Synthesis of high density aviation fuel with cyclopentanol derived from lignocellulose

NASA Astrophysics Data System (ADS)

Sheng, Xueru; Li, Ning; Li, Guangyi; Wang, Wentao; Yang, Jinfan; Cong, Yu; Wang, Aiqin; Wang, Xiaodong; Zhang, Tao

2015-03-01

For the first time, renewable high density aviation fuels were synthesized at high overall yield (95.6%) by the Guerbet reaction of cyclopentanol which can be derived from lignocellulose, followed by the hydrodeoxygenation (HDO). The solvent-free Guerbet reaction of cyclopentanol was carried out under the co-catalysis of solid bases and Raney metals. Among the investigated catalyst systems, the combinations of magnesium-aluminium hydrotalcite (MgAl-HT) and Raney Ni (or Raney Co) exhibited the best performances. Over them, high carbon yield (96.7%) of C10 and C15 oxygenates was achieved. The Guerbet reaction products were further hydrodeoxygenated to bi(cyclopentane) and tri(cyclopentane) over a series of Ni catalysts. These alkanes have high densities (0.86 g mL-1 and 0.91 g mL-1) and can be used as high density aviation fuels or additives to bio-jet fuel. Among the investigated HDO catalysts, the 35 wt.% Ni-SiO2-DP prepared by deposition-precipitation method exhibited the highest activity.

Side-chain to backbone interactions dictate the conformational preferences of a cyclopentane arginine analogue

PubMed Central

Revilla-López, Guillem; Torras, Juan; Jiménez, Ana I.; Cativiela, Carlos; Nussinov, Ruth; Alemán, Carlos

2009-01-01

The intrinsic conformational preferences of the non-proteinogenic amino acids constructed by incorporating the arginine side chain in the β position of 1-aminocyclopentane-1-carboxylic acid (either in a cis or a trans orientation relative to the amino group) have been investigated using computational methods. These compounds may be considered as constrained analogues of arginine (denoted as c5Arg) in which the orientation of the side chain is fixed by the cyclopentane moiety. Specifically, the N-acetyl-N′-methylamide derivatives of cis and trans-c5Arg have been examined in the gas phase and in solution using B3LYP/6-311+G(d,p) calculations and Molecular Dynamics simulations. Results indicate that the conformational space available to these compounds is highly restricted, their conformational preferences being dictated by the ability of the guanidinium group in the side chain to establish hydrogen-bond interactions with the backbone. A comparison with the behavior previously described for the analogous phenylalanine derivatives is presented. PMID:19236034

Lubricated Bearing Lifetimes of a Multiply Alkylated Cyclopentane and a Linear Perfluoropolyether Fluid in Oscillatory Motion at Elevated Temperatures in Ultrahigh Vacuum

NASA Technical Reports Server (NTRS)

Braza, Joseph; Jansen, Mark J.; Jones, William R.

2009-01-01

Bearing life tests in vacuum with three space liquid lubricants, two multiply alkylated cyclopentanes (MACs) and a linear perfluoropolyether (PFPE) were performed. Test conditions included: an 89 N axial load (mean Hertzian stress 0.66 GPa), vacuum level below 7x10(exp -4) Pa, and a +/-30deg dither angle. Dither rate was 75 cycles per minute. Higher (110 to 122 C) and lower temperature tests (75 C) were performed. For the higher temperature tests, the PFPE, Fomblin (Ausimont SpA) Z25 outperformed Pennzane (Shell Global Solutions) X-2000 by more than an order of magnitude. Lubricant evaporation played a key role in these high temperature results. At 75 C, the order was reversed with both Pennzane X-1000 and X-2000 outperforming Fomblin Z25 by more than an order of magnitude. Most Pennzane tests were suspended without failure. The primary failure mechanism in these lower temperature tests was lubricant consumption in the tribocontacts.

Synthesis of high density aviation fuel with cyclopentanol derived from lignocellulose.

PubMed

Sheng, Xueru; Li, Ning; Li, Guangyi; Wang, Wentao; Yang, Jinfan; Cong, Yu; Wang, Aiqin; Wang, Xiaodong; Zhang, Tao

2015-03-31

For the first time, renewable high density aviation fuels were synthesized at high overall yield (95.6%) by the Guerbet reaction of cyclopentanol which can be derived from lignocellulose, followed by the hydrodeoxygenation (HDO). The solvent-free Guerbet reaction of cyclopentanol was carried out under the co-catalysis of solid bases and Raney metals. Among the investigated catalyst systems, the combinations of magnesium-aluminium hydrotalcite (MgAl-HT) and Raney Ni (or Raney Co) exhibited the best performances. Over them, high carbon yield (96.7%) of C10 and C15 oxygenates was achieved. The Guerbet reaction products were further hydrodeoxygenated to bi(cyclopentane) and tri(cyclopentane) over a series of Ni catalysts. These alkanes have high densities (0.86 g mL(-1) and 0.91 g mL(-1)) and can be used as high density aviation fuels or additives to bio-jet fuel. Among the investigated HDO catalysts, the 35 wt.% Ni-SiO2-DP prepared by deposition-precipitation method exhibited the highest activity.

The preparation of several 1,2,3,4,5-functionalized cyclopentane derivatives

PubMed Central

Kelch, André S; Jones, Peter G; Dix, Ina

2013-01-01

Summary With the goal of eventually synthesizing [5]radialene (3), the still missing member of the parent radialene hydrocarbons, we have prepared the pentaacetates 21 and 31, the pentabromide 29 and the hexabromide 32. In principle these should be convertible by elimination reactions to the desired target molecule. PMID:24062831

Controlled formation of cyclopentane hydrate suspensions via capillary-driven jet break-up

NASA Astrophysics Data System (ADS)

Geri, Michela; McKinley, Gareth

2017-11-01

Clathrate hydrates are crystalline compounds that form when a lattice of hydrogen-bonded water molecules is filled by guest molecules sequestered from an adjacent gas or liquid phase. Being able to rapidly produce and transport synthetic hydrates is of great interest given their significant potential as a clean energy source and safe option for hydrogen storage. We propose a new method to rapidly produce cyclopentane hydrate suspensions at ambient pressure with tunable particle size distribution by taking advantage of the Rayleigh-Plateau instability to form a mono-disperse stream of droplets during the controlled break-up of a water jet. The droplets are immediately frozen into ice particles through immersion in a subcooled reservoir and converted into hydrates with a dramatic reduction in the nucleation induction time. By measuring the evolution of the rheological properties with time, we monitor the process of hydrates formation via surface crystallization and agglomeration with different droplet size distributions. This new method enables us to gain new insights into hydrate formation and transport which was previously hindered by uncontrolled droplet formation and hydrate nucleation processes. MITei Chevron Fellowship.

Synthesis of high density aviation fuel with cyclopentanol derived from lignocellulose

PubMed Central

Sheng, Xueru; Li, Ning; Li, Guangyi; Wang, Wentao; Yang, Jinfan; Cong, Yu; Wang, Aiqin; Wang, Xiaodong; Zhang, Tao

2015-01-01

For the first time, renewable high density aviation fuels were synthesized at high overall yield (95.6%) by the Guerbet reaction of cyclopentanol which can be derived from lignocellulose, followed by the hydrodeoxygenation (HDO). The solvent-free Guerbet reaction of cyclopentanol was carried out under the co-catalysis of solid bases and Raney metals. Among the investigated catalyst systems, the combinations of magnesium-aluminium hydrotalcite (MgAl-HT) and Raney Ni (or Raney Co) exhibited the best performances. Over them, high carbon yield (96.7%) of C10 and C15 oxygenates was achieved. The Guerbet reaction products were further hydrodeoxygenated to bi(cyclopentane) and tri(cyclopentane) over a series of Ni catalysts. These alkanes have high densities (0.86 g mL−1 and 0.91 g mL−1) and can be used as high density aviation fuels or additives to bio-jet fuel. Among the investigated HDO catalysts, the 35 wt.% Ni-SiO2-DP prepared by deposition-precipitation method exhibited the highest activity. PMID:25826744

Lifetimes of Multiply Alkylated Cyclopentane Oil in Contact with Various Metals, Evaluated with Vacuum Spiral Orbit Tribometer

NASA Technical Reports Server (NTRS)

Pepper, Stephen V.

2018-01-01

The dependence of the lifetimes of small quantities of a Multiply Alkylated Cyclopentane (MAC) lubricant oil, Pennzane (Registered Trademark) 2001A (Nye Lubricants, Inc.), in rolling and sliding contact with different metals was evaluated with a vacuum spiral orbit tribometer. The metals were the bearing alloys 52100 steel, 440C steel, 17-4 PH steel and Nitinol 60 and the elements chromium, vanadium and titanium. The lifetimes of the lubricant oil on different metals fell into distinct groups with 52100 greater than 440C approx. Nitinol 60 greater than 17-4 PH for the order of the lifetimes of the steels and chromium greater than vanadium greater than titanium for the order of the lifetimes for the elements. The limited life of the small quantities of oil is assumed to be due to its consumption by the tribochemical reaction of the oil with the different metal bearing materials. The lifetimes are then inversely related to the reaction rates of the oil molecules with the various metals: the longest life of 52100 steel having the lowest reaction rate and the shortest life of titanium having the highest reaction rate. Mechanisms for the tribochemical reactions are discussed.

Improving Tribological Properties of Multialkylated Cyclopentanes under Simulated Space Environment: Two Feasible Approaches.

PubMed

Fan, Xiaoqiang; Wang, Liping; Li, Wen; Wan, Shanhong

2015-07-08

Space mechanisms require multialkylated cyclopentanes (MACs) more lubricious, more reliable, more durable, and better adaptive to harsh space environments. In this study, two kinds of additives were added into MACs for improving the tribological properties under simulated space environments: (a) solid nanoparticles (tungsten disulfide (WS2), tungsten trioxide (WO3), lanthanum oxide (La2O3), and lanthanum trifluoride (LaF3)) for steel/steel contacts; (b) liquid additives like zinc dialkyldithiophosphate (ZDDP) and molybdenum dialkyldithiocarbamate (MoDTC) for steel/steel and steel/diamond-like carbon (DLC) contacts. The results show that, under harsh simulated space environments, addition of the solid nanoparticles into MACs allows the wear to be reduced by up to one order magnitude, while liquid additives simultaneously reduce friction and wear by 80% and 93%, respectively. Friction mechanisms were proposed according to surface/interface analysis techniques, such as X-ray photoelectron spectroscopy (XPS) and time-of-flight secondary ion mass spectroscopy (TOF-SIMS). The role of solid nanoparticles in reducing friction and wear mainly depends on their surface enhancement effect, and the liquid additives are attributed to the formation of tribochemical reaction film derived from ZDDP and MoDTC on the sliding surfaces.

Spiral Orbit Tribometry. 2; Evaluation of Three Liquid Lubricants in Vacuum

NASA Technical Reports Server (NTRS)

Pepper, Stephen V.; Kingsbury, Edward P.; Kiraly, Louis J. (Technical Monitor)

2002-01-01

The coefficients of friction and relative degradation rates of three lubricants run in the boundary regime in vacuum are evaluated in a Spiral Orbit Tribometer. This tribometer subjected the lubricants to rolling contact conditions similar to those found in angular contact ball bearings. A multiply alkylated cyclopentane (MAC) hydrocarbon lubricant suffered degradation at a rate almost two orders of magnitude less than the degradation rate of two perfluoropolyalkylether (PFPE) lubricants.

A life-cycle comparison of several auxiliary blowing agents used for the manufacture of rigid polyurethane foam.

PubMed

Katz, Seton; Lindner, Angela S

2003-04-01

In a commitment to zero ozone depletion, the United Nations and the U.S. Environmental Protection Agency (EPA) have called for the phase-out of the manufacture and import of hydrochlorofluorocarbons (HCFCs), used as auxiliary blowing agents (ABAs) in the manufacture of polyurethane foams. As a result, more environmentally benign alternative ABAs are being sought by the foam-blowing industry. This study examined the life cycle of HCFC-22, hydrofluorocarbon-134a (HFC-134a), and cyclopentane, which are currently used or considered as potential alternative ABAs in the manufacture of rigid polyurethane foams that serve as insulation in a model North American refrigerator. The raw material extraction/refining, manufacturing, use, and disposal stages of the life cycle of each ABA were considered, and their resulting relative impacts on ozone depletion and global warming were compared. The manufacturing, use, and disposal stages were determined to affect ozone depletion and global warming to the largest extent, emphasizing the need for a greater focus on pollution prevention opportunities in these stages. The HFC-134a life cycle yields no impact on ozone depletion and a significantly decreased global warming impact compared with its predecessor, HCFC-22, and a tradeoff of slightly higher global warming impact and fewer added safety concerns compared with its more flammable counterpart, cyclopentane.

Investigation into 9(S)-HPODE-derived allene oxide to cyclopentenone cyclization mechanism via diradical oxyallyl intermediates

PubMed Central

Hebert, Sebastien P.; Cha, Jin K.; Brash, Alan R.; Schlegel, H. Bernhard

2016-01-01

The cyclopentane core is ubiquitous among a large number of biologically relevant natural products. Cyclopentenones have been shown to be versatile intermediates for the stereoselective preparation of highly substituted cyclopentane derivatives. Allene oxides are oxygenated fatty acids which are involved in the pathways of cyclopentenone biosynthesis in plants and marine invertebrates; however, their cyclization behavior is not well understood. Recent work by Brash and co-workers (J. Biol. Chem. 2013, 288, 20797) revealed an unusual cyclization property of the 9(S)-HPODE-derived allene oxides: the previously unreported 10Z-isomer cyclizes to a cis-dialkylcyclopentenone in hexane/isopropyl alcohol (100:3,v/v), but the known 10E-isomer does not yield cis-cyclopentenone under the same conditions. The mechanism for cyclization has been investigated for unsubstituted and methyl substituted vinyl allene oxide using a variety of methods including CASSCF, ωB97xD, and CCSD(T) and basis sets up to cc-pVTZ. The lowest energy pathway proceeds via homolytic cleavage of the epoxide ring, formation of an oxyallyl diradical, which closes readily to a cyclopropanone intermediate. The cyclopropanone opens to the requisite oxyallyl which closes to the experimentally observed product, cis-cyclopentenone. The calculations show that the open shell, diradical pathway is lower in energy than the closed shell reactions of allene oxide to cyclopropanone, and cyclopropanone to cyclopentenone. PMID:26976802

Plasticity of Cl-Te-Cl Fragments. Synthesis, Single-Crystal X-ray, and NBO Study of (1-Thia-2-tellura-1-phenyl-4-chloro)cyclopentane 2,2,2-Trichloride.

PubMed

Sundberg, Markku R.; Laitalainen, Tarja; Bergman, Jan; Uggla, Rolf; Matikainen, Jorma; Kaltia, Seppo

1998-06-01

Tellurium tetrachloride and allylphenyl sulfide react to form (1-thia-2-tellura-1-phenyl-4-chloro)cyclopentane 2,2,2-trichloride. The crystal and molecular structure were determined by single-crystal X-ray techniques. The crystals belong to the monoclinic system, space group P2(1)/c (No. 14) with a = 6.020(3) Å, b = 11.46(1) Å, c = 20.156(2) Å, beta = 97.53(2) degrees, V = 1379(1) Å(3), and Z = 4. The structure was refined to the final R value of 0.036. The coordination around Te(IV) is distorted psi octahedral with three Cl atoms in the equatorial positions. The axial Te(1)-C(1) bond opposite to the lone pair of electrons at the Te(IV) atom completes the coordination polyhedron. The intramolecular Te-S distance is 2.903(3) Å. Symmetric and asymmetric deformation modes were established to describe the plasticity of the Cl-Te-Cl fragments extracted from the Cambridge Structural Database. The hypervalency of Te(IV) manifests itself as plasticity in the equatorial plane of the coordination sphere. The NBO calculations show that all of the equatorial Te-Cl bonds are highly polarized and the electrons reside mainly on the Cl atoms.

Synthesis of Methylenebicyclo[3.2.1]octanol by a Sm(II)-Induced 1,2-Rearrangement Reaction with Ring Expansion of Methylenebicyclo[4.2.0]octanone.

PubMed

Takatori, Kazuhiko; Ota, Shoya; Tendo, Kenta; Matsunaga, Kazuma; Nagasawa, Kokoro; Watanabe, Shinya; Kishida, Atsushi; Kogen, Hiroshi; Nagaoka, Hiroto

2017-07-21

Direct conversion of methylenebicyclo[4.2.0]octanone to methylenebicyclo[3.2.1]octanol by a Sm(II)-induced 1,2-rearrangement with ring expansion of the methylenecyclobutane is described. Three conditions were optimized to allow the adaptation of this approach to various substrates. A rearrangement mechanism is proposed involving the generation of a ketyl radical and cyclopentanation by ketyl-olefin cyclization, followed by radical fragmentation and subsequent protonation.

Kinetics study of the reaction of OH radicals with C5-C8 cycloalkanes at 240-340 K using the relative rate/discharge flow/mass spectrometry technique.

PubMed

Singh, Sumitpal; de Leon, Maria Fatima; Li, Zhuangjie

2013-10-24

Rate constants of reactions of hydroxyl radical with cyclopentane (k1), cyclohexane (k2), cycloheptane (k3), and cyclooctane (k4) have been acquired at 240-340 K and a total pressure of about 1 Torr using the technique of relative rate combined with discharge flow and mass spectrometry (RR/DF/MS). At 298 K, the rate constants are determined using two reference compounds, which are averaged to be k1 = (4.81 ± 0.88) × 10(-12), k2 = (6.41 ± 0.85) × 10(-12), k3 = (10.30 ± 1.44) × 10(-12), and k4 = (1.42 ± 0.27) × 10(-11) cm(3) molecule(-1) s(-1). The Arrhenius expressions at 240-340 K for these reactions are determined to be k1(T) = (2.43 ± 0.50) × 10(-11)exp[-(481 ± 58)/T], k2(T) = (3.96 ± 0.60) × 10(-11)exp[-554 ± 42)/T], k3(T) = (5.74 ± 0.66) × 10(-11)exp[-527 ± 33)/T], and k4(T) = (1.12 ± 0.21) × 10(-10)exp[-626 ± 53)/T]. Using the kcycloalkane+OH(277 K) values measured in the present work, the atmospheric lifetime for cyclopentane, cyclohexane, cycloheptane, and cyclooctane is estimated to be about 78, 64, 38, and 29 h, respectively.

Carbon-Phenolic Cages for High-Speed Bearings. Part 1 - Friction and Wear Response of Phenolic Composite Impregnated with a Multiply-Alkylated Cyclopentane (MAC) Lubricant and MoS2 Solid Lubricant

DTIC Science & Technology

2003-01-01

AFRL/MLBT) was the program manager for the overall effort. The carbon -phenolic samples in the program were prepared by Mr. Wei Shih of Allcomp ... Inc ., City of Industry, CA. Mr. Shih also provided the mechanical and thermal property data for the carbon -phenolic specimens. Hitesh Trivedi and...of the program to characterize the material properties. Allcomp Inc ., City of Industry, California supplied all of the test specimens. The

Synthesis of the active form of loxoprofen by using allylic substitutions in two steps.

PubMed

Hyodo, Tomonori; Kiyotsuka, Yohei; Kobayashi, Yuichi

2009-03-05

High regioselectivity for allylic substitution of the cyclopentenyl picolinate 5 with benzylcopper reagent was attained with ZnBr(2), and the finding was applied to the p-BrC(6)H(4)CH(2) reagent. The cyclopentene moiety in the product was reduced to the cyclopentane, and the p-BrC(6)H(4) was converted to the "Cu"C(6)H(4) for the second allylic substitution with picolinate 8 to furnish the title compound after oxidative cleavage of the resulting olefin moiety.

DIBALH mediated reduction of the acetal moiety on perhydrofuro[2,3-b]pyran derivatives.

PubMed

Marco-Contelles, J; Ruiz-Caro, J

2001-09-21

The reaction of DIBALH with bis(heteroannulated)-pyranosides containing the perhydrofuro[2,3-b]pyran moiety is described. The hydride attack at the anomeric carbon (C-9a) resulted in the exclusive tetrahydrofuran ring opening. The selectivity of this reaction has been evaluated as other benzylidene acetals built on these substrates remain practically or partially unaltered in these conditions depending on the steric volume of the O-protecting group located at C-4 (TBDMS vs. Me). This protocol can be considered as a new entry for the synthesis of chiral and highly functionalized cyclopentanes.

Forging Fluorine-Containing Quaternary Stereocenters by a Light-Driven Organocatalytic Aldol Desymmetrization Process.

PubMed

Cuadros, Sara; Dell'Amico, Luca; Melchiorre, Paolo

2017-09-18

Reported herein is a light-triggered organocatalytic strategy for the desymmetrization of achiral 2-fluoro-substituted cyclopentane-1,3-diketones. The chemistry is based on an intermolecular aldol reaction of photochemically generated hydroxy-o-quinodimethanes and simultaneously forges two adjacent fully substituted carbon stereocenters, with one bearing a stereogenic carbon-fluorine unit. The method uses readily available substrates, a simple chiral organocatalyst, and mild reaction conditions to afford an array of highly functionalized chiral 2-fluoro-3-hydroxycyclopentanones. © 2017 The Authors. Published by Wiley-VCH Verlag GmbH & Co. KGaA.

Gaithersburg Nike Control and Launch Area Preliminary Assessment/Site Inspection Gaithersburg, Maryland

DTIC Science & Technology

1990-01-01

CYCLOPENTANE 1M7MEN 1-M4ETHYL-7- ( -METHYLETHYL) NAPHTHALENE 1MFLRE 1 -METHYL- 9H-FLUORENE INHP 1-NITROHEPTA14E MNONE 1-NITRO-2- OCTANONE 1OCTOL 1- OCTANOL ...iNuP 1-NITROHEPTANE 1NKCL 1.0 N POTASSIUM CHLORIDE 1NONE 1-NITRO-2- OCTANONE 1OCTOL 1-OCTAI4OL IPECHX 1-PROPENYLCYCLOHEXANE 1PNAP 1-PHENYLNAPHTHALENE...BROMO-1-CHLOROPROPANEI2B100L 2-BUTYL-1- OCTANOL 2B4MFU 2- (T-BUTYL) -4-METHYLFURAN 2CBMN 2-CHLOROBENZYLIDINEM-LONONITRILEI 2CECHO 2- (2-CYANOETHYL

Computational Chemistry-Based Enthalpy-of-Formation, Enthalpy-of-Vaporization, and Enthalpy-of-Sublimation Predictions for Azide-Functionalized Compounds

DTIC Science & Technology

2006-04-01

93.0g 92.8 102.8 Benzene+HN3 → Azidobenzene+H2 Azidomethylbenzene 99.5f 93.0 102.0 Methylbenzene+HN3 → Azidomethylbenzene+H2 2 -Azido- 2 - phenylpropane ...87.4d 73.5 86.4 2 - Phenylpropane +HN3 → 2 -Azido- 2 - phenylpropane +H2 Azidocyclopentane 52.8h 58.4 67.0 Cyclopentane+HN3 → Azidocyclopentane+H2...experimentally derived results for “higher homologous azides” (1-azidoadamantane, 3-azido-3-ethylpentane and 2 -azido- 2 - phenylpropane ) (Wayne et al., 1993

Effects of gasoline components on MTBE and TBA cometabolism by Mycobacterium austroafricanum JOB5.

PubMed

House, Alan J; Hyman, Michael R

2010-07-01

In this study we have examined the effects of individual gasoline hydrocarbons (C(5-10,12,14) n-alkanes, C(5-8) isoalkanes, alicyclics [cyclopentane and methylcyclopentane] and BTEX compounds [benzene, toluene, ethylbenzene, m-, o-, and p-xylene]) on cometabolism of methyl tertiary butyl ether (MTBE) and tertiary butyl alcohol (TBA) by Mycobacterium austroafricanum JOB5. All of the alkanes tested supported growth and both MTBE and TBA oxidation. Growth on C(5-8) n-alkanes and isoalkanes was inhibited by acetylene whereas growth on longer chain n-alkanes was largely unaffected by this gas. However, oxidation of both MTBE and TBA by resting cells was consistently inhibited by acetylene, irrespective of the alkane used as growth-supporting substrate. A model involving two separate but co-expressed alkane-oxidizing enzyme systems is proposed to account for these observations. Cyclopentane, methylcyclopentane, benzene and ethylbenzene did not support growth but these compounds all inhibited MTBE and TBA oxidation by alkane-grown cells. In the case of benzene, the inhibition was shown to be due to competitive interactions with both MTBE and TBA. Several aromatic compounds (p-xylene > toluene > m-xylene) did support growth and cells previously grown on these substrates also oxidized MTBE and TBA. Low concentrations of toluene (<10 microM) stimulated MTBE and TBA oxidation by alkane-grown cells whereas higher concentrations were inhibitory. The effects of acetylene suggest strain JOB5 also has two distinct toluene-oxidizing activities. These results have been discussed in terms of their impact on our understanding of MTBE and TBA cometabolism and the enzymes involved in these processes in mycobacteria and other bacteria.

Micromechanical measurements of the effect of surfactants on cyclopentane hydrate shell properties.

PubMed

Brown, Erika P; Koh, Carolyn A

2016-01-07

Investigating the effect of surfactants on clathrate hydrate growth and morphology, especially particle shell strength and cohesion force, is critical to advancing new strategies to mitigate hydrate plug formation. In this study, dodecylbenzenesulfonic acid and polysorbate 80 surfactants were included during the growth of cyclopentane hydrates at several concentrations above and below the critical micelle concentration. A novel micromechanical method was applied to determine the force required to puncture the hydrate shell using a glass cantilever (with and without surfactants), with annealing times ranging from immediately after the hydrate nucleated to 90 minutes after formation. It was shown that the puncture force was decreased by the addition of both surfactants up to a maximum of 79%. Over the entire range of annealing times (0-90 minutes), the thickness of the hydrate shell was also measured. However, there was no clear change in shell thickness with the addition of surfactants. The growth rate of the hydrate shell was found to vary less than 15% with the addition of surfactants. The cohesive force between two hydrate particles was measured for each surfactant and found to be reduced by 28% to 78%. Interfacial tension measurements were also performed. Based on these results, microscopic changes to the hydrate shell morphology (due to the presence of surfactants) were proposed to cause the decrease in the force required to break the hydrate shell, since no macroscopic morphology changes were observed. Understanding the hydrate shell strength can be critical to reducing the capillary bridge interaction between hydrate particles or controlling the release of unconverted water from the interior of the hydrate particle, which can cause rapid hydrate conversion.

Neutron molecular spectroscopy using a white beam time-of-flight spectrometer

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chen, S.; Jorgensen, J.D.; Berney, C.V.

1978-01-01

An inverted-geometry white beam TOF neutron spectrometer using an extended graphite crystal analyzer was constructed at the CP-5 reactor at Argonne. A performance test of the spectrometer for incoherent inelastic scattering studies was made with five selected molecular solids. The results demonstrate the utility of such a spectrometer for investigation of lattice vibrational spectra of hydrogenous compounds in the energy range 0--400 cm/sup -1/. We describe design considerations and energy resolution of the spectrometer, and discuss observed low-frequency spectra of acetic acid (CH/sub 3/COOH, CD/sub 3/COOH, and CH/sub 3/COOD), cyclohexane, and cyclopentane.

CONTRASTING BEHAVIOR OF CONFORMATIONALLY LOCKED CARBOCYCLIC NUCLEOSIDES OF ADENOSINE AND CYTIDINE AS SUBSTRATES FOR DEAMINASES

PubMed Central

Schroeder, Gottfried K.; Ludek, Olaf R.; Siddiqui, Maqbool A.; Ezzitouni, Abdallah; Wolfenden, Richard

2010-01-01

In addition to the already known differences between adenosine deaminase (ADA) and cytidine deaminase (CDA) in terms of their tertiary structure, the sphere of Zn+2 coordination, and their reverse stereochemical preference, we present evidence that the enzymes also differ significantly in terms of the North/South conformational preferences for their substrates and the extent to which the lack of the O(4’) oxygen affects the kinetics of the enzymatic deamination of carbocyclic substrates. The carbocyclic nucleoside substrates used in this study have either a flexible cyclopentane ring or a rigid bicyclo[3.1.0]hexane scaffold. PMID:20183605

The IINS/quantum chemical studies of 17α- and 21-hydroxy-derivatives of progesterone

NASA Astrophysics Data System (ADS)

Szyczewski, A.; Hołderna-Natkaniec, K.; Natkaniec, I.

2003-05-01

The inelastic incoherent neutron scattering and quantum chemical studies have been performed on 17 and 21 hydroxy progesterone and the assignment of internal modes have been proposed in the range up to 700 cm -1. The lattice branch of PDS reveals modes which could be attributed to torsions of rings A and D (cyclohexane and cyclopentane) of the pregnane skeleton. An assignment of the torsional vibrations of methyl groups in the range 150-300 cm -1 and the deformation and out-of plane vibrations of CCOH groups has been proposed. An analysis of the effect of hydrogen bonds on PDS spectra has been performed.

Rhodomollanol A, a Highly Oxygenated Diterpenoid with a 5/7/5/5 Tetracyclic Carbon Skeleton from the Leaves of Rhododendron molle.

PubMed

Zhou, Junfei; Zhan, Guanqun; Zhang, Hanqi; Zhang, Qihua; Li, Ying; Xue, Yongbo; Yao, Guangmin

2017-07-21

A novel diterpenoid with an unprecedented carbon skeleton, rhodomollanol A (1), and a new grayanane diterpenoid, rhodomollein XXXI (2), were isolated from the leaves of Rhododendron molle. Their structures were elucidated using comprehensive spectroscopic methods and single-crystal X-ray diffraction. Compound 1 possesses a unique cis/trans/trans/cis/cis-fused 3/5/7/5/5/5 hexacyclic ring system featuring a rare 7-oxabicyclo[4.2.1]nonane core decorated with three cyclopentane units. The plausible biosynthetic pathway for 1 was proposed. Compound 1 exhibited moderate PTP1B inhibitory activity.

1H-cyclopentapyrimidine-2,4(1H,3H)-dione-related ionotropic glutamate receptors ligands. structure-activity relationships and identification of potent and Selective iGluR5 modulators.

PubMed

Butini, Stefania; Pickering, Darryl S; Morelli, Elena; Coccone, Salvatore Sanna; Trotta, Francesco; De Angelis, Meri; Guarino, Egeria; Fiorini, Isabella; Campiani, Giuseppe; Novellino, Ettore; Schousboe, Arne; Christensen, Jeppe K; Gemma, Sandra

2008-10-23

(S)-CPW399 ((S)-1) is a potent and excitotoxic AMPA receptor partial agonist. Modifying the cyclopentane ring of (S)-1, we developed two of the most potent and selective functional antagonists (5 and 7) for kainate receptor (KA-R) subunit iGluR5. Derivatives 5 and 7, with their unique pharmacological profile, may lead to a better understanding of the different roles and modes of action of iGluR1-5 subunits, paving the way for the synthesis of new potent, subunit selective iGluR5 modulators.

Assessing the feasibility of hydrate deposition on pipeline walls--adhesion force measurements of clathrate hydrate particles on carbon steel.

PubMed

Nicholas, Joseph W; Dieker, Laura E; Sloan, E Dendy; Koh, Carolyn A

2009-03-15

Adhesive forces between cyclopentane (CyC5) hydrates and carbon steel (CS) were measured. These forces were found to be substantially lower than CyC5 hydrate-CyC5 hydrate particle measurements and were also lower than ice-CS measurements. The measured adhesive forces were used in a force balance to predict particle removal from the pipeline wall, assuming no free water was present. The force balance predicted entrained hydrate particles of 3 microns and larger diameter would be removed at typical operating flow rates in offshore oil and gas pipelines. These predictions also suggest that hydrate deposition will not occur in stabilized (cold) flow practices.

Effect of Test Environment on Lifetime of Two Vacuum Lubricants Determined by Spiral Orbit Tribometry

NASA Technical Reports Server (NTRS)

Pepper, Stephen V.

2011-01-01

The destruction rates of a perfluoropolyether (PFPE) lubricant, Krytox 143AC, subjected to rolling contact with 440C steel in a spiral orbit tribometer at room temperature have been evaluated as a function of test environment. The rates in ultrahigh vacuum, 0.213 kPa (1.6 torr) oxygen and one atmosphere of dry nitrogen were about the same. Water vapor in the test environment-a few ppm in one atmosphere of nitrogen-reduced the destruction rate by up to an order of magnitude. A similar effect of water vapor was found for the destruction rate of Pennzane 2001A, an unformulated multiply alkylated cyclopentane (MAC) hydrocarbon oil.

Dependence on solute concentration of the efficiency of scavenging of electrons in recombining geminate ion pairs

NASA Astrophysics Data System (ADS)

Tweeten, David W.; Lee, Kaidee; Lipsky, Sanford

The fluorescence from solutions of hexafluorobenzene in cyclopentane, 2,2,4-trimethylpentane, 2,2-dimethylbutane and tetramethylsilane irradiated with β-particles has been studied as a function of the hexafluorobenzene concentration from c = 10 -3-10 -1 M. The data are analyzed to permit extraction of geminate ion-pair scavenging probability p†. This is found to have a dependence on c entirely similar to what has previously been reported for p† extracted from quenching of solvent fluorescence by perfluorocarbon scavengers, i.e. p† = (α c) 0.7/[1 + (α c) 0.7]. The difference between these results and that for p† obtained via measurement of chemical product formation is discussed.

Structural optimization and structure-functional selectivity relationship studies of G protein-biased EP2 receptor agonists.

PubMed

Ogawa, Seiji; Watanabe, Toshihide; Moriyuki, Kazumi; Goto, Yoshikazu; Yamane, Shinsaku; Watanabe, Akio; Tsuboi, Kazuma; Kinoshita, Atsushi; Okada, Takuya; Takeda, Hiroyuki; Tani, Kousuke; Maruyama, Toru

2016-05-15

The modification of the novel G protein-biased EP2 agonist 1 has been investigated to improve its G protein activity and develop a better understanding of its structure-functional selectivity relationship (SFSR). The optimization of the substituents on the phenyl ring of 1, followed by the inversion of the hydroxyl group on the cyclopentane moiety led to compound 9, which showed a 100-fold increase in its G protein activity compared with 1 without any increase in β-arrestin recruitment. Furthermore, SFSR studies revealed that the combination of meta and para substituents on the phenyl moiety was crucial to the functional selectivity. Copyright © 2016 Elsevier Ltd. All rights reserved.

Tribological Performance of Some Pennzane(Registered Trademark) Based Greases for Vacuum Applications

NASA Technical Reports Server (NTRS)

Marchetti, Mario; Jones, William R., Jr.; Street, Kenneth W.; Wheeler, Donald; Dixon, Duane; Jansen, Mark J.; Kimura, Hiroshi

2002-01-01

Commercial greases for space applications usually fulfill the requirements imposed by the severe conditions of use. The main requirement is their ability to create an EHL film, boundary film, or both under speed, load and temperature conditions that the mechanisms will operate. Three greases, all based on a multiply alkylated cyclopentane (Pennzan(R)) base oil, were studied. The thickeners were an n-octadecylterephthalamate soap, a lithium soap, and a urea derivative. A Four-Ball Tribometer and a Spiral Orbit Tribometer were employed to evaluate the greases under ultrahigh vacuum. Results indicated that all three greases yielded very low wear rates and extended lifetimes. In addition, routine physical property data is reported for each grease.

Analogs of natural lipids. I. Synthesis and properties of tris-homoacyl derivatives of cyclopentane- 1,2,3-triols.

PubMed

Hancock, A J; Greenwald, S M; Sable, H Z

1975-07-01

A new series of analogs of triglycerides has been synthesized, in which the glycerol moiety is replaced by each of the three isomeric cyclopentanetriols. For each of the isomeric cyclopentane-1,2,3-triols (1,2,3/0; DL-1,2/3; and 1,3/2), the tris-homoacyl derivatives of octanoic, decanoic, lauric, myristic, palmitic, stearic, and dihydrosterculic acids were prepared by treatment of the respective triols with the appropriate acyl chloride in pyridine. The dihydrosterculates were prepared by fusing the triols with a mixture of the acyl anhydride and the corresponding potassium salt. It is proposed that because of restricted rotation of the carbon-carbon bonds the cyclopentanoid compounds are analogs of specific rotamers of triglycerides. Infrared spectra (KBr discs) obtained at room temperature show differences in crystal structure from series to series. A band near 720 cm-minus 1 (CH2 rock) is doubled in the 1,2,3/0 and 1,2/3 series and is single in the 1,3/2 series and the triglycerides. In each spectrum with a doublet at 720 cm-minus 1, a band near 1470 cm-minus 1 (CH2 bend) is doubled also. A strong band at 890 cm-minus 1 present in the triglyceride spectra is weak or missing from the spectra of the analogs. A band at 1418 cm-minus 1 (bending of CH2 adjacent to C equal to 0) present in the triglyceride spectra is demonstrable only in the 1,2,3/0 derivatives in comparison with the other three series. In all series the dihydrosterculates show a decrease in apparent polarity, relative to the stearates, significantly greater than expected from the introduction of an additional carbon atom. The potential utility of the analogs as probes of the effects of conformation on the physical properties and enzymatic susceptibility of glycerides is discussed.

Use of P450 cytochrome inhibitors in studies of enokipodin biosynthesis

PubMed Central

Ishikawa, Noemia Kazue; Tahara, Satoshi; Namatame, Tomohiro; Farooq, Afgan; Fukushi, Yukiharu

2013-01-01

Enokipodins A, B, C, and D are antimicrobial sesquiterpenes isolated from the mycelial culture medium of Flammulina velutipes, an edible mushroom. The presence of a quaternary carbon stereocenter on the cyclopentane ring makes enokipodins A-D attractive synthetic targets. In this study, nine different cytochrome P450 inhibitors were used to trap the biosynthetic intermediates of highly oxygenated cuparene-type sesquiterpenes of F. velutipes. Of these, 1-aminobenzotriazole produced three less-highly oxygenated biosynthetic intermediates of enokipodins A-D; these were identified as (S)-(−)-cuparene-1,4-quinone and epimers at C-3 of 6-hydroxy-6-methyl-3-(1,2,2-trimethylcyclopentyl)-2-cyclohexen-1-one. One of the epimers was found to be a new compound. PMID:24688524

Effect of Test Environment on Lifetime of Two Vacuum Lubricants Determined by Spiral Orbit Tribometry

NASA Technical Reports Server (NTRS)

Pepper, Stephen V.

2006-01-01

The destruction rates of a perfluoropolyether (PFPE) lubricant, Krytox 143AC(TradeMark), subjected to rolling contact with 440C steel in a spiral orbit tribometer at room temperature have been evaluated as a function of test environment. The rates in ultrahigh vacuum, 0.21 3 kPa (1.6 Torr) oxygen and one atmosphere of dry nitrogen were about the same. Water vapor in the test environment - a few ppm in one atmosphere of nitrogen - reduced the destruction rate by up to an order of magnitude. A similar effect of water vapor was found for the destruction rate of Pennzane(Registered TradeMark) 2001A , an unformulated multiply alkylated cyclopentane (MAC) hydrocarbon oil.

Total Synthesis of (±)–Rocaglamide via Oxidation-Initiated Nazarov Cyclization

PubMed Central

Malona, John A.; Cariou, Kevin; Spencer, William T.

2012-01-01

This article describes the evolution of a Nazarov cyclization-based synthetic strategy targeting the anticancer, antiinflammatory, and insecticidal natural product (±)–rocaglamide. Initial pursuit of a polarized heteroaromatic Nazarov cyclization to construct the congested cyclopentane core revealed an unanticipated electronic bias in the pentadienyl cation. This reactivity was harnessed in a successful second-generation approach using an oxidation-initiated Nazarov cyclization of a heteroaryl alkoxyallene. Full details of these two approaches are given, as well as the characterization of undesired reaction pathways available to the Nazarov cyclization product. A sequence of experiments that led to an understanding of the unexpected reactivity of this key intermediate is described, which culminated in the successful total synthesis of (+)-rocaglamide. PMID:22283818

Biomarker insights into microbial activity in the serpentinite-hosted ecosystem of the Semail Ophiolite, Oman

NASA Astrophysics Data System (ADS)

Newman, S. A.; Lincoln, S. A.; Shock, E.; Kelemen, P. B.; Summons, R. E.

2012-12-01

Serpentinization is a process in which ultramafic and mafic rocks undergo exothermic reactions when exposed to water. The products of these reactions, including methane, hydrogen, and hydrogen sulfide, can sustain microbially dominated ecosystems [1,2,3]. Here, we report the lipid biomarker record of microbial activity in carbonate veins of the Semail Ophiolite, a site currently undergoing serpentinization [4]. The ophiolite, located in the Oman Mountains in the Sultanate of Oman, was obducted onto the Arabian continental margin during the closure of the southern Tethys Ocean (~70 Ma) [5]. We detected bacterial and archaeal glycerol dialkyl glycerol tetraether (GDGT) lipids in Semail carbonates. In addition to archaeal isoprenoidal GDGTs with 0-3 cyclopentane moieties, we detected crenarchaeol, an iGDGT containing 4 cyclopentane and 1 cyclohexane moiety. Crenarchaeol biosynthesis is currently understood to be limited to thaumarchaea, representatives of which have been found to fix inorganic carbon in culture. We also analyzed isoprenoidal diether lipids, potentially derived from methanogenic euryarchaea, as well as non-isoprenoidal diether and monoether lipids that may be indicative of methane cycling bacteria. The stable carbon isotopic composition of these compounds is potentially useful in determining both their origin and the origin of methane detected in ophiolite fluids. We compare our results to those found at the Lost City Hydrothermal Field, a similar microbially-dominated ecosystem fueled by serpentinization processes [3]. Modern serpentinite-hosted ecosystems such as this can serve as analogs for environments in which ultramafic and mafic rocks were prevalent (e.g. early Earth and other early terrestrial planets). Additionally, an analysis of modern serpentinite systems can help assess conditions promoting active carbon sequestration in ultramafic rocks [6]. References [1] Russell et al. (2010). Geobiology 8: 355-371. [2] Kelley et al. (2005). Science 307: 1428-1434. [3] Bradley et al. (2009). Geochimica Et Cosmochimica Acta 73 (1): 102-118. [4] Barnes et al. (1978). Geochimica Et Cosmochimica Acta 42: 144-145. [5] Nasir et al. (2007). Chemie Der Erde-Geochemistry 67(3): 213-228. [6] Kelemen et al. (2008). Proceedings of the National Academy of Sciences of the United States of America 45: 17295-17300.

Surfactant Effect on Hydrate Crystallization at the Oil-Water Interface.

PubMed

Dann, Kevin; Rosenfeld, Liat

2018-05-29

Gas hydrates pose economic and environmental risks to the oil and gas industry when plug formation occurs in pipelines. A novel approach was applied to understand cyclopentane clathrate hydrate formation in the presence of nonionic surfactant to achieve hydrate inhibition at low percent weight compared to thermodynamic inhibitors. The hydrate-inhibiting performance of low (CMC) concentrations of Span 20, Span 80, Pluronic L31, and Tween 65 at 2 °C on a manually nucleated 2 μL droplet showed a morphological shift in crystallization from planar shell growth to conical growth. Monitoring the internal pressure of the water droplet undergoing hydrate crystallization provides information on the change in interfacial tension during the crystallization process. The results of this study will provide information on the surfactant effect on hydrate crystallization and inhibition. At low surfactant concentrations (below CMC), a planar hydrate crystal was formed. Decreasing interfacial tension was observed, which can be related to the shrinking area of the water-cyclopentane interface. At high surfactant concentration, the crystal morphology was shifted to conical. Interfacial tension measurements reveal oscillations of the interfacial tension during the crystallization process. The oscillations of the interfacial tension result from the fact that once the crystal has reached a critical size a portion of the cone breaks free from the droplet surface, which results in a sudden increase in the available surface for the surfactant molecules. Hence, a temporary increase in the interfacial tension can be observed. The oscillatory behavior of the interfacial tension is a result of the growth and release of the hydrate cones from the surface of the droplet. We have found that the most efficient surfactant in hydrate inhibition would be the one with HLB closest to 10 (equal hydrophilic-hydrophobic parts). In this way, the surfactant molecules will stay at the interface as they observe equal affinities for both the oil and water phases. Surfactant molecules that have the strongest affinity to the interface will be able to inhibit the growth of the crystal as they will force the cones to break and will not allow them to grow.

Synthesis and performance characterization of 2-(dinitromethylene)-1-nitro-1, 3-diazacyclopentane

NASA Astrophysics Data System (ADS)

Liu, Pan; Qin, Weiyan

2018-04-01

The present paper described an new effort to synthesis 2-(dinitromethylene)-l-nitro-1, 3-diaza-cyclopentane (iv), characterization an thermal studies of (iv) are also reported. 2-(dinitromethylene)-1, 3-diazacyclo-pentane (i) was synthesized from the nucleophilic substitution of ethylenediamine and 1,1-diamino-2,2-dinitroethylene (FOX-7) catalyzed by Mg(OAc)2. Then i was transformed to iv through reactions of nitration, reduction and hydrolysis. The structure of iv was characterized by IR, NMR, MS and elemental analysis. Thermal stability of iv was investigated by thermogravimetry (TG) and differential scanning calorimetry (DSC) which revealed that decomposed at 131 °C. The experimentally determined sensitivity parameters indicated that iv is sensitive towards external stimuli. The performance of iv had been calculated using VLW equation and its crystal morphology was investigated by scanning electron microscopy (SEM).

Substitution of carcinogenic solvent dichloromethane for the extraction of volatile compounds in a fat-free model food system.

PubMed

Cayot, Nathalie; Lafarge, Céline; Bou-Maroun, Elias; Cayot, Philippe

2016-07-22

Dichloromethane is known as a very efficient solvent, but, as other halogenated solvents, is recognized as a hazardous product (CMR substance). The objective of the present work is to propose substitution solvent for the extraction of volatile compounds. The most important physico-chemical parameters in the choice of an appropriate extraction solvent of volatile compounds are reviewed. Various solvents are selected on this basis and on their hazard characteristics. The selected solvents, safer than dichloromethane, are compared using the extraction efficiency of volatile compounds from a model food product able to interact with volatile compounds. Volatile compounds with different hydrophobicity are used. High extraction yields were positively correlated with high boiling points and high Log Kow values of volatile compounds. Mixtures of solvents such as azeotrope propan-2-one/cyclopentane, azeotrope ethyl acetate/ethanol, and mixture ethyl acetate/ethanol (3:1, v/v) gave higher extraction yields than those obtained with dichloromethane. Copyright © 2016 Elsevier B.V. All rights reserved.

Cyclohexane Rings Reduce Membrane Permeability to Small Ions in Archaea-Inspired Tetraether Lipids.

PubMed

Koyanagi, Takaoki; Leriche, Geoffray; Onofrei, David; Holland, Gregory P; Mayer, Michael; Yang, Jerry

2016-01-26

Extremophile archaeal organisms overcome problems of membrane permeability by producing lipids with structural elements that putatively improve membrane integrity compared to lipids from other life forms. Herein, we describe a series of lipids that mimic some key structural features of archaeal lipids, such as: 1) single tethering of lipid tails to create fully transmembrane tetraether lipids and 2) the incorporation of small rings into these tethered segments. We found that membranes formed from pure tetraether lipids leaked small ions at a rate that was about two orders of magnitude slower than common bilayer-forming lipids. Incorporation of cyclopentane rings into the tetraether lipids did not affect membrane leakage, whereas a cyclohexane ring reduced leakage by an additional 40 %. These results show that mimicking certain structural features of natural archaeal lipids results in improved membrane integrity, which may help overcome limitations of many current lipid-based technologies. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Organic Rankine cycle - review and research directions in engine applications

NASA Astrophysics Data System (ADS)

Panesar, Angad

2017-11-01

Waste heat to power conversion using Organic Rankine Cycles (ORC) is expected to play an important role in CO2 reductions from diesel engines. Firstly, a review of automotive ORCs is presented focusing on the pure working fluids, thermal architectures and expanders. The discussion includes, but is not limited to: R245fa, ethanol and water as fluids; series, parallel and cascade as architectures; dry saturated, superheated and supercritical as expansion conditions; and scroll, radial turbine and piston as expansion machines. Secondly, research direction in versatile expander and holistic architecture (NOx + CO2) are proposed. Benefits of using the proposed unconventional approaches are quantified using Ricardo Wave and Aspen HYSYS for diesel engine and ORC modelling. Results indicate that, the implementation of versatile piston expander tolerant to two-phase and using cyclopentane can potentially increase the highway drive cycle power by 8%. Furthermore, holistic architecture offering complete utilisation of charge air and exhaust recirculation heat increased the performance noticeably to 5% of engine power at the design point condition.

Identification and Characterization of the Genes and Enzymes Belonging to the Bile Acid Catabolic Pathway in Pseudomonas.

PubMed

Luengo, José M; Olivera, Elías R

2017-01-01

The study of the catabolic potential of microbial species isolated from different habitats has allowed the identification and characterization of bacteria able to assimilate bile acids and other steroids (e.g., testosterone and 4-androsten-3,17-dione). From soil samples, we have isolated several strains belonging to genus Pseudomonas that grow efficiently in chemical defined media containing some cyclopentane-perhydro-phenantrene derivatives as carbon sources. Genetic and biochemical studies performed with one of these bacteria (P. putida DOC21) allowed the identification of the genes and enzymes belonging to the 9,10-seco pathway, the route involved in the aerobic assimilation of steroids. In this manuscript, we describe the most relevant methods required for (1) isolation and characterization of these species; (2) determining the chromosomal location, nucleotide sequence, and functional analysis of the catabolic genes (or gene clusters) encoding the enzymes from this pathway; and (3) the tools employed to establish the role of some of the proteins that participate in this route.

Steroid 11-Alpha-Hydroxylation by the Fungi Aspergillus nidulans and Aspergillus ochraceus.

PubMed

Ríos, Lidia Ortega-de Los; Luengo, José M; Fernández-Cañón, José M

2017-01-01

Steroids are a group of natural compounds derived from the cyclopentane-perhydro-phenantrene nucleus that have a great interest for the pharmaceutical industries as a consequence of their physiological effects. Among their functions are anti-inflammatory, immunosuppressive, or contraceptive activities. Nowadays, microbial transformation of steroid precursors is winning relevance opposite to the chemical synthesis, since it allows for decreasing time, expenses, and environmental pollution. Pharmaceutical industry tends to use cholesterol and phytosterols as starting materials due to their low cost. Aspergillus ochraceus and Aspergillus nidulans, a fungus whose biochemistry and genetics are well known, have been chosen because of their capacity of 11-α-hydroxylation over some steroids which confers on them their anti-inflammatory properties. We have cloned the genes encoding the 11-α-hydroxylase enzymatic activities with the aim to introduce them in other microorganisms, such as Mycobacterium smegmatis, used in the industry to split the side chain of phytosterols, and thus creating recombinant microorganisms able to generate useful steroids from cheap precursors in just one-step fermentation.

Differential alternating current chip calorimeter for in situ investigation of vapor-deposited thin films

NASA Astrophysics Data System (ADS)

Ahrenberg, M.; Shoifet, E.; Whitaker, K. R.; Huth, H.; Ediger, M. D.; Schick, C.

2012-03-01

Physical vapor deposition can be used to produce thin films with interesting material properties including extraordinarily stable organic glasses. We describe an ac chip calorimeter for in situ heat capacity measurements of as-deposited nanometer thin films of organic glass formers. The calorimetric system is based on a differential ac chip calorimeter which is placed in the vacuum chamber for physical vapor deposition. The sample is directly deposited onto one calorimetric chip sensor while the other sensor is protected against deposition. The device and the temperature calibration procedure are described. The latter makes use of the phase transitions of cyclopentane and the frequency dependence of the dynamic glass transition of toluene and ethylbenzene. Sample thickness determination is based on a finite element modeling of the sensor sample arrangement. In the modeling, a layer of toluene was added to the sample sensor and its thickness was varied in an iterative way until the model fit the experimental data.

Differential AC chip calorimeter for in situ investigation of vapor deposited thin films

NASA Astrophysics Data System (ADS)

Ahrenberg, Mathias; Schick, Christoph; Huth, Heiko; Schoifet, Evgeni; Ediger, Mark; Whitaker, Katie

2012-02-01

Physical vapor deposition (PVD) can be used to produce thin films with particular material properties like extraordinarily stable glasses of organic molecules. We describe an AC chip calorimeter for in-situ heat capacity measurements of as-deposited nanometer thin films of organic glass formers. The calorimetric system is based on a differential AC chip calorimeter which is placed in the vacuum chamber for physical vapor deposition. The sample is directly deposited onto one calorimetric chip sensor while the other sensor is protected against deposition. The device and the temperature calibration procedure are described. The latter makes use of the phase transitions of cyclopentane and the frequency dependence of the dynamic glass transition of toluene and ethylbenzene. Sample thickness determination is based on a finite element modeling (FEM) of the sensor sample arrangement. A layer of toluene was added to the sample sensor and its thickness was varied in an iterative way until the model fits the experimental data.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Demicheli, M.C.; Duprez, D.; Barbier, J.

The influence of potassium on the hydrogenolysis of cyclopentane and on the simultaneous carbon formation over a series of alumina-supported Ni catalysts was studied. With increasing potassium loadings at temperatures where either a deactivating two-dimensional carbon or a filamentary carbon was formed, the catalytic activity passed through a maximum and then decreased. With relatively high K-doses there was less coking in the presence of steam; the growth of filamentary carbon was then largely reduced. Characterization of the coked catalysts by temperature-programmed oxidation and SEM disclosed quite different roles of alkali: at lower contents, associated with alumina, potassium facilitates the formationmore » of filamentary carbon and minimizes the generation of coke precursors, whereas at higher contents it acts as a poison for both hydrogenolysis and coking reactions. In all cases, the alkali promoted the catalytic oxidation of the carbon deposits. Because of its localization, the alkali could also modify the nickel-carbon interface in carbon filaments. 32 refs., 12 figs., 5 tabs.« less

How strained are carbomeric-cycloalkanes?

PubMed

Wodrich, Matthew D; Gonthier, Jérôme F; Steinmann, Stephan N; Corminboeuf, Clémence

2010-06-24

The ring strain energies of carbomeric-cycloalkanes (molecules with one or more acetylene spacer units placed into carbon single bonds) are assessed using a series of isodesmic, homodesmotic, and hyperhomodesmotic chemical equations. Isodesmic bond separation reactions and other equations derived from the explicitly defined hierarchy of homodesmotic equations are insufficient for accurately determining these values, since not all perturbing effects (i.e., conjugation and hyperconjugation) are fully balanced. A set of homodesmotic reactions is proposed, which succeeds in balancing all stereoelectronic effects present within the carbomeric rings, allowing for a direct assessment of the strain energies. Values calculated from chemical equations are validated using an increment/additivity approach. The ring strain energy decreases as acetylene units are added, manifesting from the net stabilization gained by opening the C-CH(2)-C angle around the methylene groups and the destabilization arising from bending the C-C identical withC angles of the spacer groups. This destabilization vanishes with increasing parent ring size (i.e., the angle distortion is less in the carbomeric-cyclobutanes than in the carbomeric-cyclopropanes), leading to strain energies near zero for carbo(n)-cyclopentanes and carbo(n)-cyclohexanes.

Thermal, Morphological and Rheological Properties of Rigid Polyurethane Foams as Thermal Insulating Materials

NASA Astrophysics Data System (ADS)

Kim, Ji Mun; Han, Mi Sun; Kim, Youn Hee; Kim, Woo Nyon

2008-07-01

The polyurethane foams (PUFs) were prepared by polyether polyols, polymeric 4,4'-diphenylmethane diisocyanate (PMDI), silicone surfactants, amine catalysts and cyclopentane as a blowing agent. Solid and liquid type fillers were used as a nucleating agent to decrease a cell size of the PUFs as well as improve the thermal insulating properties of the PUFs. The PUFs were prepared by adding solid and liquid type fillers in the range of 1 to 3 wt%. For the liquid type fillers, the cell size of the PUFs showed minimum and found to decrease compared the PUF without adding fillers. Also, thermal conductivity of the PUFs with adding fillers showed minimum. For the solid type fillers, cell size and thermal conductivity of the PUFs were observed to decrease with the filler content up to 3 wt%. From these results, it is suggested that the thermal insulating property of the PUFs can be improved by adding fillers as a nucleating agent. Also, storage and loss modulus of the PUFs will be presented to study gelling points of the PUFs.

Synthesis and photophysical properties of a series of cyclopenta[b]naphthalene solvatochromic fluorophores.

PubMed

Benedetti, Erica; Kocsis, Laura S; Brummond, Kay M

2012-08-01

The synthesis and photophysical properties of a series of naphthalene-containing solvatochromic fluorophores are described within. These novel fluorophores are prepared using a microwave-assisted dehydrogenative Diels-Alder reaction of styrene, followed by a palladium-catalyzed cross coupling reaction to install an electron donating amine group. The new fluorophores are structurally related to Prodan. Photophysical properties of the new fluorophores were studied and intriguing solvatochromic behavior was observed. For most of these fluorophores, high quantum yields (60-99%) were observed in methylene chloride in addition to large Stokes shifts (95-226 nm) in this same solvent. As the solvent polarity increased, so did the observed Stokes shift with one derivative displaying a Stokes shift of ~300 nm in ethanol. All fluorophore emission maxima, and nearly all absorption maxima were significantly red-shifted when compared to Prodan. Shifting the absorption and emission maxima of a fluorophore into the visible region increases its utility in biological applications. Moreover, the cyclopentane portion of the fluorophore structure provides an attachment point for biomolecules that will minimize disruptions of the photophysical properties.

Structures of human Bruton's tyrosine kinase in active and inactive conformations suggest a mechanism of activation for TEC family kinases

DOE Office of Scientific and Technical Information (OSTI.GOV)

Marcotte, Douglas J.; Liu, Yu-Ting; Arduini, Robert M.

Bruton's tyrosine kinase (BTK), a member of the TEC family of kinases, plays a crucial role in B-cell maturation and mast cell activation. Although the structures of the unphosphorylated mouse BTK kinase domain and the unphosphorylated and phosphorylated kinase domains of human ITK are known, understanding the kinase selectivity profiles of BTK inhibitors has been hampered by the lack of availability of a high resolution, ligand-bound BTK structure. Here, we report the crystal structures of the human BTK kinase domain bound to either Dasatinib (BMS-354825) at 1.9 {angstrom} resolution or to 4-amino-5-(4-phenoxyphenyl)-7H-pyrrolospyrimidin- 7-yl-cyclopentane at 1.6 {angstrom} resolution. This data providesmore » information relevant to the development of small molecule inhibitors targeting BTK and the TEC family of nonreceptor tyrosine kinases. Analysis of the structural differences between the TEC and Src families of kinases near the Trp-Glu-Ile motif in the N-terminal region of the kinase domain suggests a mechanism of regulation of the TEC family members.« less

Synthesis and structural and conformational study of some esters derived from 8-β-hydroxy-3-phenethyl-3- azabicyclico [3.2.11] octan-8-α-carboxylic acid

NASA Astrophysics Data System (ADS)

Diez, M.; Izquierdo, M. L.; Arias, M. S.; Galvez, E.; Matesanz, E.; Martinez-Ripoll, M.

1991-09-01

A series of 8-β-hydroxy-8-α-alkoxycarbonyl- N-phenethyl-3-azabicyclo [3.2.1.]octane derivatives have been synthesized and studied by IR, 1H and 13C NMR spectroscopy, and the crystal structure of ethyl-8-β-hydroxy-3-phenethyl-3-azabicyclo [3.2.1] octan-8-α-carboxylate ( Va) has been determined by X-ray diffraction. In deuterochloroform and deuterobenzene the cyclopentane and piperidine rings of the title compounds show an envelope conformation flattened at C8 and a distorted chair conformation puckered at C8 and flattened at N3, respectively, with the N-substituent in an equatorial position. These results are in close agreement with that found for compound Va in the crystalline state. By comparing the NMR and X-ray parameters of the title compounds with those of the corresponding 8-α-hydroxy-8β-alkoxycarbonyl- N-phenethyl-3- azabicyclo [3.2.1] octane epimers and 3-phenethyl-3-azabicyclo [3.2.1] octan-8-α-(andβ)ol, several stereoelectronic effects have been deduced.

Specificity of neutral amino acid uptake at the basolateral side of the epithelium in the cat salivary gland in situ.

PubMed

Bustamante, J C; Mann, G E; Yudilevich, D L

1981-01-01

1. Amino acid uptake was measured in resting cat submandibular glands with either a natural blood supply or perfused at constant flow with a Krebs-albumin solution. Following a bolus arterial injection of a 3H-labelled amino acid and D-[14C]mannitol (extracellular reference tracer), the venous effluent was immediately sampled sequentially. The maximal uptake, Umax, from the blood or perfusate was determined from the paired-tracer dilution curves using the expression: uptake % = (1 -- (3H/14C) X 100). 2. In glands with a natural blood supply, Umax values up to 46% were measured for short-chain (serine and alanine) and long-chain (valine, methionine, leucine, isoleucine, 1-amino-cyclopentane cyclopentane carboxylic acid, phenylalanine, tryptophan, tyrosine, histidine and glutamine) neutral amino acids. In contrast, Umax was negligible for amino acids of the imino-glycine group (proline and glycine) and the nonmetabolized amino acids, 2-aminoisobutyric acid (AIB) and methylaminoisobutyric acid (MeAIB). 3. In glands with a natural blood supply addition of an unlabelled amino acid to the tracer injectate reduced Umax for the test acid by up to 80%. The pattern of these interactions suggested the presence of two transport systems for neutral amino acids, one preferring short-chain and the other long-chain amino acids. 4. In glands perfused at constant flow rates with an amino acid-free Krebs-albumin solution high Umax values were measured: L-serine (66%), L-alanine (54%), L-leucine (43%), L-phenylalanine (42%) and L-tyrosine (51%). Only a low uptake was observed for L-proline (8%) and glycine (14%). There was no uptake of methylaminoisobutyric acid which confirms the result obtained in glands with an intact circulation. 5. Saturation of L-phenylalanine influx was observed in perfused glands as the perfusate concentration of unlabelled L-phenylalanine was increased from 0.5 to 20 mmol . 1-1. A Michaelis--Menten analysis based on a single entry system indicated an apparent Km of 6.4 +/- 0.8 mmol . 1-1 and a Vmax of 1719 +/- 94 nmol . min-1g.-1 6. Since the fenestrated capillaries in the salivary gland are readily permeable to the test amino acid and D-mannitol, it is most probable that the amino acid carriers are located in the basolateral side of the epithelium. 7. The use of a paired-tracer dilution technique to measure uptake in a single circulatory passage has enabled a detailed characterization of neutral amino acid transport in the salivary gland and has overcome the limitation of previous studies based on solute transfer from blood to saliva.

Polyurethane Foams for Thermal Insulation Uses Produced from Castor Oil and Crude Glycerol Biopolyols.

PubMed

Carriço, Camila S; Fraga, Thaís; Carvalho, Vagner E; Pasa, Vânya M D

2017-07-02

Rigid polyurethane foams were synthesized using a renewable polyol from the simple physical mixture of castor oil and crude glycerol. The effect of the catalyst (DBTDL) content and blowing agents in the foams' properties were evaluated. The use of physical blowing agents (cyclopentane and n-pentane) allowed foams with smaller cells to be obtained in comparison with the foams produced with a chemical blowing agent (water). The increase of the water content caused a decrease in density, thermal conductivity, compressive strength, and Young's modulus, which indicates that the increment of CO₂ production contributes to the formation of larger cells. Higher amounts of catalyst in the foam formulations caused a slight density decrease and a small increase of thermal conductivity, compressive strength, and Young's modulus values. These green foams presented properties that indicate a great potential to be used as thermal insulation: density (23-41 kg·m -3 ), thermal conductivity (0.0128-0.0207 W·m -1 ·K -1 ), compressive strength (45-188 kPa), and Young's modulus (3-28 kPa). These biofoams are also environmentally friendly polymers and can aggregate revenue to the biodiesel industry, contributing to a reduction in fuel prices.

Milestone Report #2: Direct Evaporator Leak and Flammability Analysis Modifications and Optimization of the Organic Rankine Cycle to Improve the Recovery of Waste Heat

DOE Office of Scientific and Technical Information (OSTI.GOV)

Guillen, Donna Post

2013-09-01

The direct evaporator is a simplified heat exchange system for an Organic Rankine Cycle (ORC) that generates electricity from a gas turbine exhaust stream. Typically, the heat of the exhaust stream is transferred indirectly to the ORC by means of an intermediate thermal oil loop. In this project, the goal is to design a direct evaporator where the working fluid is evaporated in the exhaust gas heat exchanger. By eliminating one of the heat exchangers and the intermediate oil loop, the overall ORC system cost can be reduced by approximately 15%. However, placing a heat exchanger operating with a flammablemore » hydrocarbon working fluid directly in the hot exhaust gas stream presents potential safety risks. The purpose of the analyses presented in this report is to assess the flammability of the selected working fluid in the hot exhaust gas stream stemming from a potential leak in the evaporator. Ignition delay time for cyclopentane at temperatures and pressure corresponding to direct evaporator operation was obtained for several equivalence ratios. Results of a computational fluid dynamic analysis of a pinhole leak scenario are given.« less

Controlling Stereoselectivity and Chemoselectivity of Cyclopropyl Ketyl Radical Anions with Visible Light Photocatalysis

NASA Astrophysics Data System (ADS)

Amador, Adrian Gabriel

A defining characteristic of research in the Yoon laboratory is a focus on the formation and utilization of high-energy reactive intermediates to accomplish difficult transformations. Recent efforts have been aimed at controlling the reactivity of open-shell radical intermediates; both in terms of chemoselectivity and stereoselectivity. Transition metal photocatalysis has proven to be a particularly successful strategy for accomplishing a wide variety of transformations ranging from net redox neutral as well as net reductive and oxidative transformations. This thesis describes one such approach where the combination of a photocatalyst and a Lewis acid can be used to achieve highly selective and high yielding [3 + 2] cycloadditions between aryl cyclopropyl ketones and a wide range of unsaturated (e.g. olefin and imine) coupling partners. Key to the success of these studies was understanding and carefully optimizing both photocatalyst and Lewis acid to achieve the desired reactivity. These studies have resulted in the development of a highly enantioselective [3 + 2] cycloaddition between cyclopropyl ketones and olefins for the synthesis of cyclopentanes as well as the development of a more general redox-auxiliary approach for the [3 + 2] cycloaddition of cyclopropyl ketones and simple olefins and imine derivatives.

Conformation of kainic acid in solution from molecular modelling and NMR spectra.

PubMed

Falk, M; Sidhu, P; Walter, J A

1998-01-01

Conformational behaviour of kainic acid in aqueous solution was elucidated by molecular mechanics and dynamics. The pucker of the five-membered ring in kainic acid was examined and compared with that of model compounds. In cyclopentane there is no barrier to pseudorotation, so that all puckered states coexist. In pyrrolidinium, the presence of a hetero-atom in the ring introduces a small barrier (about 0.6 kcal mol(-1)) to pseudorotation, separating two stable regions, A and B, which are equivalent by symmetry. In proline, the presence of the carboxylate group on C2 removes the symmetry but two stable conformational minima, A and B, remain. In kainic acid, the presence of side-chains on C3 and C4 introduces complications resulting in additional sub-minima in both regions, A and B. In solution, kainic acid is a complex mixture of conformers with comparable energies, because of the combination of several stable states of the pyrrolidinium ring with the torsional degrees of freedom arising from the two side-chains. The individual geometries, energies, and estimates of relative populations of these conformers were obtained from molecular dynamics simulations. The calculations were validated by a comparison of predicted inter-proton distances and vicinal proton coupling constants with the experimental quantities derived from NMR spectra.

Lubricating oil dominates primary organic aerosol emissions from motor vehicles.

PubMed

Worton, David R; Isaacman, Gabriel; Gentner, Drew R; Dallmann, Timothy R; Chan, Arthur W H; Ruehl, Christopher; Kirchstetter, Thomas W; Wilson, Kevin R; Harley, Robert A; Goldstein, Allen H

2014-04-01

Motor vehicles are major sources of primary organic aerosol (POA), which is a mixture of a large number of organic compounds that have not been comprehensively characterized. In this work, we apply a recently developed gas chromatography mass spectrometry approach utilizing "soft" vacuum ultraviolet photoionization to achieve unprecedented chemical characterization of motor vehicle POA emissions in a roadway tunnel with a mass closure of >60%. The observed POA was characterized by number of carbon atoms (NC), number of double bond equivalents (NDBE) and degree of molecular branching. Vehicular POA was observed to predominantly contain cycloalkanes with one or more rings and one or more branched alkyl side chains (≥80%) with low abundances of n-alkanes and aromatics (<5%), similar to "fresh" lubricating oil. The gas chromatography retention time data indicates that the cycloalkane ring structures are most likely dominated by cyclohexane and cyclopentane rings and not larger cycloalkanes. High molecular weight combustion byproducts, that is, alkenes, oxygenates, and aromatics, were not present in significant amounts. The observed carbon number and chemical composition of motor vehicle POA was consistent with lubricating oil being the dominant source from both gasoline and diesel-powered vehicles, with an additional smaller contribution from unburned diesel fuel and a negligible contribution from unburned gasoline.

Synthesis and anti-HBV activity of α-stereoisomer of aristeromycin based analogs.

PubMed

Kasula, Mohan; Toyama, Masaaki; Samunuri, Ramakrishnamraju; Rozy, Farhana; Yadav, Monika; Bal, Chandralata; Jha, Ashok Kumar; Baba, Masanori; Sharon, Ashoke

2016-08-15

The potential antiviral activity of aristeromycin type of derivatives (I) is limited by associated toxicity due to its possible 5'-O-phosphorylation and S-adenosyl-l-homocysteine hydrolase (SAHase) inhibitory activity. Aristeromycin structure has major pharmacophoric motif as 5'-OH and adenosine base, which may have significant role in enzyme binding followed by activity and or toxicity. Thus, the structural optimization to alter this major motif by replacing with its bioisostere and changing the 5'-O conformation through stereochemistry reversal was of interest. Thus, the inverted stereochemistry at 4'-position coupled with bioisostere of adenosine base in the target compounds (6-7) to access antiviral potential. The stereoselective formation of a key stereoisomer (2a) was achieved exclusively from neplanocin sugar (1a) by reduction in a single step. The novel target molecules (6-7) were synthesized in 4 steps with 55-62% yield. Compound 6 was analyzed by single crystal X-ray diffraction, which confirms the stereoselective formation of α-analogs with highly puckered cyclopentane ring and 2'-endo conformation. The compound 6 shown significant anti-hepatitis B virus activity of 6.5μM with CC50>100μM and yielded a promising lead with novel structural feature. Copyright © 2016 Elsevier Ltd. All rights reserved.

High-pressure studies of cycloheptane up to 30 GPa

NASA Astrophysics Data System (ADS)

Ma, Chunli; Cui, Qiliang; Liu, Zhenxian

2013-06-01

High-pressure synchrotron angle dispersive x-ray diffraction, Raman scattering and infrared absorption studies have been performed on cycloheptane (C7H14) up to 30 GPa at room temperature by using diamond anvil cell techniques. The synchrotron x-ray diffraction results indicate that the liquid cyclopentane undergoes two phase transitions at around 0.5 and 1.0 GPa, respectively. Then, it gradually turns into glass state starting from 3.0 GPa. The features of the Raman scattering and infrared absorption show no significant changes with increasing pressure below 3 GPa. This implies that the two phases observed by the x-ray diffraction can be attributed to plastic phases in which the cycloheptane molecules are held in an ordered structure while the molecular orientation is disordered. Up on further compression, all Raman and infrared bands begin broadening around 3.0 GPa that provide further evidence on the transition to glass state. Our results also suggest different paths on phase transitions under isothermal compression at room temperature compare to that previously reported under isobaric cooling at ambient pressure. This work was supported by the NSF of China (91014004, 11004074,11074089), the specialized Research Fund for the Doctoral Program of Higher Education (20110061110011, 20100061120093), and the National Basic Research Program of China (2011CB808200).

Development of the ReaxFFCBN reactive force field for the improved design of liquid CBN hydrogen storage materials.

PubMed

Pai, Sung Jin; Yeo, Byung Chul; Han, Sang Soo

2016-01-21

Liquid CBN (carbon-boron-nitrogen) hydrogen-storage materials such as 3-methyl-1,2-BN-cyclopentane have the advantage of being easily accessible for use in current liquid-fuel infrastructure. To develop practical liquid CBN hydrogen-storage materials, it is of great importance to understand the reaction pathways of hydrogenation/dehydrogenation in the liquid phase, which are difficult to discover by experimental methods. Herein, we developed a reactive force field (ReaxFFCBN) from quantum mechanical (QM) calculations based on density functional theory for the storage of hydrogen in BN-substituted cyclic hydrocarbon materials. The developed ReaxFFCBN provides similar dehydrogenation pathways and energetics to those predicted by QM calculations. Moreover, molecular dynamics (MD) simulations with the developed ReaxFFCBN can predict the stability and dehydrogenation behavior of various liquid CBN hydrogen-storage materials. Our simulations reveal that a unimolecular dehydrogenation mechanism is preferred in liquid CBN hydrogen-storage materials. However, as the temperature in the simulation increases, the contribution of a bimolecular dehydrogenation mechanism also increases. Moreover, our ReaxFF MD simulations show that in terms of thermal stability and dehydrogenation kinetics, liquid CBN materials with a hexagonal structure are more suitable materials than those with a pentagonal structure. We expect that the developed ReaxFFCBN could be a useful protocol in developing novel liquid CBN hydrogen-storage materials.

Chemical composition, antibacterial and antioxidant activities of leaf essential oil and extracts of Metasequioa glyptostroboides Miki ex Hu.

PubMed

Bajpai, Vivek K; Al-Reza, Sharif M; Choi, Ung Kyu; Lee, Jong Hwi; Kang, Sun Chul

2009-08-01

The aims of this study were to analyze the chemical composition of leaf essential oil of Metasequioa glyptostroboides Miki, and to test the efficacy of oil and extracts (hexane, chloroform, ethyl acetate and methanol) against food spoilage and food-borne pathogenic bacteria and their antioxidant activity. The GC-MS analysis revealed 49 compounds representing 94.62% of the total oil containing 2-butaneone (30.6%), cyclopentane (15.1%), beta-myrcene (13.29%), cyclobutane (7.67%), furan (3%), valeramide (2.81%), borneol (1.2%), beta-farnesene (1.67%), thymol (1.44%) and alpha-pinene (1.46%) as major components. The oil (1000 microg/disc), and extracts (1500 microg/disc) exhibited promising antibacterial effect as a diameter of zones of inhibition (10-18 and 7-13 mm), respectively. MIC values of oil and the extracts were ranged 125-2000 and 250 to <2000 microg/ml, respectively. Also the oil had strong antibacterial effect on the viable counts. Scanning electron microscopic study demonstrated potential detrimental effect of the oil on the morphology of S. aureus KCTC1916. The free radical scavenging activities of the oil and ethyl acetate extract were found to be 11.32 and 19.12 microg/ml, respectively. Also the ethyl acetate extract revealed the highest phenolic contents (85.17 mg/g of dry wt) as compared to the other extracts.

Dissociative and associative mechanisms of cope rearrangements of fluorinated 1,5-hexadienes and 2,2'-bis-methylenecyclopentanes.

PubMed

Black, Kersey A; Wilsey, Sarah; Houk, K N

2003-06-04

The effects of fluorine substitution on the Cope rearrangements of 1,5-hexadiene and 2,2'-bis-methylenecyclopentane have been examined computationally using (U)B3LYP/6-31+G(d,p) and CASPT2/6-31G(d) methodology. The calculations indicate that fluorine substituents at the hexadiene termini generally stabilize the transition states relative to the ground states of the chair conformations and destabilize pathways that occur via boat conformations, in accord with the experimental observations of Dolbier. With meso-2,2'-bis(difluoromethylene)cyclopentane, this destabilization is sufficient to favor a relatively dissociative concerted transition state resembling weakly interacting allyl radicals over a normal aromatic concerted boat transition state. This preference is due partly to an increase in the activation enthalpy for the concerted rearrangement coupled with the more favorable entropy for dissociation. In octafluoro- and decafluorohexadienes, the situation is reversed, and reaction through a cyclohexane-1,4-diyl is favored. Even in the octafluoro system with no radical stabilizing substituents at C(2) and C(5), the preference of fluorine for sp(3) centers causes reaction via the cyclohexane-1,4-diyl. In establishing methodology for this study, the conformations of 1,2-difluoroethane and 1,1,2,2-tetrafluoroethane were also examined thoroughly by the B3LYP method using three basis sets.

Kinetic and thermodynamic selectivity of intermolecular C-H activation at [Tp'Rh(PMe3)]. How does the ancillary ligand affect the metal-carbon bond strength?

PubMed

Jiao, Yunzhe; Morris, James; Brennessel, William W; Jones, William D

2013-10-30

Tp'Rh(PMe3)(CH3)H was synthesized as a precursor to produce the coordinatively unsaturated fragment [Tp'Rh(PMe3)], which reacts with benzene, mesitylene, 3,3-dimethyl-1-butene, 2-methoxy-2-methylpropane, 2-butyne, acetone, pentane, cyclopentane, trifluoroethane, fluoromethane, dimethyl ether, and difluoromethane at ambient temperature to give only one product in almost quantitative yield in each case. All of the complexes Tp'Rh(PMe3)(R)H were characterized by NMR spectroscopy, and their halogenated derivatives were fully characterized by NMR spectroscopy, elemental analysis, and X-ray crystallography. The active species [Tp'Rh(PMe3)] was also able to activate the alkynyl C-H bond of terminal alkynes to give activation products of the type Tp'Rh(PMe3)(C≡CR)H (R = t-Bu, SiMe3, hexyl, CF3, Ph, p-MeOC6H4, and p-CF3C6H4). The measured relative rhodium-carbon bond strengths display two linear correlations with the corresponding carbon-hydrogen bond strengths, giving a slope of 1.54 for α-unsubstituted hydrocarbons and a slope of 1.71 for substrates with α-substitution. Similar trends of energy correlations were established by DFT calculated metal-carbon bond strengths for the same groups of substrates.

Evaluation of Several Space Lubricants using a Vacuum Four-Ball Tribometer

NASA Technical Reports Server (NTRS)

Jones, William R., Jr.; Poslowski, Agnieszka K.; Shogrin, Bradley A.; Herrera-Fierro, Pilar; Jansen, Mark J.

1998-01-01

The friction and wear behavior of seven space lubricants was investigated under boundary lubrication conditions using a vacuum four-ball tribometer. Three of the lubricants were perfluoropolyethers (143AC, S-200, and Z-25). Three were synthetic hydrocarbons (a multiply alkylated cyclopentane, 2001a), and a formulated version with an antiwear and an antioxidant additive (2001). The third hydrocarbon was an unformulated polyalphaolefin (PAO-100). An unformulated silahydrocarbon (SiHC) was also evaluated. Test conditions included: a pressure less than 6.7 x 10(exp 4) Pa, a 200 N load, a sliding velocity of 28.8 mm/sec (100 RPM), and room temperature (approx. 23 C). The wear rate for each lubricant was determined from the slope of wear volume as a function of sliding distance. The lowest wear rate (0.033 x 10(exp-9) cu mm/mm) was obtained with the silahydrocarbon. The formulated synthetic hydrocarbon had a wear rate off O.037 x 10(exp -9)cu mm/mm, which was a 36% reduction compared to the unformulated fluid. The polyalphaolefin had the highest wear rate of the non-PFPE fluids. Of the perfluoropolyethers (PFPEs), wear rates decreased by about 50% from Z-25 (1.7 x 10(exp -9)cu mm/mm) to S-200 (0.70 x 10(exp -9)cu mm/mm) to 143AC (0.21 x 10(exp -9)cu mm/mm).

Volatility and Wear Characteristics of a Variety of Liquid Lubricants for Space Applications

NASA Technical Reports Server (NTRS)

Nguyen, QuynhGiao N.; Jones, William R., Jr.

2001-01-01

The vapor pressures and wear characteristics are critical properties for liquid lubricants to assure long-term reliability and performance in space applications. Vapor pressures, obtained using a Knudsen cell technique, and wear properties, obtained using a vacuum four-ball apparatus, were measured for a series of unformulated liquid lubricants. These included two multiply alkylated cyclopentanes (MACs) (X-1000 and X2000), two linear perfluoropolyalkylethers (PFPAEs) (Z-25 and 815Z), and four silahydrocarbons (a tri, a tetra, and two pentas). Vapor pressures were measured at three elevated temperatures (423, 448, and 498 K) and extrapolated to room temperature 298 K. The lowest 298 K vapor pressure of 5.7 x 10(exp -14) Pa was obtained with the PFPAE fluid (815Z) and the highest value with the low molecular weight MAC (X-1000) at 3.6 x 10(exp -7) Pa. In addition, vacuum wear rates were determined for some of the lubricants. The lowest wear rates (approximately 3 x 10(exp -11) cubic mm/mm) were observed for three of the silahydrocarbons while the highest wear rates (approximately 2 x 10(exp -9) cubic mm/mm) were observed with the two PFPAE fluids (Z-25 and 815Z). The MAC (X-2000) yielded a wear rate of about 10(exp -10) cubic mm/mm. The results indicated that the silahydrocarbon class of liquid lubricants offers the better potential for space applications.

Volatility and Wear Characteristics of a Variety of Liquid Lubricants for Space Applications

NASA Technical Reports Server (NTRS)

Nguyen, Quynhgiao N.; Jones, William R., Jr.

2001-01-01

The vapor pressures and near characteristics are critical properties for liquid lubricants to assure long-term reliability and performance in space applications. Vapor pressures, obtained using a Knudsen cell technique, and near properties, obtained using a vacuum four-ball apparatus, were measured for a series of unformulated liquid lubricants. These include: two multiple alkylated cyclopentanes (MACs) (X-1000 and X-2000), two linear perfluoropolyalkylethers (PFPAEs) (Z-25 and 815Z), and four silahydrocarbons (a tri-, a tetra-, and two pentas). Vapor pressures were measured at three elevated temperatures (423, 448, and 498 K) and extrapolated to room temperature 298 K. The lowest 298 K vapor pressure of 5.7 x 10(exp -14) Pa, was obtained with the PFPAE fluid (815Z) and the highest value with the low molecular weight MAC (X-1000) at 3.6 x 10(exp -7) Pa. In addition, vacuum near rates were determined for some of the lubricants. The lowest wear rates (approximately 3 x 10(exp -11) cubic mm/mm) were observed for three of the silahydrocarbons while the highest wear rate (approximately 2 x 10(exp-9) cubic mm/mm) were observed with the two PFPAE fluids (Z-25 and 815Z). The MAC (X-2000) yielded a wear rate of about 10(exp -10) cubic mm/mm. The results indicated that the silahydrocarbon class of liquid lubricants offers the better potential for space applications.

Suppression of Hepatocellular Carcinoma by Inhibition of Overexpressed Ornithine Aminotransferase.

PubMed

Zigmond, Ehud; Ben Ya'acov, Ami; Lee, Hyunbeom; Lichtenstein, Yoav; Shalev, Zvi; Smith, Yoav; Zolotarov, Lidya; Ziv, Ehud; Kalman, Rony; Le, Hoang V; Lu, Hejun; Silverman, Richard B; Ilan, Yaron

2015-08-13

Hepatocellular carcinoma is the second leading cause of cancer death worldwide. DNA microarray analysis identified the ornithine aminotransferase (OAT) gene as a prominent gene overexpressed in hepatocellular carcinoma (HCC) from Psammomys obesus. In vitro studies demonstrated inactivation of OAT by gabaculine (1), a neurotoxic natural product, which suppressed in vitro proliferation of two HCC cell lines. Alpha-fetoprotein (AFP) secretion, a biomarker for HCC, was suppressed by gabaculine in both cell lines, but not significantly. Because of the active site similarity between GABA aminotransferase (GABA-AT) and OAT, a library of 24 GABA-AT inhibitors was screened to identify a more selective inhibitor of OAT. (1S,3S)-3-Amino-4-(hexafluoropropan-2-ylidene)cyclopentane-1-carboxylic acid (2) was found to be an inactivator of OAT that only weakly inhibits GABA-AT, l-aspartate aminotransferase, and l-alanine aminotransferase. In vitro administration of 2 significantly suppressed AFP secretion in both Hep3B and HepG2 HCC cells; in vivo, 2 significantly suppressed AFP serum levels and tumor growth in HCC-harboring mice, even at 0.1 mg/kg. Overexpression of the OAT gene in HCC and the ability to block the growth of HCC by OAT inhibitors support the role of OAT as a potential therapeutic target to inhibit HCC growth. This is the first demonstration of suppression of HCC by an OAT inactivator.

Cu(II) binding by a pH-fractionated fulvic acid

USGS Publications Warehouse

Brown, G.K.; Cabaniss, S.E.; MacCarthy, P.; Leenheer, J.A.

1999-01-01

The relationship between acidity, Cu(II) binding and sorption to XAD resin was examined using Suwannee River fulvic acid (SRFA). The work was based on the hypothesis that fractions of SRFA eluted from an XAD column at various pH's from 1.0 to 12.0 would show systematic variations in acidity and possibly aromaticity which in turn would lead to different Cu(II) binding properties. We measured equilibrium Cu(II) binding to these fractions using Cu2+ ion-selective electrode (ISE) potentiometry at pH 6.0. Several model ligands were also examined, including cyclopentane-1,2,3,4-tetracarboxylic acid (CP-TCA) and tetrahydrofuran-2,3,4,5-tetracarboxylic acid (THF-TCA), the latter binding Cu(II) much more strongly as a consequence of the ether linkage. The SRFA Cu(II) binding properties agreed with previous work at high ionic strength, and binding was enhanced substantially at lower ionic strength, in agreement with Poisson-Boltzmann predictions for small spheres. Determining Cu binding constants (K(i)) by non-linear regression with total ligand concentrations (L(Ti)) taken from previous work, the fractions eluted at varying pH had K(i) similar to the unfractionated SRFA, with a maximum enhancement of 0.50 log units. We conclude that variable-pH elution from XAD does not isolate significantly strong (or weak) Cu(II)-binding components from the SRFA mixture. Copyright (C) 1999 Elsevier Science B.V.

Anti-Adhesive Behaviors between Solid Hydrate and Liquid Aqueous Phase Induced by Hydrophobic Silica Nanoparticles.

PubMed

Min, Juwon; Baek, Seungjun; Somasundaran, P; Lee, Jae W

2016-09-20

This study introduces an "anti-adhesive force" at the interface of solid hydrate and liquid solution phases. The force was induced by the presence of hydrophobic silica nanoparticles or one of the common anti-agglomerants (AAs), sorbitan monolaurate (Span 20), at the interface. The anti-adhesive force, which is defined as the maximum pushing force that does not induce the formation of a capillary bridge between the cyclopentane (CP) hydrate particle and the aqueous solution, was measured using a microbalance. Both hydrophobic silica nanoparticles and Span 20 can inhibit adhesion between the CP hydrate probe and the aqueous phase because silica nanoparticles have an aggregative property at the interface, and Span 20 enables the hydrate surface to be wetted with oil. Adding water-soluble sodium dodecyl sulfate (SDS) to the nanoparticle system cannot affect the aggregative property or the distribution of silica nanoparticles at the interface and, thus, cannot change the anti-adhesive effect. However, the combined system of Span 20 and SDS dramatically reduces the interfacial tension: emulsion drops were formed at the interface without any energy input and were adsorbed on the CP hydrate surface, which can cause the growth of hydrate particles. Silica nanoparticles have a good anti-adhesive performance with a relatively smaller dosage and are less influenced by the presence of molecular surfactants; consequently, these nanoparticles may have a good potential for hydrate inhibition as AAs.

Increasing Gas Hydrate Formation Temperature for Desalination of High Salinity Produced Water with Secondary Guests

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cha, Jong-Ho; Seol, Yongkoo

We suggest a new gas hydrate-based desalination process using water-immiscible hydrate formers; cyclopentane (CP) and cyclohexane (CH) as secondary hydrate guests to alleviate temperature requirements for hydrate formation. The hydrate formation reactions were carried out in an isobaric condition of 3.1 MPa to find the upper temperature limit of CO2 hydrate formation. Simulated produced water (8.95 wt % salinity) mixed with the hydrate formers shows an increased upper temperature limit from -2 °C for simple CO2 hydrate to 16 and 7 °C for double (CO2 + CP) and (CO2 + CH) hydrates, respectively. The resulting conversion rate to double hydratemore » turned out to be similar to that with simple CO2 hydrate at the upper temperature limit. Hydrate formation rates (Rf) for the double hydrates with CP and CH are shown to be 22 and 16 times higher, respectively, than that of the simple CO2 hydrate at the upper temperature limit. Such mild hydrate formation temperature and fast formation kinetics indicate increased energy efficiency of the double hydrate system for the desalination process. Dissociated water from the hydrates shows greater than 90% salt removal efficiency for the hydrates with the secondary guests, which is also improved from about 70% salt removal efficiency for the simple hydrates.« less

A Chemical Alphabet for Macromolecular Communications.

PubMed

Giannoukos, Stamatios; McGuiness, Daniel Tunç; Marshall, Alan; Smith, Jeremy; Taylor, Stephen

2018-06-08

Molecular communications in macroscale environments is an emerging field of study driven by the intriguing prospect of sending coded information over olfactory networks. For the first time, this article reports two signal modulation techniques (on-off keying-OOK, and concentration shift keying-CSK) which have been used to encode and transmit digital information using odors over distances of 1-4 m. Molecular transmission of digital data was experimentally investigated for the letter "r" with a binary value of 01110010 (ASCII) for a gas stream network channel (up to 4 m) using mass spectrometry (MS) as the main detection-decoding system. The generation and modulation of the chemical signals was achieved using an automated odor emitter (OE) which is based on the controlled evaporation of a chemical analyte and its diffusion into a carrier gas stream. The chemical signals produced propagate within a confined channel to reach the demodulator-MS. Experiments were undertaken for a range of volatile organic compounds (VOCs) with different diffusion coefficient values in air at ambient conditions. Representative compounds investigated include acetone, cyclopentane, and n-hexane. For the first time, the binary code ASCII (American Standard Code for Information Interchange) is combined with chemical signaling to generate a molecular representation of the English alphabet. Transmission experiments of fixed-width molecular signals corresponding to letters of the alphabet over varying distances are shown. A binary message corresponding to the word "ion" was synthesized using chemical signals and transmitted within a physical channel over a distance of 2 m.

Sequential biodegradation of complex naphtha hydrocarbons under methanogenic conditions in two different oil sands tailings.

PubMed

Mohamad Shahimin, Mohd Faidz; Siddique, Tariq

2017-02-01

Methane emissions in oil sands tailings ponds are sustained by anaerobic biodegradation of unrecovered hydrocarbons. Naphtha (primarily C 6 -C 10 ; n- iso- and cycloalkanes) is commonly used as a solvent during bitumen extraction process and its residue escapes to tailings ponds during tailings deposition. To investigate biodegradability of hydrocarbons in naphtha, mature fine tailings (MFT) collected from Albian and CNRL tailings ponds were amended with CNRL naphtha at ∼0.2 wt% (∼2000 mg L -1 ) and incubated under methanogenic conditions for ∼1600 d. Microbial communities in both MFTs started metabolizing naphtha after a lag phase of ∼100 d. Complete biodegradation/biotransformation of all n-alkanes (except partial biodegradation of n-octane in CNRL MFT) followed by major iso-alkanes (2-methylpentane, 3-methylhexane, 2- and 4-methylheptane, iso-nonanes and 2-methylnonane) and a few cycloalkanes (derivatives of cyclopentane and cyclohexane) was observed during the incubation. 16S rRNA gene pyrosequencing showed dominance of Peptococcaceae and Anaerolineaceae in Albian MFT and Anaerolineaceae and Syntrophaceae in CNRL MFT bacterial communities with co-domination of Methanosaetaceae and "Candidatus Methanoregula" in archaeal populations during active biodegradation of hydrocarbons. The findings extend the known range of hydrocarbons susceptible to methanogenic biodegradation in petroleum-impacted anaerobic environments and help refine existing kinetic model to predict greenhouse gas emissions from tailings ponds. Copyright © 2016 Elsevier Ltd. All rights reserved.

Micromechanical cohesion force between gas hydrate particles measured under high pressure and low temperature conditions.

PubMed

Lee, Bo Ram; Sum, Amadeu K

2015-04-07

To prevent hydrate plugging conditions in the transportation of oil/gas in multiphase flowlines, one of the key processes to control is the agglomeration/deposition of hydrate particles, which are determined by the cohesive/adhesive forces. Previous studies reporting measurements of the cohesive/adhesive force between hydrate particles used cyclopentane hydrate particles in a low-pressure micromechanical force apparatus. In this study, we report the cohesive forces of particles measured in a new high-pressure micromechanical force (MMF) apparatus for ice particles, mixed (methane/ethane, 74.7:25.3) hydrate particles (Structure II), and carbon dioxide hydrate particles (Structure I). The cohesive forces are measured as a function of the contact time, contact force, temperature, and pressure, and determined from pull-off measurements. For the measurements performed of the gas hydrate particles in the gas phase, the determined cohesive force is about 30-35 mN/m, about 8 times higher than the cohesive force of CyC5 hydrates in the liquid CyC5, which is about 4.3 mN/m. We show from our results that the hydrate structure (sI with CO2 hydrates and sII with CH4/C2H6 hydrates) has no influence on the cohesive force. These results are important in the deposition of a gas-dominated system, where the hydrate particles formed in the liquid phase can then stick to the hydrate deposited in the wall exposed to the gas phase.

Toxicological and ecotoxicological properties of gas-to-liquid (GTL) products. 1. Mammalian toxicology.

PubMed

Boogaard, Peter J; Carrillo, Juan-Carlos; Roberts, Linda G; Whale, Graham F

2017-02-01

Gas-to-liquid (GTL) products are synthetic hydrocarbons produced from natural gas using a Fischer-Tropsch process. This process yields a synthetic crude oil that consists of saturated hydrocarbons, primarily linear alkanes, with increasing amounts of branched (methyl-groups) alkanes as the chains get longer. In addition, small amounts of cycloalkanes (branched cyclopentanes and cyclohexanes) may be formed as the polymerization reaction prolongs. This synthetic crude can subsequently be refined to a range of products very similar to petroleum refining. However, in contrast to their petroleum-derived analogs, GTL products are essentially free of unsaturated or aromatic constituents and also no sulfur-, oxygen-, or nitrogen-containing constituents are present. From a regulatory perspective, GTL products are new substances which require extensive testing to assess their hazardous properties. As a consequence, a wide range of GTL products, covering the entire portfolio of GTL products, have been tested over the past few years in a wide variety of toxicological studies, including reproductive and prenatal development toxicity studies. This review provides an overview of the hazardous properties of the various GTL products. In general, the data collected on GTL products provide strong proof that they exert minimal health effects. In addition, these data provide supporting evidence for what is known on the mechanisms of mammalian toxicology of their petroleum-derived analogs. In the few cases where adverse effects were found for the GTL substances, these were usually less severe than the adverse effects observed with their petroleum-derived analogs.

In situ production of branched glycerol dialkyl glycerol tetraethers in a great basin hot spring (USA).

PubMed

Zhang, Chuanlun L; Wang, Jinxiang; Dodsworth, Jeremy A; Williams, Amanda J; Zhu, Chun; Hinrichs, Kai-Uwe; Zheng, Fengfeng; Hedlund, Brian P

2013-01-01

Branched glycerol dialkyl glycerol tetraethers (bGDGTs) are predominantly found in soils and peat bogs. In this study, we analyzed core (C)-bGDGTs after hydrolysis of polar fractions using liquid chromatography-atmospheric pressure chemical ionization-mass spectrometry and analyzed intact P-bGDGTs using total lipid extract (TLE) without hydrolysis by liquid chromatography-electrospray ionization-multiple stage mass spectrometry. Our results show multiple lines of evidence for the production of bGDGTs in sediments and cellulolytic enrichments in a hot spring (62-86°C) in the Great Basin (USA). First, in situ cellulolytic enrichment led to an increase in the relative abundance of hydrolysis-derived P-bGDGTs over their C-bGDGT counterparts. Second, the hydrolysis-derived P- and C-bGDGT profiles in the hot spring were different from those of the surrounding soil samples; in particular, a monoglycosidic bGDGT Ib containing 13,16-dimethyloctacosane and one cyclopentane moiety was detected in the TLE but it was undetectable in surrounding soil samples even after sample enrichments. Third, previously published 16S rRNA gene pyrotag analysis from the same lignocellulose samples demonstrated the enrichment of thermophiles, rather than mesophiles, and total bGDGT abundance in cellulolytic enrichments correlated with the relative abundance of 16S rRNA gene pyrotags from thermophilic bacteria in the phyla Bacteroidetes, Dictyoglomi, EM3, and OP9 ("Atribacteria"). These observations conclusively demonstrate the production of bGDGTs in this hot spring; however, the identity of organisms that produce bGDGTs in the geothermal environment remains unclear.

Geochemical Approach to Archaeal Ecology: δ13C of GDGTs

NASA Astrophysics Data System (ADS)

Lichtin, S.; Warren, C.; Pearson, A.; Pagani, M.

2015-12-01

Over the last decade and a half, glycerol dialkyl glycerol tetraethers (GDGTs) have increasingly been used to reconstruct environmental temperatures; proxies like TEX86 that correlate the relative abundance of these archaeal cell membrane lipids to sea surface temperature are omnipresent in paleoclimatology literature. While it has become common to make claims about past temperatures using GDGTs, our present understanding of the organisms that synthesize the compounds is still quite limited. The generally accepted theory states that microorganisms like the Thaumarchaeota modify the structure of membrane lipids to increase intermolecular interactions, strengthening the membrane at higher temperatures. Yet to date, culture experiments have been largely restricted to a single species, Nitrosopumilus maritimes, and recent studies on oceanic archaeal rRNA have revealed that these biomarkers are produced in diverse, heterogeneous, and site-specific communities. This brings up questions as to whether different subclasses of GDGTs, and all subsequent proxies, represent adaptation within a single organismal group or a shift in community composition. To investigate whether GDGTs with different chain structures, from the simple isoprenoidal GDGT-0 to Crenarchaeol with its many cyclopentane groups, are sourced from archaea with similar or disparate metabolic pathways—and if that information is inherited in GDGTs trapped in marine sediments—this study examines the stable carbon isotope values (δ13C) of GDGTs extracted from the uppermost meters of sediment in the Orca Basin, Gulf of Mexico, using spooling-wire microcombustion isotope-ratio mass spectrometer (SWiM-IRMS), tackling a fundamental assumption of the TEX86 proxy that influences the way we perceive the veracity of existing temperature records.

X-ray diffraction and infrared spectroscopy of N,N-dimethylformamide and dimethyl sulfoxide solvatomorphs of betulonic acid.

PubMed

Boryczka, Stanisław; Jastrzebska, Maria; Bębenek, Ewa; Kusz, Joachim; Zubko, Maciej; Kadela, Monika; Michalik, Ewa

2012-12-01

X-ray diffraction and infrared spectroscopy measurements for the N,N-dimethylformamide (DMF) and dimethyl sulfoxide (DMSO) solvatomorphs of betulonic acid (BA) were investigated. BA [3-oxolup-20(29)-en-28-oic acid, C(30)H(46)O(3)] exhibits a wide spectrum of biological activities and is considered to be a promising natural agent for the treatment of various cancer diseases. BA as a noncrystalline substance was obtained by oxidation of betulin. Crystal structures and the spectral data allowed analysis of hydrogen bonding (H-bonding), molecular conformation, and crystal packing differences in the solvatomorphs. Crystals of BA solvates were grown from the DMF-acetone (1:10, v/v) and DMSO-water (9:1, v/v) solutions. BA-DMF (1:1) solvate crystallizes in the monoclinic P2(1) space group, Z = 2. The unit cell parameters are as follows: cell lengths a = 13.2458(5) Å, b = 6.6501(2) Å, c = 17.9766(7) Å, and β = 110.513(4)°. BA-DMSO (1:1) solvate crystallizes in the orthorhombic P2(1)2(1)2(1) (Z = 4) space group with the following unit cell parameters: a = 6.6484(4) Å, b = 13.3279(8) Å, and c = 32.6821(19) Å. Conformational analysis of the six-membered rings, cyclopentane ring, and isopropenyl group showed differences in comparison with other betulin derivatives examined earlier. For both solvates, the intermolecular packing arrangement was governed mainly by H-bonds. The shortest H-bonds with D···A distances of 2.604 and 2.657 Å, and almost linear DH···A connection occurred between OH of carboxylic group of BA and oxygen atoms from O=C and O=S groups of DMF and DMSO, respectively. Copyright © 2012 Wiley Periodicals, Inc.

Volatile-organic molecular characterization of shale-oil produced water from the Permian Basin

USGS Publications Warehouse

Khan, Naima A.; Engle, Mark A.; Dungan, Barry; Holguin, F. Omar; Xu, Pei; Carroll, Kenneth C.

2016-01-01

Growth in unconventional oil and gas has spurred concerns on environmental impact and interest in beneficial uses of produced water (PW), especially in arid regions such as the Permian Basin, the largest U.S. tight-oil producer. To evaluate environmental impact, treatment, and reuse potential, there is a need to characterize the compositional variability of PW. Although hydraulic fracturing has caused a significant increase in shale-oil production, there are no high-resolution organic composition data for the shale-oil PW from the Permian Basin or other shale-oil plays (Eagle Ford, Bakken, etc.). PW was collected from shale-oil wells in the Midland sub-basin of the Permian Basin. Molecular characterization was conducted using high-resolution solid phase micro extraction gas chromatography time-of-flight mass spectrometry. Approximately 1400 compounds were identified, and 327 compounds had a >70% library match. PW contained alkane, cyclohexane, cyclopentane, BTEX (benzene, toluene, ethylbenzene, and xylene), alkyl benzenes, propyl-benzene, and naphthalene. PW also contained heteroatomic compounds containing nitrogen, oxygen, and sulfur. 3D van Krevelen and double bond equivalence versus carbon number analyses were used to evaluate molecular variability. Source composition, as well as solubility, controlled the distribution of volatile compounds found in shale-oil PW. The salinity also increased with depth, ranging from 105 to 162 g/L total dissolved solids. These data fill a gap for shale-oil PW composition, the associated petroleomics plots provide a fingerprinting framework, and the results for the Permian shale-oil PW suggest that partial treatment of suspended solids and organics would support some beneficial uses such as onsite reuse and bio-energy production.

Factors Controlling the Distribution of Archaeal Tetraethers in Terrestrial Hot Springs▿

PubMed Central

Pearson, Ann; Pi, Yundan; Zhao, Weidong; Li, WenJun; Li, Yiliang; Inskeep, William; Perevalova, Anna; Romanek, Christopher; Li, Shuguang; Zhang, Chuanlun L.

2008-01-01

Glycerol dialkyl glycerol tetraethers (GDGTs) found in hot springs reflect the abundance and community structure of Archaea in these extreme environments. The relationships between GDGTs, archaeal communities, and physical or geochemical variables are underexamined to date and when reported often result in conflicting interpretations. Here, we examined profiles of GDGTs from pure cultures of Crenarchaeota and from terrestrial geothermal springs representing a wide distribution of locations, including Yellowstone National Park (United States), the Great Basin of Nevada and California (United States), Kamchatka (Russia), Tengchong thermal field (China), and Thailand. These samples had temperatures of 36.5 to 87°C and pH values of 3.0 to 9.2. GDGT abundances also were determined for three soil samples adjacent to some of the hot springs. Principal component analysis identified four factors that accounted for most of the variance among nine individual GDGTs, temperature, and pH. Significant correlations were observed between pH and the GDGTs crenarchaeol and GDGT-4 (four cyclopentane rings, m/z 1,294); pH correlated positively with crenarchaeol and inversely with GDGT-4. Weaker correlations were observed between temperature and the four factors. Three of the four GDGTs used in the marine TEX86 paleotemperature index (GDGT-1 to -3, but not crenarchaeol isomer) were associated with a single factor. No correlation was observed for GDGT-0 (acyclic caldarchaeol): it is effectively its own variable. The biosynthetic mechanisms and exact archaeal community structures leading to these relationships remain unknown. However, the data in general show promise for the continued development of GDGT lipid-based physiochemical proxies for archaeal evolution and for paleo-ecology or paleoclimate studies. PMID:18390673

Factors controlling the distribution of archaeal tetraethers in terrestrial hot springs.

PubMed

Pearson, Ann; Pi, Yundan; Zhao, Weidong; Li, WenJun; Li, Yiliang; Inskeep, William; Perevalova, Anna; Romanek, Christopher; Li, Shuguang; Zhang, Chuanlun L

2008-06-01

Glycerol dialkyl glycerol tetraethers (GDGTs) found in hot springs reflect the abundance and community structure of Archaea in these extreme environments. The relationships between GDGTs, archaeal communities, and physical or geochemical variables are underexamined to date and when reported often result in conflicting interpretations. Here, we examined profiles of GDGTs from pure cultures of Crenarchaeota and from terrestrial geothermal springs representing a wide distribution of locations, including Yellowstone National Park (United States), the Great Basin of Nevada and California (United States), Kamchatka (Russia), Tengchong thermal field (China), and Thailand. These samples had temperatures of 36.5 to 87 degrees C and pH values of 3.0 to 9.2. GDGT abundances also were determined for three soil samples adjacent to some of the hot springs. Principal component analysis identified four factors that accounted for most of the variance among nine individual GDGTs, temperature, and pH. Significant correlations were observed between pH and the GDGTs crenarchaeol and GDGT-4 (four cyclopentane rings, m/z 1,294); pH correlated positively with crenarchaeol and inversely with GDGT-4. Weaker correlations were observed between temperature and the four factors. Three of the four GDGTs used in the marine TEX(86) paleotemperature index (GDGT-1 to -3, but not crenarchaeol isomer) were associated with a single factor. No correlation was observed for GDGT-0 (acyclic caldarchaeol): it is effectively its own variable. The biosynthetic mechanisms and exact archaeal community structures leading to these relationships remain unknown. However, the data in general show promise for the continued development of GDGT lipid-based physiochemical proxies for archaeal evolution and for paleo-ecology or paleoclimate studies.

Carbon-hydrogen activation of cycloalkanes by cyclopentadienylcarbonylrhodium--a lifetime enigma.

PubMed

Pitts, Amanda L; Wriglesworth, Alisdair; Sun, Xue-Zhong; Calladine, James A; Zarić, Snežana D; George, Michael W; Hall, Michael B

2014-06-18

Carbon-hydrogen bond activation reactions of four cycloalkanes (C5H10, C6H12, C7H14, and C8H16) by the Cp'Rh(CO) fragments (Cp' = η(5)-C5H5 (Cp) or η(5)-C5Me5 (Cp*)) were modeled theoretically by combining density functional and coupled cluster theories, and their reaction rates were measured by fast time-resolved infrared spectroscopy. The reaction has two steps, starting with the formation of a σ-complex intermediate, followed by oxidative addition of the C-H bond by the rhodium. A range of σ-complex stabilities among the electronically unique C-H bonds in a cycloalkane were calculated and are related to the individual strengths of the C-H bond's interactions with the Rh fragment and the steric repulsion that is incurred upon forming the specific σ-complex. The unexpectedly large increase in the lifetimes of the σ-complexes from cyclohexane to cycloheptane was predicted to be due to the large range of stabilities of the different σ-complexes found for cycloheptane. The reaction lifetimes were simulated with two mechanisms, with and without migrations among the different σ-complexes, to determine if ring migrations prior to C-H activation were influencing the rate. Both mechanisms predicted similar lifetimes for cyclopentane, cyclohexane, and, to a lesser extent, cycloheptane, suggesting ring migrations do not have a large impact on the rate of C-H activation for these cycloalkanes. For cyclooctane, the inclusion of ring migrations in the reaction mechanism led to a more accurate prediction of the lifetime, indicating that ring migrations did have an effect on the rate of C-H activation for this alkane, and that migration among the σ-complexes is faster than the C-H activation for this larger cycloalkane.

An Evaluation of Liquid, Solid, and Grease Lubricants for Space Mechanisms Using a Spiral Orbit Tribometer

NASA Technical Reports Server (NTRS)

Buttery, Michael

2010-01-01

We present the findings of the test program performed by The European Space Tribology Laboratory (ESTL) to evaluate the performance (friction and lifetime) of a number of space lubricants under vacuum using a Spiral Orbit Tribometer (SOT). Focus was given to a comparison of various popular space oils, a comparison study between the old and new MAPLUB grease formulations, and the performance of commonly used solid lubricants under various conditions. Tests demonstrated that the lifetimes of hydrocarbon NYE oils 2001 & 2001A outperformed those of the perfluroropolyalkylether (PFPE) oils Fomblin Z25 & Z60, though these pairs displayed similar behavior. This relationship was also generally seen for greases; with the lifetimes of the multiple alkylated cyclopentane (MAC)-based greases being extended in comparison to the PFPE-based greases. Testing on greases also demonstrated similar performance between the old (-a) and new (-b) formulations when considering PFPE-based MAPLUB greases, and indeed for all tested PFPE-based non-MAPLUB greases, but significantly shorter lifetimes for the new formulations when considering MAC-based MAPLUB greases. MAPLUB MAC greases containing molybdenum disulphide (MoS2) thickener were also found to display reduced lifetimes. For solid lubricants, lead displayed significantly extended lifetimes over MoS2, speculated to be caused by redistribution of lead from the ball onto all contact surfaces during the test. Friction coefficients were seen to be some 2.5x higher for lead than for MoS2 under similar conditions, a result that corresponds well with conventional bearing tests. The work described was performed under contract for the European Space Agency as part of the Tribology Applications Program, with all funding for testing and apparatus provided by European Space Agency (ESA).

Biological Sources of Branched Glycerol Dialkyl Glycerol Tetraethers (brGDGTs) in Terrestrial Hot Springs: A Possible Link Between Nitrogen-cycling Bacteria and brGDGT Production

NASA Astrophysics Data System (ADS)

Wang, J. X.; Xie, W.; Boyd, E. S.; Hedlund, B. P.; Zhang, C.

2014-12-01

Branched glycerol dialkyl glycerol tetraethers (brGDGTs) are common in peat, soil, lakes, rivers and hot springs. To seek the potential biological sources of brGDGTs in geothermal environments, we investigated 65 hot springs in the Yellowstone National Park (USA) and Tengchong (China). Together with previously published data from hot springs in the Great Basin (USA) and Tibet (China), we found that the abundance of brGDGTs tended to peak in springs with pH > 8. This contrasts with previous observations indicating an abundance of brGDGTs in acidic soils and peat bogs, suggesting a different biological source and function for lipids in these environments. In support of this hypothesis, a comparison of Cyclization ratios of Branched Tetraethers (CBT) between hot springs and surrounding soils indicated that more brGDGTs with cyclopentane moieties were produced in alkaline hot springs than in nearby low-temperature soils. Since Acidobacteria (the likely source of brGDGTs in peat bog environments) tend to have low CBT ratios, these data suggest a different source for brGDGTs in hot spring environments. RDA and regression analysis integrating brGDGT compounds and nitrogen species indicate that Bacteria involved in the nitrogen biogeochemical cycle (ammonia oxidation and nitrite reduction) may be related to the production of brGDGTs in terrestrial hot springs. However, direct evidence showing the link between nitrogen-cycling bacteria and brGDGT production has yet to be demonstrated under laboratory conditions. Nevertheless, our study expands the possibility of brGDGT sources into bacterial communities in terrestrial geothermal systems where Acidobacteria are absent or only a minor component.

Structure-property relationship of 3-(4-substituted benzyl)-1,3-diazaspiro[4.4]nonane-2,4-diones as new potentional anticonvulsant agents. An experimental and theoretical study

NASA Astrophysics Data System (ADS)

Lazić, Anita M.; Božić, Bojan Đ.; Vitnik, Vesna D.; Vitnik, Željko J.; Rogan, Jelena R.; Radovanović, Lidija D.; Valentić, Nataša V.; Ušćumlić, Gordana S.

2017-01-01

The structure-property relationship of newly synthesized 3-(4-substituted benzyl)-1,3-diazaspiro [4.4]nonane-2,4-diones was studied by experimental and calculated methods. The prepared compounds were characterized by UV-Vis, FT-IR, 1H NMR and 13C NMR spectroscopy and elemental analysis. The crystal structure was elucidated by single-crystal X-ray diffraction. The 3-benzyl-1,3-diazaspiro[4.4]nonane-2,4-dione crystallizes in triclinic P-1 space group, with two crystallographically independent molecules in the asymmetric unit. Cyclopentane ring adopts an envelope conformation. A three-dimensional crystal packing is governed by hydrogen N-H⋯O bonds, numerous C-H⋯O/N and C-H … π interactions between neighboring molecules. Density functional theory (DFT) calculations with B3LYP and M06-2X methods using 6-311++G(d,p) basis set were performed to provide structural and spectroscopic information. Comparisons between experimental and calculated UV-Vis spectral properties suggest that the monomeric form of the investigated spirohydantoins is dominant in all used solvents. The effects of substituents on the absorption spectra of spirohydantoins are interpreted by correlation of absorption frequencies with Hammett equation. The lipophilicities of the investigated molecules were estimated by calculation of their log P values. Some of the spirohydantoins synthesized in this work, exhibit the lipophilicities comparable to the standard medicine anticonvulsant drug Phenytoin. The results obtained in this investigation afford guidelines for the preparation of new derivatives of spirohydantoin as potential anticonvulsant agents and for better understanding the structure-activity relationship.

Adhesion force interactions between cyclopentane hydrate and physically and chemically modified surfaces.

PubMed

Aman, Zachary M; Sloan, E Dendy; Sum, Amadeu K; Koh, Carolyn A

2014-12-07

Interfacial interactions between liquid-solid and solid-solid phases/surfaces are of fundamental importance to the formation of hydrate deposits in oil and gas pipelines. This work establishes the effect of five categories of physical and chemical modification to steel on clathrate hydrate adhesive force: oleamide, graphite, citric acid ester, nonanedithiol, and Rain-X anti-wetting agent. Hydrate adhesive forces were measured using a micromechanical force apparatus, under both dry and water-wet surface conditions. The results show that the graphite coating reduced hydrate-steel adhesion force by 79%, due to an increase in the water wetting angle from 42 ± 8° to 154 ± 7°. Two chemical surface coatings (nonanedithiol and the citric acid ester) induced rapid hydrate growth in the hydrate particles; nonanedithiol increased hydrate adhesive force by 49% from the baseline, while the citric acid ester coating reduced hydrate adhesion force by 98%. This result suggests that crystal growth may enable a strong adhesive pathway between hydrate and other crystalline structures, however this effect may be negated in cases where water-hydrocarbon interfacial tension is minimised. When a liquid water droplet was placed on the modified steel surfaces, the graphite and citric acid ester became less effective at reducing adhesive force. In pipelines containing a free water phase wetting the steel surface, chemical or physical surface modifications alone may be insufficient to eliminate hydrate deposition risk. In further tests, the citric acid ester reduced hydrate cohesive forces by 50%, suggesting mild activity as a hybrid anti-agglomerant suppressing both hydrate deposition and particle agglomeration. These results demonstrate a new capability to develop polyfunctional surfactants, which simultaneously limit the capability for hydrate particles to aggregate and deposit on the pipeline wall.

Volatile-organic molecular characterization of shale-oil produced water from the Permian Basin.

PubMed

Khan, Naima A; Engle, Mark; Dungan, Barry; Holguin, F Omar; Xu, Pei; Carroll, Kenneth C

2016-04-01

Growth in unconventional oil and gas has spurred concerns on environmental impact and interest in beneficial uses of produced water (PW), especially in arid regions such as the Permian Basin, the largest U.S. tight-oil producer. To evaluate environmental impact, treatment, and reuse potential, there is a need to characterize the compositional variability of PW. Although hydraulic fracturing has caused a significant increase in shale-oil production, there are no high-resolution organic composition data for the shale-oil PW from the Permian Basin or other shale-oil plays (Eagle Ford, Bakken, etc.). PW was collected from shale-oil wells in the Midland sub-basin of the Permian Basin. Molecular characterization was conducted using high-resolution solid phase micro extraction gas chromatography time-of-flight mass spectrometry. Approximately 1400 compounds were identified, and 327 compounds had a >70% library match. PW contained alkane, cyclohexane, cyclopentane, BTEX (benzene, toluene, ethylbenzene, and xylene), alkyl benzenes, propyl-benzene, and naphthalene. PW also contained heteroatomic compounds containing nitrogen, oxygen, and sulfur. 3D van Krevelen and double bond equivalence versus carbon number analyses were used to evaluate molecular variability. Source composition, as well as solubility, controlled the distribution of volatile compounds found in shale-oil PW. The salinity also increased with depth, ranging from 105 to 162 g/L total dissolved solids. These data fill a gap for shale-oil PW composition, the associated petroleomics plots provide a fingerprinting framework, and the results for the Permian shale-oil PW suggest that partial treatment of suspended solids and organics would support some beneficial uses such as onsite reuse and bio-energy production. Copyright © 2016 Elsevier Ltd. All rights reserved.

Scalable and durable polymeric icephobic and hydrate-phobic coatings.

PubMed

Sojoudi, Hossein; Arabnejad, Hadi; Raiyan, Asif; Shirazi, Siamack A; McKinley, Gareth H; Gleason, Karen K

2018-05-09

Ice formation and accumulation on surfaces can result in severe problems for solar photovoltaic installations, offshore oil platforms, wind turbines and aircrafts. In addition, blockage of pipelines by formation and accumulation of clathrate hydrates of natural gases has safety and economical concerns in oil and gas operations, particularly at high pressures and low temperatures such as those found in subsea or arctic environments. Practical adoption of icephobic/hydrate-phobic surfaces requires mechanical robustness and stability under harsh environments. Here, we develop durable and mechanically robust bilayer poly-divinylbenzene (pDVB)/poly-perfluorodecylacrylate (pPFDA) coatings using initiated chemical vapor deposition (iCVD) to reduce the adhesion strength of ice/hydrates to underlying substrates (silicon and steel). Utilizing a highly-cross-linked polymer (pDVB) underneath a very thin veneer of fluorine-rich polymer (pPFDA) we have designed inherently rough bilayer polymer films that can be deposited on rough steel substrates resulting in surfaces which exhibit a receding water contact angle (WCA) higher than 150° and WCA hysteresis as low as 4°. Optical profilometer measurements were performed on the films and root mean square (RMS) roughness values of Rq = 178.0 ± 17.5 nm and Rq = 312.7 ± 23.5 nm were obtained on silicon and steel substrates, respectively. When steel surfaces are coated with these smooth hard iCVD bilayer polymer films, the strength of ice adhesion is reduced from 1010 ± 95 kPa to 180 ± 85 kPa. The adhesion strength of the cyclopentane (CyC5) hydrate is also reduced from 220 ± 45 kPa on rough steel substrates to 34 ± 12 kPa on the polymer-coated steel substrates. The durability of these bilayer polymer coated icephobic and hydrate-phobic substrates is confirmed by sand erosion tests and examination of multiple ice/hydrate adhesion/de-adhesion cycles.

A Micro and Mesocosm Approach to Understanding the Response of Branched GDGTs to Environmental Perturbation

NASA Astrophysics Data System (ADS)

Martínez-Sosa, P.; Tierney, J. E.; Castañeda, I. S.

2017-12-01

Branched glycerol dialkyl glycerol tetraethers (brGDGTs) are membrane lipids with 15 known structures. Thought to be synthesized by bacteria, they are found in peatlands, soils, near-shore marine sediments and lakes. Previous studies have reported a correlation between the number and position of methyl groups and cyclopentane moieties in these lipids with environmental factors such as pH and temperature, leading to the creation of the methylation and cyclisation indices (MBT and CBT respectively). Although an empirical relationship between these structural modifications and environmental conditions has been described, the source organism for these molecules remains unknown. Lacking pure cultures of brGDGT producing bacteria, a different approach is necessary to study their response to environmental perturbations under controlled conditions. To this end, we studied the production of brGDGTs in water from two fishing lakes in Arizona using a series of microcosms, comprised by 1L flasks filled with environmental water; and mesocosm experiments, where two 20L tanks were filled with either lake water or lake water and synthetic sediments. This experimental design allowed us to modify environmental factors while preserving the natural conditions of the sample. Our experiments point to a production of brGDGTs on the suspended particulate matter in the water column, which appears to contribute to some extent to the presence of this molecules on lake sediments. Furthermore, we observed a shift in the ratio between 5' and 6' isomers related to both the presence of a carbon source and temperature. Limited oxygen availability appears to correlate with higher brGDGT concentration. Notably, we find that methylation decreases with increasing temperature in our experiments at a rate that is roughly in agreement with empirical observations. To our knowledge, these experiments provide the first evidence of growth and alteration of brGDGTs under laboratory conditions, which could be used to build better models to interpret this paleoclimate proxy in lacustrine sediments.

Structural analysis of char by Raman spectroscopy: Improving band assignments through computational calculations from first principles

DOE Office of Scientific and Technical Information (OSTI.GOV)

Smith, Matthew W.; Dallmeyer, Ian; Johnson, Timothy J.

2016-04-01

Raman spectroscopy is a powerful tool for the characterization of many carbon 27 species. The complex heterogeneous nature of chars and activated carbons has confounded 28 complete analysis due to the additional shoulders observed on the D-band and high intensity 29 valley between the D and G-bands. In this paper the effects of various vacancy and substitution 30 defects have been systematically analyzed via molecular modeling using density functional 31 theory (DFT) and how this is manifested in the calculated gas-phase Raman spectra. The 32 accuracy of these calculations was validated by comparison with (solid-phase) experimental 33 spectra, with amore » small correction factor being applied to improve the accuracy of frequency 34 predictions. The spectroscopic effects on the char species are best understood in terms of a 35 reduced symmetry as compared to a “parent” coronene molecule. Based upon the simulation 36 results, the shoulder observed in chars near 1200 cm-1 has been assigned to the totally symmetric 37 A1g vibrations of various small polyaromatic hydrocarbons (PAH) as well as those containing 38 rings of seven or more carbons. Intensity between 1400 cm-1 and 1450 cm-1 is assigned to A1g 39 type vibrations present in small PAHs and especially those containing cyclopentane rings. 40 Finally, band intensity between 1500 cm-1 and 1550 cm-1 is ascribed to predominately E2g 41 vibrational modes in strained PAH systems. A total of ten potential bands have been assigned 42 between 1000 cm-1 and 1800 cm-1. These fitting parameters have been used to deconvolute a 43 thermoseries of cellulose chars produced by pyrolysis at 300-700 °C. The results of the 44 deconvolution show consistent growth of PAH clusters with temperature, development of non-45 benzyl rings as temperature increases and loss of oxygenated features between 400 °C and 46 600 °C« less

Use of molecular dynamics to assess the biophysiological role of hydroxyl groups in glycerol dyalkyl glycerol teraethers

NASA Astrophysics Data System (ADS)

Huguet, Carme; Costenaro, Lionel; Fietz, Susanne; Daura, Xavier

2015-04-01

The cell membrane of some Archaea is constituted by lipids that span the whole membrane width and contain two alkyl chains bound by two glycerol groups (glycerol dyalkyl glycerol teraethers or GDGTs). These lipids confer stability to the membrane in mesophile to extremophile environments. Besides the more frequently studied isoprenoid archaeal lipids, both mono- and dihydroxy-GDGTs (OH-GDGT) have been recently reported to occur in marine sediments (1). OH-GDGTs contain up to two cyclopentane moieties and have been identified in both core and intact forms. In 2013, a correlation between OH-GDGTs and temperature was reported, with higher relative OH-GDGT abundances at high latitudes (2,3). The physiological function of the hydroxyl group in a GDGT is not yet known, but given the field results, it could be linked to an adaptation of the membrane to changes in temperature. For hydroxydiether lipid cores in methanogenic bacteria, it has been postulated that the hydroxyl group may alter the cell membrane properties: either extending the polar head group region or creating a hydrophilic pocket (4). It has also been suggested that the hydroxylation of the biphytany (l) moiety may result in enhanced membrane rigidity (1). To improve our understanding of the effect of the hydroxylation on physical properties of membranes, we performed molecular-dynamics simulations of GDGT membranes presenting and lacking these additional OH groups. This is an approach with a great development potential in the archaea lipid field, especially in relation to proxy validation. Our results indicate that the addition of an OH increases the membrane fluidity, thus providing an advantage in cold environments. We also observe a widening of the polar head group area, which could enhance transport. 1. Liu et al. 2012, GCA 2. Huguet et al. 2013, Org. Geochem 3. Fietz et al. 2013 4. Sprott et al. 1990. J. Biol. Chem. 265, 13735-13740.

X-ray study of the hetero ring flexibility in 5,6-tri-, 5,6-tetra- and 5,6-penta-methylene-2,3,5,6-tetrahydro-1,3-oxazin-4-ones. The structures of 2-spiropentamethylene- cis-5,6-tetramethylene-2,3,5,6-tetrahydro-1,3-oxazin-4-one (I), 2-spiropentamethylene- cis-5,6-pentamethylene-2,3,5,6-tetrahydro-1,3-oxazin-4-one ( c-II) and 2-spiropentamethylene- trans-5,6-pentamethylene-2,3,5,6-tetrahydro-1,3-oxazin-4-one ( t-II)

NASA Astrophysics Data System (ADS)

Ribár, B.; Kapor, Á.; Kálmán, A.; Argay, Gy.; Fülöp, F.; Bernáth, G.

1989-01-01

The structures of the title compounds were established by X-ray crystallography by means of direct methods. Crystals of compound I (C 12H 19NO 2) are monoclinic, space group P2 1/ n, with a = 11.365(3), b = 10.343(4), c = 10.343(2) Å, β = 110.25(3)°, Z = 4 and Dc = 1.218 g cm -3. Crystals of compound c- II (C 13H 21NO 2) are monoclinic, space group C2/ c, with a = 20.830(8), b = 6.594(4), c = 17.944(8) Å, β = 95.83(2)°, Z = 8 and Dc = 1.209 g cm -3. Crystals of t- II (C 13H 21NO 2) are also monoclinic, space group P2 1/ n, with a = 14.268(4), b = 6.112(3), c = 14.041(7) Å, β = 93.63(3)°, Z = 4 and Dc = 1.210 g cm -3. The structures were refined to R = 0.059 for 1697 reflections of I, R = 0.052 for 1718 reflections of c- II, and R = 0.057 for 2178 reflections of t- II. The conformations of the 1,3-oxazin-4-one moieties in the title compounds were compared with those found earlier in related compounds. As shown by an analysis of the puckering parameters (D. Cremer and J.A. Pople, J. Am. Chem. Soc., 97 (1975) 1354), they cluster in a random distribution around the 1H 6 half-chair form. Marked deviation from this canonical form towards the 1E envelope was observed only under the influence of the cyclopentane ring.

Comparative Analysis of Fruit Metabolites and Pungency Candidate Genes Expression between Bhut Jolokia and Other Capsicum Species.

PubMed

M, Sarpras; Gaur, Rashmi; Sharma, Vineet; Chhapekar, Sushil Satish; Das, Jharna; Kumar, Ajay; Yadava, Satish Kumar; Nitin, Mukesh; Brahma, Vijaya; Abraham, Suresh K; Ramchiary, Nirala

2016-01-01

Bhut jolokia, commonly known as Ghost chili, a native Capsicum species found in North East India was recorded as the naturally occurring hottest chili in the world by the Guinness Book of World Records in 2006. Although few studies have reported variation in pungency content of this particular species, no study till date has reported detailed expression analysis of candidate genes involved in capsaicinoids (pungency) biosynthesis pathway and other fruit metabolites. Therefore, the present study was designed to evaluate the diversity of fruit morphology, fruiting habit, capsaicinoids and other metabolite contents in 136 different genotypes mainly collected from North East India. Significant intra and inter-specific variations for fruit morphological traits, fruiting habits and 65 fruit metabolites were observed in the collected Capsicum germplasm belonging to three Capsicum species i.e., Capsicum chinense (Bhut jolokia, 63 accessions), C. frutescens (17 accessions) and C. annuum (56 accessions). The pungency level, measured in Scoville Heat Unit (SHU) and antioxidant activity measured by 2, 2-diphenyl-1-picrylhydrazyl (DPPH) free radical scavenging assay showed maximum levels in C. chinense accessions followed by C. frutescens accessions, while C. annuum accessions showed the lowest value for both the traits. The number of different fruit metabolites detected did not vary significantly among the different species but the metabolite such as benzoic acid hydroxyl esters identified in large percentage in majority of C. annuum genotypes was totally absent in the C. chinense genotypes and sparingly present in few genotypes of C. frutescens. Significant correlations were observed between fruit metabolites capsaicin, dihydrocapsaicin, hexadecanoic acid, cyclopentane, α-tocopherol and antioxidant activity. Furthermore, comparative expression analysis (through qRT-PCR) of candidate genes involved in capsaicinoid biosynthesis pathway revealed many fold higher expression of majority of the genes in C. chinense compared to C. frutescens and C. annuum suggesting that the possible reason for extremely high pungency might be due to the higher level of candidate gene(s) expression although nucleotide variation in pungency related genes may also be involved in imparting variations in level of pungency.

Comparative Analysis of Fruit Metabolites and Pungency Candidate Genes Expression between Bhut Jolokia and Other Capsicum Species

PubMed Central

M, Sarpras; Gaur, Rashmi; Sharma, Vineet; Chhapekar, Sushil Satish; Das, Jharna; Kumar, Ajay; Yadava, Satish Kumar; Nitin, Mukesh; Brahma, Vijaya; Abraham, Suresh K.; Ramchiary, Nirala

2016-01-01

Bhut jolokia, commonly known as Ghost chili, a native Capsicum species found in North East India was recorded as the naturally occurring hottest chili in the world by the Guinness Book of World Records in 2006. Although few studies have reported variation in pungency content of this particular species, no study till date has reported detailed expression analysis of candidate genes involved in capsaicinoids (pungency) biosynthesis pathway and other fruit metabolites. Therefore, the present study was designed to evaluate the diversity of fruit morphology, fruiting habit, capsaicinoids and other metabolite contents in 136 different genotypes mainly collected from North East India. Significant intra and inter-specific variations for fruit morphological traits, fruiting habits and 65 fruit metabolites were observed in the collected Capsicum germplasm belonging to three Capsicum species i.e., Capsicum chinense (Bhut jolokia, 63 accessions), C. frutescens (17 accessions) and C. annuum (56 accessions). The pungency level, measured in Scoville Heat Unit (SHU) and antioxidant activity measured by 2, 2-diphenyl-1-picrylhydrazyl (DPPH) free radical scavenging assay showed maximum levels in C. chinense accessions followed by C. frutescens accessions, while C. annuum accessions showed the lowest value for both the traits. The number of different fruit metabolites detected did not vary significantly among the different species but the metabolite such as benzoic acid hydroxyl esters identified in large percentage in majority of C. annuum genotypes was totally absent in the C. chinense genotypes and sparingly present in few genotypes of C. frutescens. Significant correlations were observed between fruit metabolites capsaicin, dihydrocapsaicin, hexadecanoic acid, cyclopentane, α-tocopherol and antioxidant activity. Furthermore, comparative expression analysis (through qRT-PCR) of candidate genes involved in capsaicinoid biosynthesis pathway revealed many fold higher expression of majority of the genes in C. chinense compared to C. frutescens and C. annuum suggesting that the possible reason for extremely high pungency might be due to the higher level of candidate gene(s) expression although nucleotide variation in pungency related genes may also be involved in imparting variations in level of pungency. PMID:27936081

The [C{sub 6}H{sub 10}]{sup {sm{underscore}bullet}+} hypersurface: The parent radical cation Diels-Alder reaction

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hoffmann, M.; Schaefer, H.F. III

1999-07-21

Various possible reaction pathways between ethene and butadiene radical cation (cis- and trans-), have been investigated at different levels of theory up to UCCSD(T)/DZP/UMP2(fc)/DZP and with density functional theory at B3LYP/DZP. A stepwise addition involving open chain intermediates and leading to the Diels-Alder product, the cyclohexene radical cation, was found to have a total activation barrier {Delta}G{sup 298{ne}} = 6.3 kcal mol{sup {minus}1} and a change in free Gibbs energy, {Delta}G{sup 298}, of {minus}33.5 kcal mol{sup {minus}1}. On the E{degree} potential energy surface, all transition states are lower in energy than separated ethene and butadiene, the exothermicity {Delta}E = -45.6more » kcal mol{sup {minus}1}. A more direct path could be characterized as stepwise with one intermediate only at the SCF level but not at electron-correlated levels and hence might actually be a concerted strongly asynchronous addition with a very small or no activation barrier (UCCSD(T)/DZP/UHF/6-31G* gives a {Delta}G{sup 298{ne}} of 0.8 kcal mol{sup {minus}1}). The critical step for another alternative, the cyclobutanation-vinylcyclobutane/cyclohexene rearrangement, is a 1,3-alkyl shift which involves a barrier ({Delta}G{sup 298{ne}}) only 1.7 kcal mol{sup {minus}1} higher than that of stop use addition for both cis-, and trans-butadiene radical cation. However, from the (ethene and trans-butadiene) reactions, ring expansion of the vinylcyclobutane radical cation intermediate, to a methylene cyclopentane radical cation, requires an activation only 1.3 kcal mol{sup {minus}1} larger than for (trans-butadiene radical). While cis/trans isomerization of free butadiene radical cation requires a high activation (24.9 kcal mol{sup {minus}1}), a reaction sequence involving addition of ethene (to stepwise give an open chain intermediate and vinyl cyclobutane radical cation) has a barrier of only 3.5 kcal mol{sup {minus}1} ({Delta}G{sup 298{ne}}). This sequence also makes ethene and butadiene radical cations to exchange terminal methylene groups.« less

Conformational Transformation of Five-Membered Rings: the Gas Phase Structure of 2-METHYLTETRAHYDROFURAN

NASA Astrophysics Data System (ADS)

Van, Vinh; Nguyen, Ha Vinh Lam; Stahl, Wolfgang

2015-06-01

2-Methyltetrahydrofuran (2-MeTHF) is a promising environmentally friendly solvent and biofuel component which is derived from renewable resources. Following the principles of Green Chemistry, 2-MeTHF has been evaluated in various fields like organometallics, metathesis, and biosynthesis on the way to more eco-friendly syntheses. Cyclopentane as the prototype of five-membered rings is well-known to exist as twist or envelope structures. However, the conformational analysis of its heterocyclic derivative 2-methyl-tetrahydrothiophene (MTTP) yielded two stable twist conformers and two envelope transition states. Here, we report on the heavy atom r_s structure of the oxygen-analog of MTTP, 2-MeTHF, studied by a combination of molecular beam Fourier transform microwave spectroscopy and quantum chemistry. One conformer of 2-MeTHF was observed and highly accurate molecular parameters were determined using the XIAM program. In addition, all 13C-isotopologues were assigned in natural abundance of 1%. A structural determination based on the r_s positions of all carbon atoms was achieved via Kraitchman's equations. The methyl group in 2-MeTHF undergoes internal rotation and causes A-E splittings of the rotational lines. The barrier was calculated to be 1142 wn at the MP2/6-311++G(d,p) level of theory, which is rather high. Accordingly, narrow A-E splittings could be observed for only a few transitions. However, the barrier height could be fitted while the angles between the internal rotor axis and the principal axes of inertia were taken from the experimental geometry. V. Pace, P. Hoyos, L. Castoldi, P. Domínguez de María, A. R. Alcántara, ChemSusChem 5 (2012), 1369-1379. a) D. F. Aycock, Org. Process Res. Dev. 11 (2007),156-159. b) M. Smoleń, M. Kȩdziorek, K. Grela, Catal. Commun. 44 (2014), 80-84. V. Van, C. Dindic, H.V.L. Nguyen, W. Stahl, ChemPhysChem 16 (2015), 291-294. H. Hartwig, H. Dreizler, Z. Naturforsch. A 51 (1996), 923-932. J. Kraitchman, Am. J. Phys. 21 (1953), 17-24.

In situ produced branched glycerol dialkyl glycerol tetraethers in suspended particulate matter from the Yenisei River, Eastern Siberia

NASA Astrophysics Data System (ADS)

De Jonge, Cindy; Stadnitskaia, Alina; Hopmans, Ellen C.; Cherkashov, Georgy; Fedotov, Andrey; Sinninghe Damsté, Jaap S.

2014-01-01

Soil-derived branched glycerol dialkyl glycerol tetraethers (brGDGTs) in marine river fan sediments have a potential use for determining changes in the mean annual temperature (MAT) and pH of the river watershed soils. Prior to their incorporation in marine sediments, the compounds are transported to the marine system by rivers. However, emerging evidence suggests that the brGDGTs in freshwater systems can be derived from both soil run-off and in situ production. The production of brGDGTs in the river system can complicate the interpretation of the brGDGT signal delivered to the marine system. Therefore, we studied the distribution of brGDGT lipids in suspended particulate matter (SPM) of the Yenisei River. Chromatographic improvements allowed quantification of the recently described hexamethylated brGDGT isomer, characterized by having two methyl groups at the 6/6‧ instead of the 5/5‧ positions, in an environmental dataset for the first time. This novel compound was the most abundant brGDGT in SPM from the Yenisei. Its fractional abundance correlated well with that of the 6-methyl isomer of the hexamethylated brGDGT that contains one cyclopentane moiety. The Yenisei River watershed is characterized by large differences in MAT (>11 °C) as it spans a large latitudinal range (46-73°N), which would be expected to be reflected in brGDGT distributions of its soils. However, the brGDGT distributions in its SPM show little variation. Furthermore, the reconstructed pH values are high compared to the watershed soil pH. We, therefore, hypothesize that the brGDGTs in the Yenisei River SPM are predominantly produced in situ and not primarily derived from erosion of soil. This accounts for the absence of a change in the temperature signal, as the river water temperature is more stable. Using a lake calibration, the reconstructed temperature values agree with the mean summer temperatures (MST) recorded. The brGDGTs delivered to the sea by the Yenisei River during this season are thus not soil-derived, possibly complicating the use of brGDGTs in marine sediments for palaeoclimate reconstructions.

On the density scaling of pVT data and transport properties for molecular and ionic liquids.

PubMed

López, Enriqueta R; Pensado, Alfonso S; Fernández, Josefa; Harris, Kenneth R

2012-06-07

In this work, a general equation of state (EOS) recently derived by Grzybowski et al. [Phys. Rev. E 83, 041505 (2011)] is applied to 51 molecular and ionic liquids in order to perform density scaling of pVT data employing the scaling exponent γ(EOS). It is found that the scaling is excellent in most cases examined. γ(EOS) values range from 6.1 for ammonia to 13.3 for the ionic liquid [C(4)C(1)im][BF(4)]. These γ(EOS) values are compared with results recently reported by us [E. R. López, A. S. Pensado, M. J. P. Comuñas, A. A. H. Pádua, J. Fernández, and K. R. Harris, J. Chem. Phys. 134, 144507 (2011)] for the scaling exponent γ obtained for several different transport properties, namely, the viscosity, self-diffusion coefficient, and electrical conductivity. For the majority of the compounds examined, γ(EOS) > γ, but for hexane, heptane, octane, cyclopentane, cyclohexane, CCl(4), dimethyl carbonate, m-xylene, and decalin, γ(EOS) < γ. In addition, we find that the γ(EOS) values are very much higher than those of γ for alcohols, pentaerythritol esters, and ionic liquids. For viscosities and the self-diffusion coefficient-temperature ratio, we have tested the relation linking EOS and dynamic scaling parameters, proposed by Paluch et al. [J. Phys. Chem. Lett. 1, 987-992 (2010)] and Grzybowski et al. [J. Chem. Phys. 133, 161101 (2010); Phys. Rev. E 82, 013501 (2010)], that is, γ = (γ(EOS)/φ) + γ(G), where φ is the stretching parameter of the modified Avramov relation for the density scaling of a transport property, and γ(G) is the Grüneisen constant. This relationship is based on data for structural relaxation times near the glass transition temperature for seven molecular liquids, including glass formers, and a single ionic liquid. For all the compounds examined in our much larger database the ratio (γ(EOS)/φ) is actually higher than γ, with the only exceptions of propylene carbonate and 1-methylnaphthalene. Therefore, it seems the relation proposed by Paluch et al. applies only in certain cases, and is really not generally applicable to liquid transport properties such as viscosities, self-diffusion coefficients or electrical conductivities when examined over broad ranges of temperature and pressure.

Molecular Signatures of Methanogens in Cultures and Environmental Samples

NASA Astrophysics Data System (ADS)

Summons, R. E.; Embaye, T.; Jahnke, L. L.; Baumgartner, M.

2002-12-01

The core lipids of methanogens comprise C20 and C40 isoprenoid chains, linked through ether bonds to glycerol. Additional structural diversity is encoded into the polar head groups that are attached to the glycerol ether cores. These compounds are potentially very useful as taxonomic markers in microbial mats and other environmental samples while the nature of the hydrocarbon chains provide a means to identify methanogenic inputs to ancient sediments. The structural diversity of methanogen polar lipids is most valuable when it can be directly correlated to 16S rRNA phylogeny. On the other hand, this diversity can also leads to analytical challenges because there is no single approach that works for all structural types. While some intact methanogen lipids have been identified using mass spectrometry and NMR spectroscopy, the most common means of analysing the lipid cores involves cleavage of the ether bonds using HI and subsequent reduction of the alkyl iodides to hydrocarbons with LiAlH4. One class of methanogenic lipids, the 3?-hydroxyarchaeols, escaped detection for some years because strong acid treatments in the analysis protocols destroyed hydroxyl-containing isoprenoid chains. We have been systematically re-examining the lipids of methanogens, using milder procedures involving weak acid hydrolysis of polar head groups, derivatisation to form trimethylsilyl ethers and analysis by GC-MS. As well as archaeol, sn-2- and sn-3-hydroxyarchaeol, we have tentatively identified a dihydroxyarchaeol in several Methanococcus sp. For Methanococcus thermolithotrophicus an analysis of the total lipid extracts using BBr3 as an ether cleavage reagent followed by LiBEt3H, reduction revealed a very complex mixture consisting of phytane, phytenes, biphytane, biphytenes and a suite of related alcohols. The latter compounds were analysed by GC-MS as their trimethylsilyl ethers and found to comprise a mixture tentatively identified as phytan-N-ol and biphytan-N-ol where N= 3 or 7 or 11 or 15. Apart from phytan-3-ol, these compounds appear to have been overlooked in previous analyses of methanogen lipids. Methanopyrus kandleri, a hyperthermophile that is distinguished from other methanogens by some unusual biochemical features, is also differentiated by having biphytanyl chains with cyclopentane rings. This is a structural feature more commonly found in the Crenarchaeota. We are applying this biomarker methodology to environmental samples in studies of the spatial distribution of methanogenesis relative to other physiologies.

Occurrence and abundance of 6-methyl branched glycerol dialkyl glycerol tetraethers in soils: Implications for palaeoclimate reconstruction

NASA Astrophysics Data System (ADS)

De Jonge, Cindy; Hopmans, Ellen C.; Zell, Claudia I.; Kim, Jung-Hyun; Schouten, Stefan; Sinninghe Damsté, Jaap S.

2014-09-01

The distribution of branched glycerol dialkyl glycerol tetraethers (brGDGTs) in soils has been shown to correlate with the soil pH and the mean annual air temperature (MAT). This has been used to perform palaeoclimate reconstructions based on brGDGTs recovered from palaeosoils, freshwater, and marine sedimentary archives. Recently described 6-methyl brGDGTs were shown to co-elute with the 5-methyl brGDGTs that are used to calculate the CBT and MBT‧ indices used as palaeoclimate proxies. The impact of these 6-methyl brGDGTs on the established palaeoclimate proxies is unknown and will depend on their abundance in soils. Using improved chromatography, we quantified the fractional abundance of 6-methyl brGDGTs in globally distributed soils and show that they are abundant components, comprising on average 24% of the total amount of brGDGTs. All penta- and hexa-methylated brGDGTs (i.e. with zero to two cyclopentane moieties) were shown to comprise both 5- and 6-methyl isomers. The fractional abundances of the six 6-methyl brGDGTs correlate positively with each other, suggesting a common biological source in most soils, and correlate strongly with soil pH. The presence of the 6-methyl brGDGTs introduced scatter in the original MBT‧/CBT-MAT calibration and caused a dependence on soil pH of the MBT‧. Exclusion of the 6-methyl brGDGTs from the MBT‧, i.e. the newly defined MBT‧5ME, shows that it is no longer related to soil pH. The correlation with MAT is improved, reducing the residual mean error (RMSE) from 6.2 to 4.8 °C. Also, the correlation of the CBT after the exclusion of the 6-methyl brGDGTs (defined as CBT5ME) with soil pH slightly improved. Furthermore, the separate quantification of the 6-methyl brGDGTs allows the definition of new indices. The CBT‧, which comprises the 6-methyl brGDGTs, is a substantially improved alternative to the CBT5ME, reducing the RMSE from 0.8 to 0.5 pH units. Also, the accuracy of MAT reconstructions can be improved using a multiple linear regression, the MATmr, decreasing the RMSE further to 4.6 °C. Furthermore, we introduce an index that allows the reconstruction of MAT in sites where only the ubiquitous brGDGT Ia, IIa and IIIa are present, the MATmrs. Our results imply that separate quantification of the 6- and 5-methyl brGDGT is essential for accurately quantifying brGDGTs in environmental samples and results in substantially improved MAT and soil pH reconstructions.

Public aquaria as long-term enrichments for investigating planktonic Archaea

NASA Astrophysics Data System (ADS)

Goldenstein, Nadine I.; Warren, Courtney E.; Lipp, Julius S.; Pagani, Mark; Hinrichs, Kai-Uwe

2016-04-01

The most abundant group of planktonic Archaea , the so-called Thaumarchaeota, represents 20% of all marine planktonic microorganisms (Karner et al., 2001) and their energy efficient performance of nitrification makes them key players in the global nitrogen- and carbon-cycle (Könneke et al., 2014). Furthermore, planktonic Archaea are considered to be the major producers of specific microbial membrane lipids that are extensively used as paleoproxies in marine climate research (Schouten et al., 2002). Therefore, assessing the parameters controlling the distribution of Archaea in the marine water column is crucial for studies of modern and past marine environments. Although diverse studies utilizing DNA- and biomarker-based approaches have constrained the turnover and distribution of marine Archaea, the environmental factors affecting their abundance and activity (e.g., Wuchter et al., 2006; Bale et al., 2013) are still poorly understood. Further, previous surveys, using enrichment cultivation and pure culture experiments, provided valuable information on adaptation of planktonic Archaea to changes of parameters affecting growth conditions, such as temperature, salinity and growth stage (Elling et al., 2014, 2015). Hence, we know that planktonic Archaea directly adapt their membranes to changing growth conditions, but also that environmental selection for individual phylogenetic groups of these organisms is also reflected in the membrane lipid pool. Extending these studies, this project further aims at constraining the environmental parameters controlling archaeal abundance in the marine environment. Public aquaria, which are comparable to perfectly monitored long-term enrichment cultures, are optimal sampling sites for this task. A comprehensive set of 120 water and substrate samples from fresh, marine and brackish systems exhibiting diverse conditions was selected from 15 public aquaria at the east and west coast of the USA. These samples were examined for their archaeal intact polar and core membrane lipid composition. We detected a set of more than 90 different lipid structures comprised of diverse glyco- as well as phospho- based head groups combined with di- and tetraether cores containing up to 5 cyclopentane rings or unsaturations. The correlation of the variability within the lipid portfolio with the 30 different environmental variables, measured in the individual tanks, like e.g., water chemistry, light availability and temperature will lead to a better understanding of the factors controlling planktonic archaeal distribution in the marine environment and the derived lipid-based proxies. References: Karner et al. (2001). Nature 409, p507-510. Könneke et al. (2014). Proc Natl Acad Sci U S A 111, p8239-44. Schouten et al. (2002). Earth Planet Sci Lett 204, p265-274. Wuchter et al. (2006). Proc Natl Acad Sci U S A 103, p12317-12322. Bale et al. (2013), Biogeosciences Discuss 10, p12593-12624. Elling et al. (2014). Geochim Cosmochim Acta 141, p579-597. Elling et al. (2015). Geochim Cosmochim Acta 171, p238-255.

Etude de la formation de resonances electroniques et de leur role dans la fragmentation neutre de molecules d'interet biologique

NASA Astrophysics Data System (ADS)

Lepage, Martin

1998-12-01

Cette these est presentee a la Faculte de medecine de l'Universite de Sherbrooke en vue de l'obtention du grade de Ph.D. en Radiobiologie. Elle contient des resultats experimentaux enregistres avec un spectrometre d'electrons a haute resolution. Ces resultats portent sur la formation de resonances electroniques en phase condensee et de differents canaux pour leur decroissance. En premier lieu, nous presentons des mesures d'excitations vibrationnelles de l'oxygene dilue en matrice d'argon pour des energies des electrons incidents de 1 a 20 eV. Les resultats suggerent que le temps de vie des resonances de l'oxygene est modifie par la densite d'etats d'electrons dans la bande de conduction de l'argon. Nous presentons aussi des spectres de pertes d'energie d'electrons des molecules de tetrahydrofuranne (THF) et d'acetone. Dans les deux cas, la position en energie des pertes associees aux excitations vibrationnelles est en excellent accord avec les resultats trouves dans la litterature. Les fonctions d'excitation de ces modes revelent la presence de plusieurs nouvelles resonances electroniques. Nous comparons les resonances du THF et celles de la molecule de cyclopentane en phase gazeuse. Nous proposons une origine commune aux resonances ce qui implique qu'elles ne sont pas necessairement attribuees a l'excitation des electrons non-apparies de l'oxygene du THF. Nous proposons une nouvelle methode basee sur la spectroscopie par pertes d'energie des electrons pour detecter la production de fragments neutres qui demeurent a l'interieur d'un film mince condense a basse temperature. Cette methode se base sur la detection des excitations electroniques du produit neutre. Nous presentons des resultats de la production de CO dans un film de methanol. Le taux de production de CO en fonction de l'energie incidente des electrons est calibre en termes d'une section efficace totale de diffusion des electrons. Les resultats indiquent une augmentation lineaire du taux de production de CO en fonction de l'epaisseur du film et de la dose d'electrons incidente sur le film. Ces donnees experimentales cadrent dans un modele simple ou un electron cause la fragmentation de la molecule sans reaction avec les molecules avoisinantes. Le mecanisme propose pour la fragmentation unimoleculaire du methanol est la formation de resonances qui decroissent dans un etat electronique excite. Nous suggerons l'action combinee de la presence d'un trou dans une orbitale de coeur du methanol et de la presence de deux electrons dans la premiere orbitale vide pour expliquer la dehydrogenation complete du methanol pour des energies des electrons entre 8 et 18 eV. Pour des energies plus grandes, la fragmentation par l'intermediaire de l'ionisation de la molecule a deja ete suggeree. La methode de detection des etats electroniques offre une alternative a la detection des excitations vibrationnelles puisque les spectres de pertes d'energie des electrons sont congestionnes dans cette region d'energie pour les molecules polyatomiques.

Branched tetraether membrane lipids: A versatile group of molecular fossils as testimony of past climate change (Outstanding Young Scientist Lecture)

NASA Astrophysics Data System (ADS)

Weijers, J. W. H.

2009-04-01

Studying fossils of any kind provides a small window into past times and could learn us why the world around us is as it is today (and might become in the near future). Like paleontologists studying bone remains and palaeobotanists studying fossil plant remains, many organic geochemists study fossil molecules to learn about geochemical cycles, evolution, ecology and climate. Branched Glycerol Dialkyl Glycerol Tetraether (GDGT) membrane lipids are an example of such molecular fossils and have been the core subject of my research. These molecules were initially detected a decade ago in near coastal marine sediments and structurally resemble isoprenoid GDGTs, a group of membrane lipids synthesised by Archaea, a Domain of life separate from Bacteria and Eukarya. With nuclear magnetic resonance techniques we showed, however, that branched GDGTs are of bacterial rather than archaeal origin and analysis of soils, peat bogs and marine surface sediments pointed to a terrestrial origin. As isoprenoid GDGTs are mainly produced by marine archaea the ratio between the two groups, the Branched vs. Isoprenoid Tetraether (BIT) index, could be used to trace the input of soil organic matter into marine sediments. In this lecture I will provide examples of applications of this BIT index in the Channel River during the last Glacial Maximum and the Congo deep sea fan over the last deglaciation. Meanwhile, it appeared that in soils the distribution of individual branched GDGTs, which differ in their content of methyl branches and cyclopentane rings, was different from place to place. Analysis of over 100 soils at different locations revealed that the distribution of the branched GDGTs is most strongly related to both soil pH and annual mean air temperature. This is explained by the fact that bacteria have to adapt the composition of their cell membrane to ambient conditions in order to keep it properly functioning. This empirical relation opened opportunities to reconstruct past annual mean air temperatures (and soil pH) from the branched GDGT distribution in sedimentary archives. I will present examples of such reconstructions from central tropical Africa during the last deglaciation, the southern North Sea basin during the Miocene cooling period (~17-5Ma), and the Arctic Ocean during the Palaeocene-Eocene thermal maximum (~55.5 Ma). So far, the applications of these proxies have shown to be rather successful. However, as with every new proxy, several questions and uncertainties remain. In part this is due to the fact that the bacteria that synthesise these lipids are as yet still unknown. My future research will therefore be dedicated to searching for the biological precursor organism and to further validation of these molecular proxies. In addition, the potential of this new continental temperature proxy for application in lake sediments will be investigated, initially focusing on the last deglaciation. Alongside the improvement of analytical techniques, this hopefully results in some more secrets of this fascinating and versatile group of molecular fossils to be revealed.

Advanced Distillation Final Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Maddalena Fanelli; Ravi Arora; Annalee Tonkovich

2010-03-24

The Advanced Distillation project was concluded on December 31, 2009. This U.S. Department of Energy (DOE) funded project was completed successfully and within budget during a timeline approved by DOE project managers, which included a one year extension to the initial ending date. The subject technology, Microchannel Process Technology (MPT) distillation, was expected to provide both capital and operating cost savings compared to conventional distillation technology. With efforts from Velocys and its project partners, MPT distillation was successfully demonstrated at a laboratory scale and its energy savings potential was calculated. While many objectives established at the beginning of the projectmore » were met, the project was only partially successful. At the conclusion, it appears that MPT distillation is not a good fit for the targeted separation of ethane and ethylene in large-scale ethylene production facilities, as greater advantages were seen for smaller scale distillations. Early in the project, work involved flowsheet analyses to discern the economic viability of ethane-ethylene MPT distillation and develop strategies for maximizing its impact on the economics of the process. This study confirmed that through modification to standard operating processes, MPT can enable net energy savings in excess of 20%. This advantage was used by ABB Lumus to determine the potential impact of MPT distillation on the ethane-ethylene market. The study indicated that a substantial market exists if the energy saving could be realized and if installed capital cost of MPT distillation was on par or less than conventional technology. Unfortunately, it was determined that the large number of MPT distillation units needed to perform ethane-ethylene separation for world-scale ethylene facilities, makes the targeted separation a poor fit for the technology in this application at the current state of manufacturing costs. Over the course of the project, distillation experiments were performed with the targeted mixture, ethane-ethylene, as well as with analogous low relative volatility systems: cyclohexane-hexane and cyclopentane-pentane. Devices and test stands were specifically designed for these efforts. Development progressed from experiments and models considering sections of a full scale device to the design, fabrication, and operation of a single-channel distillation unit with integrated heat transfer. Throughout the project, analytical and numerical models and Computational Fluid Dynamics (CFD) simulations were validated with experiments in the process of developing this platform technology. Experimental trials demonstrated steady and controllable distillation for a variety of process conditions. Values of Height-to-an-Equivalent Theoretical Plate (HETP) ranging from less than 0.5 inch to a few inches were experimentally proven, demonstrating a ten-fold performance enhancement relative to conventional distillation. This improvement, while substantial, is not sufficient for MPT distillation to displace very large scale distillation trains. Fortunately, parallel efforts in the area of business development have yielded other applications for MPT distillation, including smaller scale separations that benefit from the flowsheet flexibility offered by the technology. Talks with multiple potential partners are underway. Their outcome will also help determine the path ahead for MPT distillation.« less

Long Island Sound Water Temperatures During the Last Two Thousand Years

NASA Astrophysics Data System (ADS)

Warren, C. E.; Varekamp, J. C.; Thomas, E.

2010-12-01

The Long Island Sound (LIS), sometimes called the “urban sea”, is a large estuary in the heavily populated coastal zone between New York City and the Connecticut - Rhode Island border. LIS has seen dramatic environmental shifts since colonial times, including major changes in aquatic food extraction, land use, contaminant and nutrient inputs, and climate change. Annual seasonal hypoxic/anoxic events, especially common in westernmost LIS, have been identified as potentially severe stressors for LIS biota including valuable fisheries species such as lobsters and shellfish. These conditions develop when the Sound becomes stratified in midsummer and oxygen consumption from the oxidation of organic matter exceeds oxygen resupply from the atmosphere or photosynthesis. Severity, lateral extent and frequency of hypoxia/anoxia is influenced by the amount of organic matter available for oxidation, both marine organic matter (produced by algal blooms in response to influx of N-rich effluents from waste water treatment plants) and terrestrial organic matter. These events are also influenced by the severity of stratification, determined by differences in density from temperature and salinity gradients of surface and bottom waters. Studies of cores in western and central LIS, dated using Hg-pollution profiles, 210Pb - 137Cs, and 14C, indicate that eutrophication and hypoxia have occurred in LIS only over the last ~150 years, with the possible exception of the Narrows (closest to NY) where it may have occurred before colonial times. Salinity decreased as well over the last 150 years, possibly due to changes in land use or deflection of fresh water from the Hudson River. Temperature variability in LIS over the last few thousand years has not been clearly documented, as several paleotemperature proxies are difficult to use in estuarine settings. Oxygen isotope values of carbonate microfossils are influenced by salinity fluctuations, and Mg/Ca values in these shells may be influenced by the carbonate saturation state of the water. The tetraether index (TEX86) temperature proxy is based on the number of cyclopentane rings in the glycerol dialkyl glycerol tetraethers (GDGTs) from the membrane lipids of marine Crenarchaeota, which changes in response to temperature. Crenarcheota are one of the three major groups of non-thermophilic Archaea, a widely distributed, abundant and ecologically diverse group. This proxy can be used in organic-rich sediments deposited in many different settings. We analyzed samples for TEX86 in LIS cores in order to generate a 2,000 year temperature record. We compare the TEX86 paleotemperature record data (dominantly reflecting surface water temperatures) with a Mg/Ca record based on benthic foraminifera (reflecting bottom water temperatures), and an oxygen isotope record based on benthic foraminifera and corrected for salinity changes by using the Mg/Ca record. The Mg/Ca record appears to show evidence for the Little Ice Age and Medieval Warm Period. Preliminary TEX86 data indicate that temperatures of LIS waters, as averaged over the part of the year that the proxy organisms are biologically active, generally fluctuated between 12-14°C.

Constraints on the sources of branched GDGTs in open ocean sediments: dust transport or in situ production?

NASA Astrophysics Data System (ADS)

Weijers, J.; Schefuss, E.; Kim, J.; Sinninghe Damsté, J. S.; Schouten, S.

2012-12-01

Branched glycerol dialkyl glycerol tetraethers (brGDGTs) are membrane lipids synthesized by soil bacteria that, upon soil erosion, are transported by rivers to the ocean where they accumulate in the near shore sedimentary archive. The degrees of cyclisation (CBT) and methylation (MBT) of these compounds have been shown to relate to soil pH and annual mean air temperature [1]. Therefore, brGDGTs in near shore sedimentary archives can be used to estimate past continental air temperatures and enable a direct comparison of these to marine sea surface temperature estimates obtained from the same samples. In addition, brGDGT abundance relative to crenarchaeol, an isoprenoid GDGT synthesized by marine pelagic Thaumarchaeota, quantified in the branched vs. isoprenoid tetraether (BIT) index, is an indicator of the relative input of soil organic matter in near shore sediments [2]. High BIT values near river outflows testify of relative strong soil organic matter input and generally the BIT index will decrease off shore to values near 0, the marine end-member value. Even in remote open ocean sediments, however, the BIT index will rarely reach 0 as small amounts of brGDGTs are often present. The occurrence of these brGDGTs in open marine settings might be a result of i) dust input, ii) sediment dispersion from near coastal areas, or iii) in situ production in marine sediments. In order to constrain the origin of branched GDGTs in open marine sediments we analyzed i) atmospheric dust samples taken along an equatorial African coastal transect, ii) marine surface waters near and away of the Congo river outflow, iii) a series of surface sediments at and around the Congo deep sea fan, and iv) a series of open marine surface sediments from different oceans with BIT values < 0.08. Our results show that brGDGTs are present, though in relative low amounts, in dust. Their distribution resembles that of soil input as also found in the Congo deep sea fan, with MBT and CBT values that could be representative of tropical African soils. Strikingly, BIT indices are much lower than expected for soils (0.15-0.42), likely as a result of sea spray on the dust filters. Open ocean sediments, on the contrary, are typically characterized by relative high amounts of cyclopentane containing brGDGTs resulting in low CBT values ranging from -0.4 - 0.8. These values are similarly low as reported earlier in marine sediments near Svalbard [3] and in the East China Sea [4], for which in situ production was invoked. Thus, brGDGT transport by dust does seem possible, though quantities are low. Since open ocean brGDGT distributions are markedly different from those in soils and dust, the latter is most likely not a significant source. Our results indicate that production of brGDGTs in ocean sediments, though in relative low amounts, is much more widespread than previously thought. This emphasizes that the MBT-CBT proxy for continental air temperature should only be used at locations where soil organic matter input is significant as evidenced by high BIT indices. References: [1] Weijers J.W.H. et al. (2007) Geochmim. Cosmochim. Acta 71, 703-713. [2] Hopmans E.C. et al. (2004) Earth Planet. Sci. Lett. 224, 107-116. [3] Peterse F. et al. (2009) Org. Geochem. 40, 692-699. [4] Zhu C. Et al. (2011) Org. Geochem. 42, 376-386.

Development of novel cycloaliphatic siloxanes for thermal and UV-curable applications

NASA Astrophysics Data System (ADS)

Chakraborty, Ruby

Siloxanes have been extensively used as additives to modulate surface properties such as surface tension, hydrophobicity/hydrophobicity, and adhesion, etc. Although, polydimethyl -siloxane and polydiphenylsiloxane are the most commonly used siloxanes, the properties are at extremes in terms of glass transition temperature and flexibility. It is proposed that the ability to control the properties in between the these extremes can be provided by cycloaliphatic substitutions at the siloxane backbone. It is expected that this substitution might work due to the intermediate backbone rigidity. In order to achieve the above objectives, a synthetic route was developed to prepare cycloaliphatic (cyclopentane and cyclohexane) silane monomers followed by subsequent polymerization and functionalizations to obtain glycidyl epoxy, aliphatic amine and methacrylate telechelic siloxanes. The siloxanes were either thermally or UV-cured depending on end functionalizations. Chemical characterization of monomers, oligomers and polymers were performed using 1H, 13C, 29Si-NMR, FT-IR and GPC. The curing kinetics of photo-induced reactions were investigated through photo-differential scanning calorimetry (PDSC). The oxygen permeability, mechanical, coatings, and release properties of siloxanes were studied as a function of the backbone substitutions. The mechanical, coatings and released properties of cycloaliphatic siloxanes improved with respect to polydimethylsiloxanes. The thermal analysis of the cured films were carried out using differential scanning calorimetry (DSC). Viscoelastic properties of the cured siloxanes due to the variation of substitution at the siloxane backbone were measured using dynamic mechanical thermal analysis (DMTA). The cycloaliphatic substituted siloxanes showed an increased glass transition temperature and permeability but reduced crosslink density, conversion, and rate of curing with respect to polydimethylsiloxanes. Hybrids of siloxanes were prepared with linseed oil based alkyds to study the effect of variation of alkyd oil lengths and cycloaliphatic substitutions on siloxane backbone. The oil length of an alkyd resin is defined as the number of grams of oil used to produce 100 grams of resin. Three linseed oil based alkyds representing long, medium, and short oil lengths were grafted with siloxanes substituted with methyl, cyclopentyl, and cyclohexyl groups. The reaction was monitored through FTIR and 1H-NMR. The hybrids were formulated with standard drier package and thermally cured for detailed film characterization. Improvement in crosslink density, flexibility, and reverse impact resistance were found as function of oil length. However, tensile modulus, elongation, glass transition temperature, drying time and fracture toughness decreased with increase in oil length. For hybrids, the cycloaliphatic substituents at the siloxane backbone showed enhanced mechanical and coating properties as compared to hybrids with polydimethylsiloxanes. Random and block copolymer of polydimethylsiloxanes with polydicycloaliphatic-siloxanes were synthesized and compared with homopolymers of polydicycloaliphatic siloxanes. The chemical characterization of the copolymers and homopolymers were carried out through 1H, 13C, 29Si-NMR, and FT-IR. The glass transition temperatures (Tg) of the synthesized polymers were obtained through DSC and advanced rheometric expansion system (ARES). The Tg of random copolymers were found to be higher than the corresponding block copolymers. There was very small difference in T g between cycloaliphaticsiloxanes homopolymers and corresponding random copolymers. From the above results, it can be inferred that the cycloaliphatic substitutions at the siloxane backbone can be used as a means to obtain properties intermediate to polydimethyl- and polydiphenyl siloxanes.

Novel Carbon (C)-Boron (B)-Nitrogen (N)-Containing H2 Storage Materials

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, Shih-Yuan; Giustra, Zachary X.; Autrey, Tom

The following summarizes the research conducted for DOE project DE-EE0005658 “Novel Carbon(C)-Boron(B)-Nitrogen(N)-Containing H2 Storage Materials”. This work focused in part on the continued study of two materials identified from the preceding project DE-FG360GO18143 (“Hydrogen Storage by Novel CBN Heterocycle Materials”) as lead candidates to meet the DOE technical targets for either vehicular or non-automotive hydrogen storage applications. Specifically, a room-temperature liquid, 3-methyl-1,2-cyclopentane (B), and a high H2 capacity solid, 1,2-BN-cyclohexane (J), were selected for further characterization and performance optimization. In addition to these compounds, the current project also aimed to prepare several new materials predicted to be disposed towards directmore » reversibility of H2 release and uptake, a feature deemed critical to achieving efficient recycling of spent fuel end products. To assist in the rational design of these and other next-generation materials, this project undertook to investigate the mechanism of hydrogen release from established compounds (mainly B and J) using a combined experimental/computational approach. Among this project’s signature accomplishments, the preliminary synthetic route to B was optimized for production on decagram scale. With such quantities of material available, its performance in powering an actual 30 W proton exchange membrane (PEM) fuel cell stack was tested and found to be identical to that of facility H2. Despite this positive proof-of-concept achievement, however, further consideration of neat B as a potential hydrogen storage material was abandoned due to evidence of thermal instability. Specifically, mass spectrometry-coupled thermogravimetric analysis (TGA-MS) revealed significant H2 release from B to initiate at 50 °C, well below the 60 °C minimum threshold set by the DOE. This result prompted a more extensive investigation in the decomposition mechanism of B vis-à-vis that of J, which exhibited in neat form a substantially higher onset temperature for spontaneous H2 release (70 °C). Solution-phase kinetic experiments using ReactIR established a second-order dependence for the initial loss of H2 from both B and J; Arrhenius analysis, however, revealed the activation barrier for this reaction was lower for B than for J, which presumably contributes to the diminished thermal stability of the former. On the basis of these and other experimental results, extensive computational efforts yielded a reasonable mechanistic model for the dehydrogenation of 1,2-BN-cycloalkane materials. While the prospect of neat B as a suitable hydrogen storage material was discarded, it was proposed that the combination of B with more thermally stable amine-borane-based materials might afford mixtures with improved properties. Indeed, when B was combined with ammonia borane (AB) in a 2:1 molar ratio, the two materials formed a liquid. More significantly, this mixture remained liquid even after complete dehydrogenation, thus establishing the potential for a single-phase fuel cycle. (In contrast, the dehydrogenation product of neat B is a low melting solid (mp = 28-30 °C).) Another advantage conferred by the blend formulation was a dramatic reduction in the amount of borazine produced by AB. Borazine is a well-known contaminant of H2 produced by the thermal decomposition of neat AB, and exerts deleterious effects on fuel cell performance. Residual gas analysis (RGA) of the gas stream generated from the B-AB blend, however, detected just 0.01% borazine content when a Pt-Ni nanoparticle dehydrogenation catalyst was used. In all ii then, the 2:1 B-AB blend marks a major achievement in the effort to develop a suitable liquid amine-borane hydrogen storage material, and merits further investigation into the optimization for practical adoption. Similar realization of the potential of J as a high % wt. H2 material required a method to dehydrogenate the carbonaceous components of the molecule without the use of a sacrificial hydrogen acceptor, as had been reported in the previous project. Ultimately, this reaction was achieved for a B,N-disubstituted BN-cyclohexene model substrate using a gas flow system with a fixed Pd/C catalyst bed. Considerable work remains, however, to translate these initial results into a general protocol for complete dehydrogenation of fully saturated BN-cycloalkane materials such as J. With concrete confirmation of the possibility to perform both BN and CC dehydrogenation on a single theoretical substrate, COMSOL modeling was used to evaluate the effects of thermodynamically coupling the two reactions. It was hypothesized that the heat generated from exothermic BN dehydrogenation would partially drive the endothermic CC dehydrogenation reaction; this additional heat consumption was expected to in turn confer the benefit of lowering the maximum reactor temperature. A two-dimensional model of an axisymmetric reactor including experimental kinetic and calculated thermodynamic parameters for both reactions did indeed predict these outcomes. The extent to which the effects of thermodynamic coupling actually manifested, however, were also revealed to depend strongly on the relative rates of the two reactions, as well as the magnitude of the equilibrium constant governing the progress of the endothermic process. Given the evident complexity of attaining high effective % wt. H2 capacity with J, alternative systems were investigated for greater facility of extensive H2 release. Among those studied, 1,2,4,5-bis-BN-cyclohexane (H) demonstrated the most favorable properties, particularly with respect to thermal stability: rather than decompose, a neat sample instead sublimed when heated above 150 °C. Nevertheless, two commercially available catalytic systems were identified to effect release of two H2 equivalents from H. Release of further equivalents were apparently impeded by the formation of either polymeric material or one of two dimeric cage compounds depending on the catalyst used. Notably, a method to regenerate H from these product mixtures remains to be developed. Thus, while H may prove useful for certain long-term energy storage needs, it is currently less suited applications involving frequent fuel consumption. Similar difficulties were also encountered in attempts to realize the complete fuel cycle of 1,3-BN-cyclohexane (E) and B,N-substituted derivatives thereof. It had been initially proposed that E would provide for readily reversible BN dehydrogenation through a measure of frustrated Lewis pair-type character. Indeed, computations predicted this reaction would be essentially thermoneutral in solution. In the course of attempts to fully hydrogenate the spent fuel, however, dimeric species formed and proved resistant to further BN reduction. While a number of monomeric cyclic compounds were also successfully synthesized as formal boron-nitrogen frustrated Lewis pairs, none demonstrated any capacity to split H2 across the BN unit. The challenge of developing a practical amine-borane-based material for readily reversible hydrogen storage thus remains unresolved at this time. As such, it deserves consideration as a major objective of any future work.« less