Hcn and Hnc in Comets C/2000 Wm1 (Linear) and C/2002 C1 (Ikeya-Zhang)

Comets have been suggested as a possibly significant source of organic molecules to the early Earth. Hydrogen cyanide (HCN) is important in models of prebiotic chemistry, but may be difficult to form in the early terrestrial environment, while hydrogen isocyanide (HNC) is a `classical' tracer of interstellar ion-molecule chemistry. We have observed both HCN and HNC in 2 recent comets, bringing the number of comets with published measurements of the HNC/HCN abundance ratio to 6. The HNC/HCN ratio in comet Ikeya-Zhang appears to increase with decreasing heliocentric distance, as was previously observed for comet Hale-Bopp, indicating that the HNC is produced at least in part by processes in the cometary coma (atmosphere) and is not simply a constituent of the nuclear ices. Both comets C/2000 WM1 (Linear) and C/2002 C1 (Ikeya-Zhang) exhibit values of the HNC/HCN ratio that appear to be too large (0.09–0.19) tobe matched by current models of coma chemistry. Cometary HNC maybe a photodissociation product of organic grains or large organic polymers stored in the nucleus. We have also set a limit on the emission from the NO radical in comet WM1.     

Interstellar dust,chirality, comets and the origins of life: Life from dead stars?

The physical, chemical and astrophysical processes by which chiral prebiotic molecules can be produced in interstellar dust and later delivered safely to the earth are considered. A laboratory analog experiment on the irradiation by circularly polarized UV light of mirror image molecules at the low temperatures of interstellar dust demonstrates that a substantial degree of chirality can be produced by irradiation of the dust by circularly polarized light from pulsars whose mean brightness and distribution in the Milky Way provide the energetic photons. The chirality is then preserved by cold aggregation of the dust into low density fragile nuclei. The thermal evolution of comets following them from birth through billions of years in the Oort cloud and back to the inner solar system results in preservation of dust organics in largely pristine form — even including effects of radiogenic heating. Physical justification for the cushioned transfer of fragments of the fluffy comets impacting the earth's atmosphere provides a conceptual basis for depositing significant concentrations of interstellar prebiotic molecules. Chiral amplification in water on the earth is presumed to be enhanced by this local concentration. If chiral molecules are discovered in comet nucleus material which will some day be returned to the laboratory, we may have in our hands the same building blocks from which we evolved.     

Prebiotic materials from on and off the early Earth

One of the greatest puzzles of all time is how did life arise? It has been universally presumed that life arose in a soup rich in carbon compounds, but from where did these organic molecules come? In this article, I will review proposed terrestrial sources of prebiotic organic molecules, such as Miller-Urey synthesis (including how they would depend on the oxidation state of the atmosphere) and hydrothermal vents and also input from space. While the former is perhaps better known and more commonly taught in school, we now know that comet and asteroid dust deliver tons of organics to the Earth every day, therefore this flux of reduced carbon from space probably also played a role in making the Earth habitable. We will compare and contrast the types and abundances of organics from on and off the Earth given standard assumptions. Perhaps each process provided specific compounds (amino acids, sugars, amphiphiles) that were directly related to the origin or early evolution of life. In any case, whether planetary, nebular or interstellar, we will consider how one might attempt to distinguish between abiotic organic molecules from actual signs of life as part of a robotic search for life in the Solar System.     

Extraterrestrial Organic Matter: A review

We review the nature of the widespread organic material present in the Milky Way Galaxy and in the Solar System. Attention is given to the links between these environments and between primitive Solar System objects and the early Earth, indicating the preservation of organic material as an interstellar cloud collapsed to form the Solar System and as the Earth accreted such material from asteroids, comets and interplanetary dust particles. In the interstellar medium of the Milky Way Galaxy more than 100 molecular species, the bulk of them organic, have been securely identified, primarily through spectroscopy at the highest radio frequencies. There is considerable evidence for significantly heavier organic molecules, particularly polycyclic aromatics, although precise identification of individual species has not yet been obtained. The so-called diffuse interstellar bands are probably important in this context. The low temperature kinetics in interstellar clouds leads to very large isotopic fractionation, particularly for hydrogen, and this signature is present in organic components preserved in carbonaceous chondritic meteorites. Outer belt asteroids are the probable parent bodies of the carbonaceous chondrites, which may contain as much as 5% organic material, including a rich variety of amino acids, purines, pyrimidines, and other species of potential prebiotic interest. Richer in volatiles and hence less thermally processed are the comets, whose organic matter is abundant and poorly characterized. Cometary volatiles, observed after sublimation into the coma, include many species also present in the interstellar medium. There is evidence that most of the Earth's volatiles may have been supplied by a late bombardment of comets and carbonaceous meteorites, scattered into the inner Solar System following the formation of the giant planets. How much in the way of intact organic molecules of potential prebiotic interest survived delivery to the Earth has become an increasingly debated topic over the last several years. The principal source for such intact organics was probably accretion of interplanetary dust particles of cometary origin.     

Chemical evolution in space

The bulk of complex molecules in the space between the stars is probably contained in small frozen interstellar dust grains. A typical grain is about as old as the earth and has, as a result of photochemical processing, converted a large fraction of its oxygen, carbon and nitrogen bearing mantle into large organic molecules whose maximum molecular weights are limited only by the grain size of about 0.1 m. Laboratory and theoretical methods provide the basis for explaining the evolution of interstellar grains from the time they are formed as seedlings in the atmospheres of cool evolved stars to the time they are destroyed by being incorporated into the material of new stars. The organic dust constitutes about one tenth of a percent of the total mass of the Milky Way and far outweighs any estimates of the total mass of all the planets. A planet like the earth is continually and directly accreting interstellar dust from space. Primitive carbonaceous meteorites show evidence of containing interstellar dust. Since comets are possibly almost pure aggregated interstellar dust they also provide a source of interstellar organic material on the earth.     

Comet assay using mullet (Mugil sp.) and sea catfish (Netuma sp.) erythrocytes for the detection of genotoxic pollutants in aquatic environment

The development of comet assay for aquatic organisms is of particular relevance in light of the importance of coastal fisheries to several countries around the world. Two of the most common fish species native to southern Brazil are the gray mullet (Mugil sp.) and sea catfish (Netuma sp.) for which we have produced a standardized comet assay using whole erythrocytes taken from samples of these fish. We investigated the potential of the comet assay for monitoring genotoxicity in mullet and sea catfish and made a preliminary investigation of the baseline levels of DNA damage in the erythrocytes of samples of these fish from non-polluted areas as well as assessing the in vitro sensitivity of erythrocyte exposed to 2, 4 and 8 x 10(-5) M of methyl methanesulfonate (MMS) for 1, 2, 6 and 24h at 25 and 37 degrees C. Our results show that there was an increase in baseline DNA damage at higher temperatures and that the amount of MMS-induced DNA damage also increased at higher temperatures and that there was a clear dose/time response to treatment with MMS. To assess the possibility of using fish for environmental biomonitoring we also used the comet assay to investigate the in vitro genotoxic effect of MMS on whole blood cells from human donors and found a clear concentration-related effect at all exposure times, findings which agree with those of other workers. This study demonstrates the potential application of the comet assay to erythrocytes of mullets and sea catfish. However, these findings also suggest that temperature could alter both baseline DNA damage in untreated animals and in vitro cell sensitivity towards genotoxic pollutants.     

Cometary supply of terrestrial organics: Lessons from the K/T and the present epoch

The time-scales of import with respect to the physical survival of planet-crossing bodies (asteroids, comets, meteoroids, dust) in the inner solar system are considered, and characteristic times for different masses reviewed. These physical lifetimes range from 10³–10⁵ yr for dust (masses 10^–12–10^–6 g), and 10⁵–10⁶ yr for small meteoroids (masses 10^–6–1 g), to 10⁷–10⁸ yr for larger bodies; bodies with aphelion distance 4 AU may have dynamical lifetimes lower than these figures due to ejection from the solar system by Jupiter. Values of terrestrial impact velocities and probabilities are given for characteristic orbits of long- and short-period comets, Earth-crossing asteroids, and near-Earth dust. Zodiacal dust particles, which are predominantly in near-circular, low-inclination orbits, have sufficiently low arrival velocities ( 20 km sec^–1) at the Earth to make organic survival plausible. Alternatively larger objects with short periods, perihelia near 1 AU, and i20°, will also impact at < 20 km sec^–1, but their impact probabilities are smaller. This argues for organic delivery predominantly from dust rather than directly through meteoroids, asteroids or comets. Such dust may have delivered the amino acids deposited over at most 10⁵ yr at the K/T boundary: this is also the appropriate time-scale for the hierarchical disintegration of a giant comet and its daughter products, and the accumulation by the Earth of the dust produced, but is too short for deposition by discrete large bodies produced in the disintegration of a large comet. This supports the conjecture that some organics arrived in the first 10⁹ yr of the planet's history as constituents of cometary dust gently decelerated in the atmosphere, allowing survival to the surface.     

The origin of life on Earth

Terrestrial life can be schematically described as organic molecules organized in liquid water. According to Oparin's hypothesis, organic building blocks required for early life were produced from simple organic molecules formed in a primitive reducing atmosphere. Precursors of lipids, nucleic acids and enzymes obtained in the laboratory under simulating conditions are reviewed. Geochemists favor now a less reducing atmosphere dominated by carbon dioxide. In such an atmosphere, very few building blocks are formed under prebiotic conditions. Import of extraterrestrial organic molecules may represent an alternative supply. Experimental support for such an alternative scenario is examined in comets, cosmic dust, meteorites and micrometeorites. Even the prebiotic broth receives today severe criticism for being implausible. In contrast to the classical scenario, a chemoautotrophic origin of life is discussed. Finally, interesting information related to early terrestrial life may be gained from Mars exploration.     

Water structural changes in the L and M photocycle intermediates of bacteriorhodopsin as revealed by time-resolved step-scan Fourier transform infrared (FTIR) spectroscopy

In previous Fourier transform infrared (FTIR) studies of the photocycle intermediates of bacteriorhodopsin at cryogenic temperatures, water molecules were observed in the L intermediate, in the region surrounded by protein residues between the Schiff base and Asp96. In the M intermediate, the water molecules had moved away toward the Phe219-Thr46 region. To evaluate the relevance of this scheme at room temperature, time-resolved FTIR difference spectra of bacteriorhodopsin, including the water O-H stretching vibration frequency regions, were recorded in the micro- and millisecond time ranges. Vibrational changes of weakly hydrogen-bonded water molecules were observed in L, M, and N. In each of these intermediates, the depletion of a water O-H stretching vibration at 3645 cm-1, originating from the initial unphotolyzed bacteriorhodopsin, was observed as a trough in the difference spectrum. This vibration is due to the dangling O-H group of a water molecule, which interacts with Asp85, and its absence in each of these intermediates indicates that there is perturbation of this O-H group. The formation of M is accompanied by the appearance of water O-H stretching vibrations at 3670 and 3657 cm-1, the latter of which persists to N. The 3670 cm-1 band of M is due to water molecules present in the region surrounded by Thr46, Asp96, and Phe219. The formation of L at 298 K is accompanied by the perturbations of Asp96 and the Schiff base, although in different ways from what is observed at 170 K. Changes in a broad water vibrational feature, centered around 3610 cm-1, are kinetically correlated with the L-M transition. These results imply that, even at room temperature, water molecules interact with Asp96 and the Schiff base in L, although with a less rigid structure than at cryogenic temperatures.     

Organic dust-induced activation, adhesion to substrate and expression of intercellular adhesion molecules in THP-1 monocytes

Inhalation of organic dust in a swine confinement building induces systemic reactions, increased bronchial responsiveness and intense airway inflammation in previously unexposed, healthy subjects. These effects are self-limiting, but chronic respiratory symptoms are frequently observed in swine confinement workers. The present study was aimed at investigating organic dust-induced activation of the monocytic leukemia cell line, THP-1. Unstimulated THP-1 cells proliferate in suspension but cultivation for several days in medium with complete dust or 0.22-mu-filtered suspension, caused a subset of the THP-1 cells to adhere to the substratum. As assessed by transmission light- and indirect immunofluorescence microscopy, dust-stimulated adherent THP-1 cells adopted macrophage-like morphology and expressed vimentin. Intercellular adhesion molecule (ICAM)-1 was expressed in all dust-activated adherent cells, but only in 1% of the unstimulated cells in suspension. Sialoadhesin, a macrophage marker, was detected in dust-stimulated adherent THP-1 cells but not in the parental monocytes. Serum factors were required for the dust-induced expression of sialoadhesin, but not for adhesion to substrate or expression of ICAM-1. In addition, morphology and expression of vascular endothelial growth factor (VEGF) of dust-stimulated adherent cells equalled that of PMA-differentiated THP-1 cells, but the PMA-differentiated cells exhibited weak sialoadhesin labelling. In conclusion, exposure to organic dust from a swine confinement building activated a subset of THP-1 monocytes inducing expression of intercellular adhesion molecules, which are important in inflammation. The sustained adhesion to substrate indicates that organic dust from a swine confinement building may contain agents that prevent deactivation and detachment of the cells.     

Fluidity of bacterial membrane lipids monitored by intramolecular excimerization of 1.3-di(2-pyrenyl)propane

Intramolecular excimer formation of 1,3-di(2-pyrenyl)propane was used to study the fluidity of liposomes prepared from membrane polar lipids of Bacillus stearothermophilus. On the basis of spectral data, local polarity and polarizability parameters were established suggesting that the probe molecules are located well inside the membranes, but displaced towards the polar head groups of the phospholipid molecules. The excimerization rate is very sensitive to lipid phase transitions and pretransitions of synthetic pure lipid bilayers. In bacterial lipids from cultures grown at 55 and 68 degrees C, thermal profiles of excimer to monomer intensity ratios (I'/I) show a broad transition which is displaced to higher temperatures in response to the increase of the growth temperature; these results correlate well with differential scanning calorimetry data and fluorescence polarization of diphenylhexatriene. Additionally, lipid bilayers of bacteria grown at 68 degrees C exhibit a decreased membrane fluidity, as monitored by both fluorescent probes.     

Modification of membrane lipid: physical properties in relation to fatty acid structure.

Differential scanning calorimetry (DSC) and electron spin resonance (ESR) measurements were made to characterize how modifications in the fatty acid composition of Escherichia coli affected the thermotropic phase transition(s) of the membrane lipd. When the fatty acid composition contained between 20 and 60% saturated fatty acids, the DSC curves for isolated phospholipids and cytoplasmic membranes showed a broad (15-25 degree C) gel to liquid-crystalline phase transition, the position of which depended on the particular fatty acid composition. Utilizing multiple lipid mutants, enrichment of the membrane phospholipids with a single long-chain cis-monoenoic fatty acid in excess of that possible in a fatty acid levels less than 20% and gradually replaced the broad peak as the cis-monoenoic fatty acid content increased. These results were obtained with phospholipids, cytoplasmic membranes, and whole cells. With these same phopholipids, plots of 2,2,6,6-tetramethylpiperidinyl-1-oxy partitioning and ESR order parameters vs. 1/T revealed discontinuities at temperatures 40-60 degrees C above the calorimetrica-ly measured gel to liquid-crystalline phase transitions. Moreover, when the membrane phospholipids were enriched with certain combinations of cis-monenoic fatty acids (e.g., cis-delta 9-16:1 plus cis-delta 11-18:1) the DSC curve showed a broad gel to liquid crystalline phase change below 0 degrees C but the ESR studies revealed no discontinuities at temperatures above those of the gel to liquid-crystalline transition. These results demonstrated that enrichment of the membrane lipids with molecules in which both fatty acyl chains are identical cis-monoenoic residues led to a distinct type of liquid-crystalline phase. Furthermore, a general conclusion from this study is that Escherichia coli normally maintains a heterogeneous mixture of lipid molecules and, by so doing, prevents strong lipid-lipid associations that lead to the formation of lipid domains in the membrane.     

Dissecting chill coma recovery as a measure of cold resistance: evidence for a biphasic response in Drosophila melanogaster

Cold resistance in insects has traditionally been measured in terms of survival following a stress, but alternative methods are increasingly being used because of their relevance to the ecology of organisms and their utility in characterizing variation among species, populations and individuals. One such method capable of discriminating among Drosophila species and conspecific Drosophila populations from different environments is adult chill coma recovery time, the time taken for adults to become active again after being knocked down by a cold stress. Here we characterized the chill coma response of D.melanogaster in detail. Adults were exposed to a range of temperatures and stressful periods prior to measuring recovery. Recovery from chill coma in D.melanogaster was biphasic; as flies were stressed under cooler temperatures, recovery times leveled off and then decreased before sharply increasing again as mortality starts to occur. This biphasic response has previously been observed in D.subobscura where it has a somewhat different shape. A second mechanism therefore acts at relatively lower temperatures to ameliorate the effects of the cold stress. When D.melanogaster were reared at 19 and 25 °C for two generations, the shape of the curve relating temperature to recovery time was similar, but flies from the warmer temperature had longer recovery times and showed responses that leveled off and then decreased at relatively higher temperatures. As exposure time to cold stress was increased, recovery times also increased except at mild stress levels. Chill coma recovery in D.melanogaster is a complex trait and likely to reflect multiple underlying components.     

Chemical form of selenium differentially influences DNA repair pathways following exposure to lead nitrate

Lead, an environmental toxin is known to induce a broad range of physiological and biochemical dysfunctions in humans through a number of mechanisms including the deactivation of antioxidants thus leading to generation of reactive oxygen species (ROS) and subsequent DNA damage. Selenium on the other hand has been proven to play an important role in the protection of cells from free radical damage and oxidative stress, though its effects are thought to be form and dose dependent. As the liver is the primary organ required for metabolite detoxification, HepG2 cells were chosen to assess the protective effects of various selenium compounds following exposure to the genotoxic agent lead nitrate. Initially DNA damage was quantified using a comet assay, gene expression patterns associated with DNA damage and signalling were also examined using PCR arrays and the biological pathways which were most significantly affected by selenium were identified.Interestingly, the organic type selenium compounds (selenium yeast and selenomethionine) conferred protection against lead induced DNA damage in HepG2 cells; this is evident by reduction in the quantity of DNA present in the comet tail of cells cultured in their presence with lead. This trend also followed through the gene expression changes noted in DNA damage pathways analysed. These results were in contrast with those of inorganic sodium selenite which promoted lead induced DNA damage evident in both the comet assay results and the gene expression analysis. Over all this study provided valuable insights into the effects which various selenium compounds had on the DNA damage and signalling pathway indicating the potential for using organic forms of selenium such as selenium enriched yeast to protect against DNA damaging agents.     

RNA-catalyzed carbon-carbon bond formation.

RNA molecules with catalytic properties have been isolated by in vitro selection from combinatorial libraries. A broad range of chemical reactions can be catalyzed, and nucleic acids can accelerate bond formation between small organic substrates. The catalytic performance of nucleic acids can be enhanced by incorporation of additional functional groups. This minireview focuses on carbon-carbon bond formation accelerated by in vitro selected ribozymes.     

Molecular parity violation via comets?

Recent theoretical and experimental investigations referring to the origin of homochirality are reviewed and integrated into the hitherto known state of the art. Attention is directed to an extraterrestrial scenario, which describes the interaction of circularly polarized synchrotron radiation with interstellar organic matter. Following this Bonner‐Rubenstein hypothesis, optically active molecules could be transferred to Earth via comets. We plan to identify any enantiomeric enhancement in organic molecules of the cometary matter in situ. The present preliminary experimental study intends to optimize gas‐chromatographic conditions for the separation of racemates into their enantiomer constituents on the surface of the comet 46P/Wirtanen. Underivatized racemic pairs of alcohols, diols, and phenyl‐substituted amines have been separated with the help of a stationary trifluoroacetyl‐cyclodextrin phase. We are still developing a technique that will enable us to detect any enantiomeric enhancement of specific simple organic molecules both in cometary or Martian matter in situ and in meteorites found on Earth. Chirality 11:575–582, 1999. © 1999 Wiley‐Liss, Inc.     

Fever and leukocytosis responses in goats to inhaled endotoxin are dose-dependent

Forty-five, weanling goats of mixed-sex, were randomly allotted to five treatment groups: no dust (n = 16), raw organic dust exposure for 15 min (n = 6), raw organic dust exposure for 1 h (n = 7), raw organic dust exposure for 3 h (n = 7), and raw organic dust exposure for 4 h (n = 9). Inhalation exposures were performed in a closed tent for the allotted times. The amount of endotoxin calculated to be in the dust was shown to be 26.9 μg/g. The amounts of dust introduced into the tent for each time period were 4.58 g/m³ of air for 15 min; 7.46 g/m³ of air for 1 h; 14.82 g/m³ of air for 3 h; and 40.60 g/m³ of air for 4 h. There was a significant increase in the white blood cell count in the animals dusted for 4 h, at 8 and 12 h following exposure. There was a significant decrease in the peripheral lymphocyte cell count following the 15 min exposure at 12 h post exposure, and there was a significant increase in the peripheral lymphocyte cell count following the 4 h exposure, 24 h after the exposure. There was a significant increase in the neutrophil cell count 8 and 12 h following the 4 h exposure, while there was a significant decrease in the neutrophil cell count 48 h following the 4 h exposure. There was a significant increase in the rectal temperatures of all goats receiving the 4 h dust exposure at all time periods (0 time, 4, 12, 24, and 48 h). There was a significant increase in the rectal temperatures of goats following the 1 h exposure, 8 h later. These results indicate that the larger the dose of inhaled endotoxin, the higher the resultant fever and leukocytosis.     

Mechanism of lipid bilayer perturbation by bactericidal membrane-active small molecules

Membrane-active small molecules (MASMs) are small organic molecules designed to reproduce the fundamental physicochemical properties of natural antimicrobial peptides: their cationic charge and amphiphilic character. This class of compounds has a promising broad range of antimicrobial activity and, at the same time, solves some major limitations of the peptides, such as their high production costs and low in vivo stability. Most cationic antimicrobial peptides act by accumulating on the surface of bacterial membranes and causing the formation of defects when a threshold is reached. Due to the drastically different structures of the two classes of molecules, it is not obvious that small-molecule antimicrobials act in the same way as natural peptides, and very few data are available on this aspect. Here we combined spectroscopic studies and molecular dynamics simulations to characterize the mechanism of action of two different MASMs. Our results show that, notwithstanding their simple structure, these molecules act just like antimicrobial peptides. They bind to the membrane surface, below the head-groups, and insert their apolar moieties in the core of the bilayer. Like many natural peptides, they cause the formation of defects when they reach a high coverage of the membrane surface. In addition, they cause membrane aggregation, and this property could contribute to their antimicrobial activity.     

Artificial ribozymes and deoxyribozymes.

RNA and DNA molecules with catalytic properties have been isolated by in vitro selection from combinatorial nucleic acid libraries. A broad range of chemical reactions is catalyzed and nucleic acids can accelerate bond formation between small organic substrates. The catalytic performance of nucleic acids can be enhanced by the incorporation of additional functional groups.