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PubMed1981

Effects of formamide on the polymerization and depolymerization of muscle actin.

Formamide was found to interfere with the polymerization of electrophoretically pure rabbit skeletal muscle G-actin to F-actin in vitro. It decreased the rate as well as the extent of polymerization. However, this influence was dependent on the way the polymerization reaction was initiated. If polymerization of G-actin was induced by 2 mM MgCl2, formamide inhibited the rate and extent of the polymerization much less than if the polymerization was induced by either 2 mM CaCl2 or 0.1 M KCl. The critical protein concentration was increased when formamide was present. This effect was small in the presence of MgCl2 but an approximately tenfold increase in the critical value was observed for the CaCl2-induced or KCl-induced polymerization. Depolymerization of F-actin by molar amounts of formamide was faster and proceeded further when the polymer had been formed in the presence of KCl or CaCl2 than when it been formed in the presence of MgCl2. It is concluded that Mg2+ stabilizes the F-actin structure rendering it more resistant than either Ca2+ or K+ against the destabilizing action of formamide.

Actins↗
PubMed1984

Polyneuronal innervation and quantal transmitter release in formamide-treated frog sartorius muscles.

The incidence of focal polyneuronal innervation was measured at end-plates in normal and reinnervated sartorius muscles from Rana pipiens either in the presence of curare to partially block neuromuscular transmission or in normal Ringer solution after pre-treatment with formamide to block excitation-contraction coupling. The incidence of polyneuronal innervation estimated with curare in normal muscles during the winter (19%) was significantly higher than the incidence in summer (9%). After formamide treatment, large end-plate potentials (e.p.p.s) and miniature e.p.p.s (m.e.p.p.s) could be recorded in Ringer solution containing physiological levels of Ca2+. For both normal and reinnervated muscles, higher levels of polyneuronal innervation could be recorded in normal Ringer solution after formamide treatment compared with levels measured in the presence of curare. This was true whether randomly selected end-plates or the same group of identified end-plates were examined before and after formamide treatment. Quantal content in normal Ringer solution containing 1.8 mM-Ca2+ was measured as the ratio of mean e.p.p. amplitude divided by mean m.e.p.p. amplitude. In randomly selected samples of normal end-plates the range of quantal contents seen was 18-112 (mean 50). For reinnervated end-plates 60 days after nerve crush, quantal contents were 6-181 (mean 54). It was concluded that formamide pre-treatment is a more sensitive technique for estimating the incidence of focal polyneuronal innervation and that, with appropriate controls, it can be used to measure quantal transmitter release accurately without using synaptic blocking agents.

Action Potentials↗
PubMed2002

Validation of formamide as a detubulation agent in isolated rat cardiac cells.

Kawai M, Hussain M, and Orchard CH. Am J Heart Circ Physiol 277: H603-H609, 1999 developed a technique to detubulate rat ventricular myocytes using formamide and showed that detubulation results in a decrease in cell capacitance, Ca(2+) current density, and Ca(2+) transient amplitude. We have investigated the mechanism of this detubulation and possible direct effects of formamide. Staining ventricular cells with di-8-ANEPPS showed that the t tubule membranes remain inside the cell after detubulation; trapping of FITC-labeled dextran within the t tubules showed that detubulation occurs during formamide washout and that the t tubules appear to reseal within the cell. Detubulation had no effect on the microtubule network but resulted in loss of synchronous Ca(2+) release on electrical stimulation. In contrast, formamide treatment of atrial cells did not significantly change cell capacitance, Ca(2+) current amplitude, action potential configuration, the Ca(2+) transient or the response of the Ca(2+) transient to isoprenaline. We conclude that formamide washout induces detubulation of single rat ventricular myocytes, leaving the t tubules within the cell, but without direct effects on cell proteins that might alter cell function.

Action Potentials↗
PubMed2001

Identification of apoptotic cells by formamide-induced dna denaturation in condensed chromatin.

In this article we describe a novel effect of formamide on DNA of apoptotic nuclei and present a method for specific detection of apoptotic cells based on this effect. Our observations show that formamide induces DNA denaturation in apoptotic nuclei but has no such effect on DNA of non-apoptotic cells. Formamide-induced DNA denaturation combined with detection of denatured DNA with a monoclonal antibody (MAb) against single-stranded DNA made it possible to specifically identify the apoptotic cells. This procedure produced intense staining of the condensed chromatin in the apoptotic nuclei. In contrast, necrotic cells from cultures treated with sodium azide, saponin, or hyperthermia did not bind this antibody, demonstrating the specificity of the formamide-MAb assay for the apoptotic cells. However, TUNEL stained 90-100% of necrotic cells in all three models of necrosis. Because the MAb did not stain cells with single- or double-stranded DNA breaks in the absence of apoptosis, we conclude that staining of the apoptotic nuclei is not influenced by DNA breaks and is induced by specific changes in condensed chromatin, such as damage to the DNA-histone interactions. Importantly, the formamide-MAb technique identified apoptotic cells in frozen sections and in histological sections of formalin-fixed, paraffin-embedded tissues.

Animals↗
PubMedDate not supplied

Isolation and characterization of carbinolamide and phenolic glucuronide conjugates of (+-)-N-methyl-N-(1-methyl-3,3-diphenylpropyl) formamide and N-formylmethamphetamine by FAB/MS, LC/MS/MS, and NMR.

The metabolic disposition of (+-)-N-methyl-N-(1-methyl-3,3- diphenyl-propyl)formamide, especially with regard to the formation of water soluble glucuronides, is described. The glucuronide conjugates, (+-)-N-hydroxymethyl-N-(1-methyl-3,3-diphenylpropyl)formamide glucuronide, (+-)-N-methyl-N-[1-methyl-3-(4'-hydroxyphenyl)-3-phenylpropyl]formamide glucuronide, and (+-)-N-methyl-N-[1-methyl-3-(4'-hydroxy-3'-methoxyphenyl)-3- phenylpropyl]formamide glucuronide were isolated from the bile of rats dosed with the parent compound. These conjugates were characterized spectroscopically by 1H-NMR, FAB/MS, and LC/MS/MS. Because it is becoming more common to isolate the intact glucuronide conjugates of xenobiotics, we investigated some common mass spectral fragmentation patterns of these conjugates, especially by LC/MS/MS. The fragmentation patterns for each of the conjugates were obtained under MS/MS conditions and compared. Specifically, the fragmentation patterns of phenolic glucuronide and an aliphatic O-glucuronide, in particular a carbinolamide glucuronide, were investigated. The data obtained from these studies was used to predict the nature of glucuronide conjugates obtained from rats dosed with the formamide analog, N-formylmethamphetamine. This is the first spectroscopic characterization of an intact carbinolamide glucuronide conjugate isolated from the bile of rats.

Animals↗
PubMedDate not supplied

[Electron-microscopic study of the morphology of scaffold-like structures in chromosomes, formed by formamide].

Isolated human metaphase chromosomes treated with formamide and prepared for electron microscopy by protein monolayer technique have an appearance of loop-shaped chromatin fibers coming off the central scaffold-like structures, such chromosomes having approximately the same histone content as those before treatment. The morphology of scaffold-like structures at different formamide concentrations is described. It is shown that during formamide treatment the protein-protein and/or protein-DNA interactions are weakened because of disruption of hydrogen bonds. However, the intermolecular interactions in the chromosomes allow them to preserve their shape and size. The changes in the structure of formamide-treated chromosomes become readily visible after spreading on the hypophase surface. It is shown that after removal of formamide from the incubation solution by dialysis, chromosomes condense drastically. The data obtained are in good agreement with the loop model of chromosome organization. However they evidence also that the scaffold in the form of a rigid characteristic chromosome structure arises as a result of redistribution and/or aggregation of chromosomal proteins during chromosome preparation.

Cell Line↗
PubMed2002

Thermodynamics and micellar properties of tetradecyltrimethylammonium bromide in formamide-water mixtures.

The effect of formamide on the micellization of tetradecyltrimethylammonium bromide has been investigated by conductance and fluorescence probe experiments. The critical micelle concentration and the degree of counterion dissociation of micelles were obtained from conductance measurements in the temperature range of 20 to 40 degrees C. It was found that these two parameters increase with both temperature and formamide content in the solvent system. The thermodynamic parameters of micellization were estimated using the equilibrium model of micelle formation. The standard free energy of micellization was found to be negative in all cases and becomes less negative as the formamide content in the mixed solvent increases, but it is roughly independent of temperature. Although the entropic contribution was found to be larger than the enthalpy one, in particular at lower temperatures, an enthalpy-entropy compensation effect was observed for all systems. Micellar aggregation numbers were determined by the static quenching method, using pyrene as a probe and cetylpyridinium chloride as a quencher. The observed decrease in the micelle aggregation number, which is controlled by the increase in the surface area per headgroup, was attributed to an enhanced solvation in formamide rich solvent mixtures. Changes in the pyrene 1:3 ratio index, indicating a more polar environment, are consistent with an increased micellar solvation. Fluorescence polarization of both coumarin 6 and fluorescein are indicative of a decrease in microviscosity with cosolvent addition. The data on fluorescence anisotropy of coumarin 6 were analyzed using the wobbling in cone model. Data indicated the formation of micelles with a less ordered structure as the formamide increases in the solvent system.

Journal Article↗
PubMed2005

Vibrational relaxation of azide in formamide reverse micelles.

Static and ultrafast infrared spectroscopy have been used to measure absorption spectra and vibrational energy relaxation (VER) times for the antisymmetric stretching vibrational band of azide, N(3)(-), in formamide-containing reverse micelles (RMs). RMs were formed in n-heptane using the surfactant AOT, sodium bis(2-ethylhexyl) sulfosuccinate. The VER times were found to be significantly longer than in bulk formamide. The VER times became longer as the molar ratio of formamide to AOT, omega(F), was decreased. Decreasing omega(F) also resulted in substantial blue shifts of the azide static absorption band compared to the frequency in bulk formamide. The omega(F) dependent studies are consistent with expected size trends, where a larger RM results in more bulklike polar solvent and faster VER rates. These results are in contrast to aqueous AOT RMs where VER times were indistinguishable from those in the bulk and the static spectral shifts were much smaller. The differences between the static and dynamic behavior in aqueous and formamide RMs are related to differences in structural changes upon confinement in RMs.

Journal Article↗
PubMed2006

Computational study of structural and dynamical properties of formamide-water mixtures.

A molecular dynamics simulation study of structural and dynamical properties in liquid mixtures of formamide and water is presented. Site-site radial pair distribution functions, local mole fractions, pair energy distributions, and tetrahedral orientational order are the quantities analyzed to investigate the local structure in the simulated mixtures, along with a review of the intermolecular structure in terms of the distribution of hydrogen bonds. Our results indicate that there is a substitution of formamide molecules by water in the hydrogen bonds and a formation of a common hydrogen bond network. By analyzing the extent of tetrahedral order in the liquid as a function of composition, it is observed that whereas the tetrahedral network of liquid water is progressively lost by increasing the formamide concentration, the water structure within the first coordination shell is preserved and somewhat enhanced. The hydrogen-bond mean lifetimes were estimated by performing a time integration of the autocorrelation functions of bond occupation numbers. The lifetimes associated with hydrogen bonds between water, formamide, and interspecies pairs are found to increase with increasing formamide concentration. The lifetimes of the water hydrogen bonds show the largest variations, supporting the picture of an enhancement of the water structure among the nearest neighbors within the first coordination shell. We have used two different force field models for water, SPC/E [J. C. Berendsen et al., J. Phys. Chem. 91, 6269 (1987)] and TIP4P/2005 [J. L. F. Abascal and C. Vega, J. Chem. Phys. 123, 234505 (2005)]. Our results for structural and dynamical properties yield very small differences between those models, the TIP4P/2005 predicting a slightly more structured liquid and, consequently, exhibiting a slightly slower translational and librational dynamics.

Journal Article↗
PubMed2001

Urea substitutes toxic formamide as destabilizing agent in nucleic acid hybridizations with RNA probes.

Since their introduction some three decades ago, methods for hybridization analysis of nucleic acids immobilized on solid supports have evolved to improve the sensitivity, speed, and convenience of their application. However, in many cases these methods still require the use of solutions containing formamide, a recognized hazardous solvent with potential toxicity. Here, we have compared the efficiency of urea to that of formamide as denaturing agent in nucleic acid hybridization with RNA probes. We show that urea at concentrations of 2-4 molar in solution performs as good as 50% formamide to reduce heterologous background hybridization in Northern blotting experiments realized at 68 degrees C. Presence of urea at higher concentrations resulted in reduced hybridization sensitivity, possibly due to increased viscosity. When tested in Southern blot analysis of genomic DNA, our results revealed that the use of urea in hybridization solution is also suitable to carry out single-copy gene detection. Together, these findings show that urea can efficiently and safely replace formamide in solutions.

Animals↗
PubMed2004

Synthesis and degradation of nucleobases and nucleic acids by formamide in the presence of montmorillonites.

We describe the role of formamide, a product of the hydrolysis of hydrogen cyanide, as precursor of several components of nucleic acids under prebiotic conditions. When formamide is heated in the presence of montmorillonites, the efficient one-pot synthesis of purine, adenine, cytosine, and uracil is obtained. Along with these nucleobases, several components of the inosine pathway are obtained: 5-aminoimidazole-4-carboxamide, 5-formamidoimidazole-4-carboxamide and hypoxanthine. This almost complete catalogue of nucleic acid precursors is accompanied by N(9)-formylpurine, which, containing a masked glycosidic bond in its formyl moiety, is a plausible precursor of purine acyclonucleosides. In addition, montmorillonites differentially affect the rate of degradation of nucleobases when embedded in 2'-deoxyoligonucleotides; namely, montmorillonites protect adenine and guanine from the degradative action of formamide, while thymine degradation is enhanced. The oligonucleotide backbone reactivity to formamide is also affected; this shows that the interaction with montmorillonites modifies the rate of abstraction of the Halpha and Hbeta protons on the sugar moieties.

Bentonite↗
PubMed1981

Excitation-contraction uncoupling of striated muscle fibres by formamide treatment: evidence of detubulation.

A reportedly new technique of excitation-contraction uncoupling of frog skeletal muscle fibres was evaluated by low-frequency linear cable analysis and electron microscopy. Results indicate a similarity between the electrophysiological and ultrastructural effects of the formamide procedure and those obtained with conventional glycerol shock. Fibres in isolated frog sartorius muscles immersed in a frog Ringer's-formamide solution showed a rapid decline in twitch tension and a decrease in specific membrane capacitance, and disruption of the morphology of the transverse tubule system. These results are consistent with physical and electrical isolation of the transverse tubular network from the surface membrane of the muscle fibre ("detubulation"). However, reduction of twitch tension is marked in the formamide solution. Complete paralysis is only achieved following the return to normal Ringer's. Probably due to the greater membrane permeability of formamide, the technique requires less time and may be more reliable than the standard glycerol shock procedure.

Animals↗
PubMed1976

Prebiotic phosphorylation of nucleosides in formamide.

A possible prebiotic phosphorylation method has been investigated in which formamide served as the reaction medium. Nucleotides and nucleotide derivatives were formed when nucleosides were allowed to react with different orthophosphate, hydrogen phosphate or dihydrogen phosphate salts or with different condensed phosphate salts. The reaction products obtained from the phosphorylation of adenosine were 2'3' and 5'-AMPs, 2',5' and 3',5'-ADPs and 2',3'-cyclic AMP. The extent of phosphorylation in formamide exceeded 50% under favorable conditions after 15 days at 70 degrees. The acidic dihydrogen phosphates and condensed hydrogen phosphates proved to be the best phosphorylating agents. The presence of water in the medium decreased the yield of nucleotide derivatives, but some phosphorylation of adenosine was detected using dihydrogen phosphate in formamide containing water. The phosphorylation reactions were also observed for deoxynucleosides. Little decompression of the nucleosides was detected during the reaction time needed to form nucleotide derivatives. The facility with which phosphorylation takes place in formamide under very mild conditions may justify further studies both of prebiotic phosphorylation and synthetic phosphorylation using this solvent.

Adenine Nucleotides↗
PubMed1989

Use of formamide increases the number of detectable inputs to polyneuronally innervated mammalian skeletal muscle.

We evaluated the extent of polyneuronal innervation in neonatal rat lateral gastrocnemius muscle with intracellular recording techniques using both formamide and d-tubocurarine as paralytic agents. We detected more polyneuronal innervation during the first postnatal week using formamide than d-tubocurarine. Both the average number of inputs per muscle cell and the percentage of polyinnervated cells were greater when formamide, rather than d-tubocurarine, was used to diminish muscle contraction. The difference in the extent of polyneuronal innervation detected using the two methods declines during the first postnatal week and the number of inputs observed with formamide during the second postnatal week does not differ from that seen with d-tubocurarine.

Action Potentials↗
PubMed1983

Stability differences of muscle F-actin in formamide in the presence of Mg2+ and Ca2+.

Muscle G-actin was polymerized by addition of 2 mM Mg2+ or 2 mM Ca2+. Subsequent addition of formamide reduced the specific viscosity of the polymer solution. However, kinetic analysis of this reduction in the presence or absence of 0.1 M KCl revealed differences between F-actin formed in the presence of Mg2+ and F-actin formed in the presence of Ca2+. In the presence of Mg2+ the viscosity dropped instantaneously, reaching within minutes a steady-state level that was constant for many hours. In contrast, in the presence of Ca2+ the high-shear viscosity continued to decrease slowly after an initial drop, and it could take hours until a quasi-equilibrium was obtained. The time was dependent on both formamide and protein concentration. Addition of formamide increased the critical actin concentration in the presence of Ca2+, but not in the presence of Mg2+. This is taken as evidence that in the presence of Ca2+, but not in the presence of Mg2+, formamide causes partial depolymerization of F-actin.

Actins↗
PubMed2000

Structure of an oligonucleotide containing a N-(2-deoxy-beta-D-erythro-pentofuranosyl)formamide residue facing a guanine.

Formamide residue is a major oxidative DNA damage product from ionizing radiation on thymine residues in DNA. We report NMR and molecular modeling studies on a DNA duplex structure which contains guanine opposite formamide residue. Formamide residue exists as either the cis and trans isomer. For the trans and the cis isomers, we find that guanine and formamide are stacked inside the helix and are hydrogen bonded. The oligonucleotide adopts globally a B form structure for the two isomers. Conformational changes are observed between the two isomers.

Formamides↗
PubMed1997

Mechanism of degradation of 2'-deoxycytidine by formamide: implications for chemical DNA sequencing procedures.

We describe the reaction of formamide with 2'-deoxycytidine to give pyrimidine ring opening by nucleophilic addition on the electrophilic C(6) and C(4) positions. This information is confirmed by the analysis of the products of formamide attack on 2'-deoxycytidine, 5-methyl-2'-deoxycytidine, and 5-bromo-2'-deoxycytidine, residues when the latter are incorporated into oligonucleotides by DNA polymerase-driven polymerization and solid-phase phosphoramidite procedure. The increased sensitivity of 5-bromo-2'-deoxycytidine relative to that of 2'-deoxycytidine is pivotal for the improvement of the one-lane chemical DNA sequencing procedure based on the base-selective reaction of formamide with DNA. In many DNA sequencing cases it will in fact be possible to incorporate this base analogue into the DNA to be sequenced, thus providing a complete discrimination between its UV absorption signal and that of the thymidine residues. The wide spectrum of different sensitivities to formamide displayed by the 2'-deoxycytidine analogues solves, in the DNA single-lane chemical sequencing procedure, the possible source of errors due to low discrimination between C and T residues.

Bromodeoxycytidine↗
PubMed1992

A sequence element necessary for self-cleavage of the antigenomic hepatitis delta RNA in 20 M formamide.

The genomic and antigenomic RNAs of hepatitis delta virus are capable of self-cleavage and show no significant sequence similarities to other known self-cleaving RNAs. We have derived an antigenomic delta RNA which cleaves to completion in 15 s in 9 mM magnesium at 37 degrees C and is capable of efficient self-cleavage in concentrations of formamide as high as 20 M. Cleavage in high concentrations of denaturant is dependent upon the presence of a polypurine sequence element, GGAGA, located between 81 and 85 nucleotides downstream of the cleavage site. Mutation of the initial G81G82 to C81C82, or removal of the sequence element, results in a loss of the ability to cleave in high formamide concentrations. Changing the final U-2C-1 of a pyrimidine-rich region, UCUUC, just upstream of the cleavage site, to G-2G-1 severely affects the self-cleavage, but introducing the two mutations, GG to CC and UC to GG, into the same molecule, restoring potential base pairing, partially restores the formamide stability. Relocating the GGAGA sequence upstream of the cleavage site also results in partial restoration of the formamide cleavage. Although the GGAGA sequence is important for self-cleavage under denaturing conditions, it does not appear to be necessary for HDV RNA cleavage in normal buffer conditions.

Base Sequence↗