. e. they form C _Mcontraction bands.At lengths shorter than 80% L ₀ the hexagonal array of the myofilaments is disturbed. Even then the thick filaments remain straight and oriented in parallel to the fibre axis. Some of the electron micrographs show an apparent penetration of the Z discs by thick filaments. But the extent of penetration — if there is any — must be small since in cross-sections the number of thick filaments per myofibril is similar as in relaxed fibers. Tentatively we assume, therefore, that the length of thick filaments decreases during supercontraction to 60% L ₀ especially since their diameter increases by about 30% under these conditions.

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Für ausgezeichnete technische Mitarbeit danken wir Fräulein Jördis Behrsing und Fräulein Hannelore Stumpf. Der Deutschen Forschungsgemeinschaft sind wir für ihre Unterstützung zu Dank verpflichtet.     

Nanovariant RNAs: nucleotide sequence and interaction with bacteriophage Qbeta replicase

Gene 2 amber mutants of bacteriophage T4 grown on su^? hosts produce whole particles of which less than 0.5% are infective on su⁺ hosts. Although the DNA of such particles is full-sized and un-nicked, it is degraded to acid-soluble fragments after infection of exo V⁺ hosts. This breakdown does not occur on exo V^? deficient hosts, and such hosts are fully permissive for gene 2-defective particles. We have now determined that giant-headed, gene 2-defective particles containing several genome lengths of DNA per head are fully infective on exo V⁺ hosts even though part of the parental DNA is degraded to acid-soluble fragments early after infection. Restriction of gene 2-defective particles must therefore be due to exonucleolytic degradation of the incoming DNA. If the parental DNA is of sufficient length to enable a complete genome to survive this degradation before production of anti-exoV, such particles are now infective.     

Length dependent state of activation — Length change dependent kinetics of cross bridges in skinned insect flight muscle

Stretch induced activation and release induced deactivation of single glycerol-extracted insect flight muscle fibres were investigated. The results are interpreted to indicate that the muscle length controls the number of acting cross bridges, whereas their attachment-detachment kinetics in mainly determined by the state of strain of the cross bridges. It is concluded that the net detachment rate of the cross bridges is enhanced if the muscle is released thereby “unloading” the cross bridges. This behaviour of the unloaded cross bridge is a basic postulation of most of the molecular muscle contraction models.

1. The delayed tension rise induced by stretches of different amplitudes could be restored to the level before the stretch by a release to the initial length.
2. The delayed tension decrease induced by a release of moderate (up to δL=1.5% L _i)amplitude is quantitatively restored within the delayed increase induced by the restretch to the initial length.
3. Stiffness, which decreased during the delayed tension drop after release, is restored during a delayed stiffness increase effected by a restretch to the initial length.
4. The rate and the extent of the stiffness drop after release increased with increasing amplitude of the release and with increasing temperature.
5. After the deactivation, i.e., after tension and stiffness achieved a new steady level after the release, the attached cross bridges are already in the same state of strain as they were before the release. This finding is interpreted to indicate that within the deactivation phase all cross bridges attached prior the release are replaced by cross bridges attached after the release.
6. The rate of tension and stiffness decay after release does not depend on the absolute muscle length but on the amplitude of the release which induced the deactivation.