Advances in microbiology to enhance oil recovery

Applied Biochemistry and Biotechnology - Microbial experiments to study enhanced oil recovery have generally been conducted using vegetative microorganisms and one-dimensional laboratory models....     

Definition of a multicenter bond index

The tensor character of the first-order density matrix leads to the definition of an MO multicenter bond index for closed-shell systems. It is here applied to three-center bonds. Satisfactory results are obtained for compounds involving secondary bonds, strong and normal hydrogen bonds; the index for the peptide bond is found to be similar to that of strong hydrogen bonds.On leave of absence from Inst. de Física, UFBA, 40000 Salvador, BA, Brasil.     

Simplifying and expanding the screening for peptides <2 kDa by direct urine injection,liquid chromatography,and ion mobility mass spectrometry

The analysis of low‐molecular‐mass peptides in doping controls has become a mandatory aspect in sports drug testing and, thus, the number of samples that has to be tested for these analytes has been steadily increasing. Several peptides <2 kDa with performance‐enhancing properties are covered by the list of prohibited substances of the World Anti‐Doping Agency including Desmopressin, LH‐RH, Buserelin, Triptorelin, Leuprolide, GHRP‐1, GHRP‐2, GHRP‐3, GHRP‐4, GHRP‐5,GHRP‐6, Alexamorelin, Ipamorelin, Hexarelin, ARA‐290, AOD‐9604, TB‐500 and Anamorelin. With the presented method employing direct urine injection into a liquid chromatograph followed by ion‐mobility time‐of‐flight mass spectrometry, a facile, specific and sensitive assay for the aforementioned peptidic compounds is provided. The accomplished sensitivity allows for limits of detection between 50 and 500 pg/mL and thus covers the minimum required performance level of 2 ng/mL accordingly. The method is precise (imprecision <20%) and linear in the estimated working range between 0 and 10 ng/mL. The stability of the peptides in urine was tested, and –20°C was found to be the appropriate storage temperature for sports drug testing. Finally, proof‐of‐concept was shown by analysing elimination study urine samples collected from individuals having administered GHRP‐6, GHRP‐2, or LHRH.     

Competitive Excimer Formation and Energy Transfer in Zr‐Based Heterolinker Metal–Organic Frameworks

The spectroscopy and dynamics of a series of Zr‐based MOFs in dichloromethane suspension are reported. These Zr‐NADC MOFs were constructed by using different mixtures of 2,6‐naphthalenedicarboxylate (NDC) and 4‐amino‐2,6‐naphthalenedicarboxylate (NADC) as organic linkers. The fraction of NADC relative to NDC in these heterolinker MOFs ranges from 2 to 35 %. The results indicate two competitive photoprocesses: NDC excimer formation and an energy transfer (ET) from excited NDC linkers to NADC linkers. Increasing the fraction of NADC linkers in the Zr‐NADC nanostructure decreases the mean time constant of NDC excimer formation, while the NADC emission intensity experiences a drop at the highest fraction of this linker in the MOF. The first observation is explained by an increase in the energy‐transfer probability between the two linkers, and the second by emission quenching in the NADC linkers due to ultrafast charge transfer assisted by the amino group. Femtosecond time‐resolved emission studies showed that the ET process (recorded as decaying and rising components) from excited NDC to NADC takes place in 1.2 ps. Direct excitation of the NADC linkers (at 410 nm) shows a decaying, but not rising, component of 250–480 fs, which could reflect the formation of a nonemissive charge‐separation state. The results show that by using MOFs having heterolinkers it is possible to trigger and tune excimer formation and ET processes.     

A Semisynthetic Approach to New Immunoadjuvant Candidates: Site‐Selective Chemical Manipulation of Escherichia coli Monophosphoryl Lipid A

A semisynthetic approach to novel lipid A derivatives from Escherichia coli (E. coli) lipid A is reported. This methodology stands as an alternative to common approaches based exclusively on either total synthesis or extraction from bacterial sources. It relies upon the purification of the lipid A fraction from fed‐batch fermentation of E. coli, followed by its structural modification through tailored, site‐selective chemical reactions. In particular, modification of the lipid pattern and functionalization of the phosphate group as well as of the sole primary hydroxyl group were accomplished, highlighting the unusual reactivity of the molecule. Preliminary investigations of the immunostimulating activity of the new semisynthetic lipid A derivatives show that some of them stand out as promising, new immunoadjuvant candidates.     

Computational studies of stable hexanuclear CulAgmAun (l + m + n = 6; l,m, n > 0) clusters

A DFT study was carried out on the ground state structures of ternary Cu_lAg_mAu_n (l + m + n = 6) clusters, with the aim of investigating changes of thermal and kinetic stabilities as an effect of composition, as well as the composition dependence of the electrostatic potential, of stable planar structures. DFT optimizations were performed using the PBE functional and the SDD basis set. All the optimized structures adopt planar geometries with bent triangular structures. Calculated binding energy values are in the range 1.5–1.9 eV/atom, which shows their thermal stability. The predicted HOMO‐LUMO energy gap values are in the semiconductor region, providing a qualitative indication of a moderate kinetic stability. NBO analyses indicate the existence of two mechanisms promoting planar structural stability, one due to bonding‐antibonding orbital interaction, and the other one due to the well‐known spd hybridization. Wiberg indices were obtained showing interatomic bonding. Electrostatic potential calculations show the existence of nucleophilic attack regions preferentially around silver and copper atoms located at the vertices while electrophilic attack regions are found in the vicinity of gold atoms over the cluster plane. Apparently, charge transfer occurs toward gold from silver and copper atoms when the concentration is favorable in the proximity of gold atoms. In particular, if the small ternary clusters discussed here contain only one gold atom, then a high electron density is observed at the site of this gold atom. © 2016 Wiley Periodicals, Inc.     

Arborescent micelles: Dendritic poly(γ‐benzyl l‐glutamate) cores grafted with hydrophilic chain segments

Amphiphilic copolymers were obtained by grafting arborescent poly(γ‐benzyl l ‐glutamate) (PBG) cores of generations G1–G3 with polyglycidol, poly(ethylene oxide) (PEO), or poly(l ‐glutamic acid) (PGA) chain segments. The PBG substrates were synthesized by two methods: (1) subjecting PBG samples with a dispersity ? = M_w/M_n < 1.1 to partial acidolysis of the benzyl ester groups, to produce randomly distributed carboxylic acid functionalities, and (2) using PBG chains containing a glutamic acid di‐tert‐butyl ester initiator fragment in the last grafting cycle of the PBG core synthesis, and selective acidolysis of the tert‐butyl ester groups to obtain substrates with carboxylic acid termini. Linear polymers with ? < 1.20 and a primary amine terminus were also synthesized to serve as hydrophilic shell materials: Polyglycidol and PEO by anionic polymerization, and PGA by N‐carboxyanhydride ring‐opening polymerization. These polymers, combined with the two different PGB substrate types, allowed the evaluation of the usefulness of random versus chain‐end grafting in producing arborescent copolymers useful as unimolecular micelles in organic and aqueous media. Size exclusion chromatography served to determine the grafting yield, molar mass, dispersity, and branching functionality of the copolymers. Dynamic light scattering measurements provided information on their aggregation behavior in aqueous environments. © 2015 Wiley Periodicals, Inc. J. Polym. Sci., Part A: Polym. Chem. 2016 , 54, 1197–1209     

Manganese-quinizarin-pyrazinecarboxylic acid mixed-ligand complex in aprotic media. Formation of a manganese(III)- semiquinone binuclear species

The monoanion of pyrazincarboxylic acid (PcA^–), the dianion of quinizarine (Qz⁼) and manganese(II) yield a soluble deep-blue complex in dimethylsulphoxide whose Mn^II:Qz⁼:PcA^– stoichiometry has been established as 1:1:1. This mixed-ligand complex is oxidized in two steps, each involving one equivalent of charge per complex present, as indicated by controlled-potential electrolyses done at +0.30V versus s.c.e. and +0.50 V versus s.c.e.. The association between the metal ion and the ligands prevail and the oxidations finally produce a dark-red complex which possesses the same stoichiometry as the original deep-blue species. In the latter the metal ion is present in oxidation state +3 with the quinizarine dianion as the corresponding semiquinone of the oxidized quinizarine. The monoanion of pyrazincarboxylic acid remains unchanged. Controlled-potential electrolysis at –0.20 V versus s.c.e. of a solution of the mixed-ligand complex indicates that it is binuclear, generating a Mn^II-Mn^IIImixed-valence species. The latter is, in turn, reduced at –1.60 V versus s.c.e. producing probably a mononuclear of manganese(II) species. If manganese(II) is combined with the semiquinone of quinizarine the metal ion exhibits themagnetic characteristic of manganese(III) and thesemiquinone is reduced to the quinizarine dianion, indicating that the mixed-ligand formed exhibits intramolecular charge-transfer. This is a good example of a binuclear species accumulating four oxidation equivalents after oxidation of both metal centers and the quinizarine ligands.