Interaction of hopanoids with phosphatidylcholines containing oleic and omega-cyclohexyldodecanoic acid in lipid bilayer membranes

Paleomicrobiology: a Snapshot of Ancient Microbes and Approaches to Forensic Microbiology

Paleomicrobiology, or the study of ancient microorganisms, has raised both fascination and skepticism for many years. While paleomicrobiology is not a recent field, the application of emerging techniques, such as DNA sequencing, is proving essential and has provided novel information regarding the evolution of viruses, antibiotic resistance, saprophytes, and pathogens, as well as ancient health and disease status, cultural customs, ethnic diets, and historical events. In this review, we highlight the importance of studying ancient microbial DNA, its contributions to current knowledge, and the role that forensic paleomicrobiology has played in deciphering historical enigmas. We also discuss the emerging techniques used to study the microbial composition of ancient samples as well as major concerns that accompany ancient DNA analyses.

Effect of Ring Size in ω-Alicyclic Fatty Acids on the Structural and Dynamical Properties Associated with Fluidity in Lipid Bilayers

Fatty acids containing a terminal cyclic group such as cyclohexyl and cycloheptyl are commonly found in prokaryotic membranes, especially in those of thermo-acidophilic bacteria. These so-called ω-alicyclic fatty acids have been proposed to stabilize the membranes of bacteria by reducing the fluidity in membranes and increasing lipid packing and lipid chain order. In this article, molecular dynamics simulations are used to examine the effect of 3- to 7-membered cycloalkyl saturated and unsaturated (cyclopent-2-enyl and phenyl) rings in ω-alicyclic fatty acyl chains on the structure (lipid packing, lipid chain order, and fraction of gauche defects in the chains) and dynamics (lateral lipid diffusion) of a model lipid bilayer. It was found that ω-alicyclic chains in which the ring was saturated reduced lipid condensation and lowered chain order which would be associated with enhanced fluidity. However, this effect was limited. The lateral diffusion of the lipids diminished as the ring size increased. In particular, ω-cyclohexyl and ω-cycloheptyl acyl tails led to a decrease in lipid diffusion. In contrast, ω-alicyclic acyl chains that contain an unsaturated ring promoted membrane fluidity both in terms of changes in membrane structure and lipid diffusion. This may indicate that saturated and unsaturated terminal rings in ω-alicyclic fatty acids fulfill alternative functions within membranes. Overall, the simulations suggest that ω-alicyclic fatty acids in which the terminal ring is saturated might protect the membrane of thermo-acidophilic bacteria from high-temperature and low-pH conditions through a "dynamical barrier" that would limit lipid diffusion and transmembrane diffusion of undesired ions and molecules.

Hopanoids play a role in membrane integrity and pH homeostasis in Rhodopseudomonas palustris TIE-1

Sedimentary hopanes are pentacyclic triterpenoids that serve as biomarker proxies for bacteria and certain bacterial metabolisms, such as oxygenic photosynthesis and aerobic methanotrophy. Their parent molecules, the bacteriohopanepolyols (BHPs), have been hypothesized to be the bacterial equivalent of sterols. However, the actual function of BHPs in bacterial cells is poorly understood. Here, we report the physiological study of a mutant in Rhodopseudomonas palustris TIE-1 that is unable to produce any hopanoids. The deletion of the gene encoding the squalene-hopene cyclase protein (Shc), which cyclizes squalene to the basic hopene structure, resulted in a strain that no longer produced any polycyclic triterpenoids. This strain was able to grow chemoheterotrophically, photoheterotrophically, and photoautotrophically, demonstrating that hopanoids are not required for growth under normal conditions. A severe growth defect, as well as significant morphological damage, was observed when cells were grown under acidic and alkaline conditions. Although minimal changes in shc transcript expression were observed under certain conditions of pH shock, the total amount of hopanoid production was unaffected; however, the abundance of methylated hopanoids significantly increased. This suggests that hopanoids may play an indirect role in pH homeostasis, with certain hopanoid derivatives being of particular importance.

Cloning, expression, and sequencing of squalene-hopene cyclase, a key enzyme in triterpenoid metabolism

The pentacyclic hopanoids, a class of eubacterial lipids, are synthesized by squalene-hopene cyclase and side chain-elongating enzymes. With the aid of DNA probes based on the amino-terminal sequence of purified squalene-hopene cyclase from Bacillus acidocaldarius, clones of Escherichia coli that express this enzyme in the cytoplasmic membrane were isolated. According to the DNA sequence, the cyclase contained 627 amino acids with a molecular mass of 69,473 Da. A high percentage of the amino acids were basic. No significant similarity to existing sequenced proteins was found.

Cytotoxicity of bacteriohopane-32-ol against mouse leukemia L1210 and P388 cells in vitro

To investigate the biological activities of the hopane group of pentacyclic triterpenoids, we isolated one hopanoid, bacteriohopane-32-ol from Rhodopseudomonas palustris and tested its cytotoxicity against mouse leukemia cells in vitro. The IC50 of the hopanoid for L1210 and P388 was 22 and 19 microM respectively. This activity was slightly reduced by co-incubation with cholesterol. As the mechanism of cytotoxic action, disturbances of membrane function and metabolism are discussed.

The effect of hydrostatic pressure on the bilayer structure of phosphatidylcholines containing omega-cyclohexyl fatty acyl chains

The barotropic behavior of aqueous dispersions of two representative omega-cyclohexyl phosphatidylcholines was investigated by pressure-tuning Fourier transform infrared spectroscopy. In the even-numbered homologue, 1,2-di-14-cyclohexyltetradecanoyl-sn-glycero-3-phosphocholine (14cyPC), the lipid molecules are orientationally disordered until the applied pressure reaches 2.1 kbar. This pressure marks the onset of correlation field splitting of the scissoring and rocking modes of the linear chain methylenes, as well as that of the cyclohexyl ring methylenes. It indicates immobilization of the entire acyl chains, whereby the zig-zag planes of the neighboring straight chain all-trans methylenes are oriented mainly perpendicular to each other. As judged from the magnitude of the correlation field splittings, the interchain interaction is weaker in 14cyPC than that in linear lipids (e.g., DMPC or DPPC). Upon an increase in pressure, up to 20 kbar, the zig-zag methylene planes in 14cyPC undergo a gradual transformation to a parallel orientation. In the odd-numbered homologue, 1,2-di-13-cyclohexyltridecanoyl-sn-glycero-3-phosphocholine (13cyPC), there is no correlation field splitting originating from the straight chain methylenes (up to 21 kbar). The linear, nonbranched segments of the omega-cyclohexyl chains in 13cyPC are closely packed with the all-trans methylene zig-zag planes oriented parallel to each other. There is, however, correlation field splitting of the ring methylenes, indicating interring interactions between the bulky cyclohexyl rings in opposing bilayer leaflets. There are major structural differences between the even- and odd-numbered homologues in the interfacial region, which remain even at high pressures. The ester carbonyl C = O stretching band in 14cyPC is a composite of two discrete bands which do not change considerably in intensity or frequency in the pressure range 2-20 kbar. In contrast, 13cyPC possesses an additional, low-frequency C = O stretching component at low pressures. As the pressure increases, the three component bands coalesce into a single C = O stretching band. Our results suggest equally oriented, fully hydrogen-bonded carbonyl groups in 13cyPC at pressures above approx. 10 kbar.

Thermotropic phase behavior of phosphatidylcholines with omega-tertiary-butyl fatty acyl chains

The thermotropic phase behavior of a homologous series of phosphatidylcholines containing acyl chains with omega-tertiary butyl groups was studied by differential scanning calorimetry, Fourier transform infrared spectroscopy, and 31P-nuclear magnetic resonance spectroscopy (31P-NMR). Upon heating, aqueous dispersions of these lipids exhibit single transitions which have been identified as direct conversions from Lc-like gel phases to the liquid-crystalline state by both infrared and 31P-NMR spectroscopy. The calorimetric data indicate that the thermodynamic properties of the observed transition are strongly dependent upon whether the acyl chains contain an odd- or an even-number of carbon atoms. This property is manifest by a pronounced odd/even alternation in the transition temperatures and transition enthalpies of this homologous series of lipids, attributable to the fact that the odd-numbered compounds form gel phases that are more stable than those of their even-numbered counterparts. The spectroscopic data also suggest that unlike other lipids which exhibit the so-called odd/even effect, major odd/even discontinuities in the packing of the polymethylene chains are probably not the dominant factors responsible for the odd/even discontinuities exhibited by these lipids, because only subtle differences in the appropriate spectroscopic parameters were detected. Instead, the odd/even alternation in the physical properties of these lipids may be attributable to significant differences in the organization of the carbonyl ester interfacial regions of the lipid bilayer and to differences in the intermolecular interactions between the terminal t-butyl groups of the odd- and even-numbered homologues. Our results also suggest that the presence of the bulky t-butyl groups in the center of the lipid bilayer reduces the conformational disorder of the liquid-crystalline polymethylene chains, and promotes the formation of Lc-like gel phases. However, these Lc-like gel phases are considerably less ordered than those formed by saturated, straight-chain lipids.

An infrared spectroscopic study of the thermotropic phase behavior of phosphatidylcholines containing omega-cyclohexyl fatty acyl chains

The thermotropic phase behavior of an odd- and an even-numbered member of the homologous series of 1,2-di-omega-cyclohexylphosphatidylcholines was studied using Fourier transform infrared spectroscopy. The results obtained indicate that the pronounced discontinuities in the behavior of the odd- and even-numbered homologues observed by differential scanning calorimetry can be attributed to differences in the organization of their respective gel states. The single phase transition exhibited by the odd-numbered compounds upon heating is shown by infrared spectroscopy to be a direct transition from a condensed, subgel-like phase (Lc phase) to the liquid-crystalline state (L alpha phase). In contrast, the multiple transitions exhibited by the even-numbered homologues are shown to be due to the initial conversion of an L beta-like phase to a more loosely packed gel phase, followed by the acyl chain-melting transition. Moreover, the major changes in the interaction between the acyl chains, and in the organization of the interfacial region of the bilayers formed by the even-numbered homologue, occur at temperatures below that of the onset of the chain-melting phase transition. The infrared spectroscopic changes observed also suggest that above the chain-melting transition, the odd- and even-numbered homologues form similar liquid-crystalline phases that are more 'ordered' than those of normal saturated straight-chain phosphatidylcholines. Most likely this is because the large size and the intrinsic rigidity of the omega-cyclohexyl group reduces the conformational disorder of the liquid-crystalline state by 'dampening' all acyl chain motions. The formation of a relatively ordered liquid-crystalline state may be the critical property exploited by the thermoacidophylic organisms in which omega-cyclohexyl fatty acids naturally occur.

Effect of ionizing radiation on artificial (planar) lipid membranes. II. The ion carriers valinomycin and nonactin as probes for radiation induced structural changes of the membrane

Planar lipid membranes in the presence of the ion carriers valinomycin or nonactin were irradiated with 14 MeV electrons from a linear accelerator. A large increase of the membrane conductance by up to more than two orders of magnitude was found. The effect is virtually abolished either at high pH, or in the absence of oxygen, or in the presence of the radical scavenger ethanol. A further prerequisite for the effect is the presence of unsaturated fatty acid residues. A kinetic analysis of the carrier transport model based on current-voltage curves and on voltage-jump relaxation experiments was performed as a function of radiation dose. Only the translocation rate constant, kMS, of the charged carrier-ion complex was found to be influenced by irradiation. The effect is interpreted as an increase of the polarity (dielectric constant) of the membrane interior induced by the presence of polar products of lipid peroxidation. A combined action of OH- and HO2-radicals seems to be responsible for the phenomena. At large radiation doses (greater than or equal to 10(3) Gy) a reduction of the membrane conductance was observed. This is interpreted as an increased microviscosity, possibly caused by cross-linking of fatty acid residues. Ion carriers represent sensitive probes of radiation induced membrane damage.

Effects of hydrostatic pressure on lipid bilayer membranes. I. Influence on membrane thickness and activation volumes of lipophilic ion transport

Measurements of membrane capacitance, Cm, were performed on lipid bilayers of different lipidic composition (diphytanoyl phosphatidylcholine PPhPC, dioleoyl phosphatidylcholine DOPE, glycerylmonooleate GMO) and containing n-decane as solvent. In the same membranes, the absorption of the lipophilic ions dipicrylamine (DPA-) and tetraphenylborate (TPhB-), and the kinetics of their translocation between the two membrane faces have been studied. The data were obtained from charge pulse relaxation measurements. Upon increasing pressure the specific capacity Cm increased in a fully reversible and reproducible way reflecting a thinning of the membrane that is attributed to extrusion of n-decane from the black membrane area. High pressure decreased the rate constant, ki, for lipophilic ion translocation. After correcting for changes in the height of the energy barrier for translocation due to membrane thinning the pressure dependence of ki yields an apparent activation volume for translocation of approximately 14 cm3/mol both for DPA- and TPhB-. Changes in lipophilic ion absorption following a step of pressure developed with a rather slow time course due to diffusion limitations in solution. The stationary concentration of membrane absorbed lipophilic ions increased with pressure according to an apparent volume of absorption of about -10 cm3/mol. The relevance of the results for the interpretation of the effects of pressure on nerve membrane physiology is discussed.

Sterol biosynthesis de nova via cycloartenol by the soil amoeba Acanthamoeba polyphaga

The soil amoeba Acanthamoeba polyphaga is capable of synthesizing its sterols de novo from acetate. The major sterols are ergosterol and poriferasta-5,7,22-trienol. Furthermore C28 and C29 sterols of still unknown structure with an aromatic B-ring are also synthesized by the amoeba. The first cyclic sterol precursor is cycloartenol, which is the sterol precursor in all photosynthetic phyla. No trace of lanosterol, which is the sterol precursor in animals and fungi, could be detected. These results show that at least some of the biochemical processes of Acanthamoeba polyphaga might be phylogenetically related to those of unicellular algae. Addition of exogenous sterols to the culture medium does not influence the sterol biosynthesis and the sterol composition of the cells.

Novel hopanoids from the methylotrophic bacteria Methylococcus capsulatus and Methylomonas methanica. (22S)-35-aminobacteriohopane-30,31,32,33,34-pentol and (22S)-35-amino-3 beta-methylbacteriohopane-30,31,32,33,34-pentol

The major hopanoid of the methylotrophic bacteria Methylococcus capsulatus and Methylomonas methanica was identified by spectroscopic methods as (22S)-35-aminobacteriohopane-30,31,32,33,34-pentol. Minor companions were, in both bacteria, 35-aminobacteriohopane-31,32,33,34-tetrol and in Methylomonas methanica, 35-aminobacteriohopane-32,33,34-triol. In Methylococcus capsulatus the aminopentol and the aminotetrol were accompanied by their homologues possessing an extra methyl group at C-3. Bacterial hopanoids with a functionalized C-30 carbon atom such as these two new aminopentols are possible precursors of widespread C29 hopanoid chemical fossils.

Prokaryotic triterpenoids. New bacteriohopanetetrol cyclitol ethers from the methylotrophic bacterium Methylobacterium organophilum

Together with bacteriohopanetetrol, which is identical to bacteriohopanetetrol isolated from Bacillus acidocaldarius, three other bacteriohopane derivatives were isolated from the methylotrophic bacterium Methylobacterium organophilum. Three different kinds of polar moieties were found linked to the C-35 hydroxyl group of bacteriohopanetetrol: glucosamine linked through a glycosidic bond and two new polyhydroxylated methylcyclopentanoids differing one from each other by the presence of an amino or a guanidino group and linked through an ether bond. The significance of the presence of these compounds in terms of membrane reinforcement and DNA/triterpenoid interactions is discussed.

Thermotropic phase behavior of model membranes composed of phosphatidylcholines containing omega-cyclohexyl fatty acids. Differential scanning calorimetric and 31P NMR spectroscopic studies

The thermotropic phase behavior of aqueous dispersions of 10 phosphatidylcholines containing omega-cyclohexyl-substituted acyl chains was studied by differential scanning calorimetry and 31P nuclear magnetic resonance spectroscopy. The presence of the omega-cyclohexyl group has a profound effect on the thermotropic phase behavior of these compounds in a manner dependent on whether the fatty acyl chains have odd- or even-numbered linear carbon segments. The thermotropic phase behavior of the odd-numbered phosphatidylcholines is characterized by a single heating endotherm that was shown to be a superposition of at least two structural events by calorimetric cooling experiments. 31P NMR spectroscopy also showed that the single endotherm of the odd-chain compounds is the structural equivalent of a concomitant gel-gel and gel to liquid-crystalline phase transition. The calorimetric behavior of the even-numbered phosphatidylcholines is characterized by a complex array of gel-state phenomena, in addition to the chain-melting transition, in both the heating and cooling modes. The gel states of these even-numbered compounds are characterized by a relatively greater mobility of the phosphate head group as seen by 31P NMR spectroscopy. The differences between the odd-numbered and even-numbered compounds are reflected in a pronounced odd-even alternation in the characteristic transition temperatures and enthalpies and in differences in their responses to changes in the composition of the bulk aqueous phase. Moreover, both the odd-numbered and even-numbered omega-cyclohexylphosphatidylcholines exhibit significantly lower chain-melting transition temperatures and enthalpies than do linear saturated phosphatidylcholines of comparable chain length.(ABSTRACT TRUNCATED AT 250 WORDS)

Prokaryotic triterpenoids. 2. 2 beta-Methylhopanoids from Methylobacterium organophilum and Nostoc muscorum, a new series of prokaryotic triterpenoids

2 beta-Methylhopanoids, a new series of triterpenoids was identified from two prokaryotes. 2 beta-Methyldiplopterol was isolated from the methylotrophic bacterium Methylobacterium organophilum, and three different 2 beta-methylbacteriohopanepolyols from the cyanobacterium Nostoc muscorum. The structures of these compounds was deduced by direct comparison with 2 beta-methyldiplopterol synthesized from 22-hydroxyhopan-3-one.

A novel hopanoid, 30-(5'-adenosyl)hopane, from the purple non-sulphur bacterium Rhodopseudomonas acidophila, with possible DNA interactions

A novel hopanoid, 30-(5'-adenosyl)hopane, was isolated from the purple non-sulphur bacterium Rhodopseudomonas acidophila and identified. The significance of this triterpenoid in terms of bacteriohopanepolyol biosynthesis, membrane reinforcement and possible interactions with nucleic acids is discussed.