David J. Kiemle

Nanogram-Scale Preparation and NMR Analysis for Mass-Limited Small Volatile Compounds

Semiochemicals are often produced in infinitesimally small quantities, so their isolation requires large amounts of starting material, not only requiring significant effort in sample preparation, but also resulting in a complex mixture of compounds from which the bioactive compound needs to be purified and identified. Often, compounds cannot be unambiguously identified by their mass spectra alone, and NMR analysis is required for absolute chemical identification, further exacerbating the situation because NMR is relatively insensitive and requires large amounts of pure analyte, generally more than several micrograms. We developed an integrated approach for purification and NMR analysis of <1 µg of material. Collections from high performance preparative gas-chromatography are directly eluted with minimal NMR solvent into capillary NMR tubes. With this technique, 1H-NMR spectra were obtained on 50 ng of geranyl acetate, which served as a model compound, and reasonable H-H COSY NMR spectra were obtained from 250 ng of geranyl acetate. This simple off-line integration of preparative GC and NMR will facilitate the purification and chemical identification of novel volatile compounds, such as insect pheromones and other semiochemicals, which occur in minute (sub-nanogram), and often limited, quantities.

Submicro scale NMR sample preparation for volatile chemicals.

A simple, inexpensive, and highly efficient NMR sample preparation technique for volatile chemicals has been devised using a micropreparative GC system. The recovery efficiency of a volatile chemical using this technique was >80% with sample sizes of 0.05 to 0.5 μg. The purity of the acquired NMR samples was sufficient for high sensitive NMR analyses including two dimensional experiments.

Unusual macrocyclic lactone sex pheromone of Parcoblatta lata, a primary food source of the endangered red-cockaded woodpecker

Wood cockroaches in the genus Parcoblatta, comprising 12 species endemic to North America, are highly abundant in southeastern pine forests and represent an important prey of the endangered red-cockaded woodpecker, Picoides borealis. The broad wood cockroach, Parcoblatta lata, is among the largest and most abundant of the wood cockroaches, constituting >50% of the biomass of the woodpeckers diet. Because reproduction in red-cockaded woodpeckers is affected dramatically by seasonal and spatial changes in arthropod availability, monitoring P. lata populations could serve as a useful index of habitat suitability for woodpecker conservation and forest management efforts. Female P. lata emit a volatile, long-distance sex pheromone, which, once identified and synthesized, could be deployed for monitoring cockroach populations. We describe here the identification, synthesis, and confirmation of the chemical structure of this pheromone as (4Z,11Z)-oxacyclotrideca-4,11-dien-2-one [= (3Z,10Z)-dodecadienolide; herein referred to as “parcoblattalactone”]. This macrocyclic lactone is a previously unidentified natural product and a previously unknown pheromonal structure for cockroaches, highlighting the great chemical diversity that characterizes olfactory communication in cockroaches: Each long-range sex pheromone identified to date from different genera belongs to a different chemical class. Parcoblattalactone was biologically active in electrophysiological assays and attracted not only P. lata but also several other Parcoblatta species in pine forests, underscoring its utility in monitoring several endemic wood cockroach species in red-cockaded woodpecker habitats.

Preliminary Results on an Approach for the Quantification of Lignin-Carbohydrate Complexes (LCC) in Hardwood Pulps

Abstract The literature on biomass research contains many references to lignin-carbohydrate complexes (LCC) decreasing the rate of delignification in chemical pulp production, decreasing the yield of cellulosic ethanol via fermentation, and decreasing forage digestibility. However, it is difficult to find correlations between rates of the processes above and initial LCC concentration. One of the main reasons for the lack of such correlations is the absence of methods for accurate quantification of LCC. In this investigation, repeatable and reproducible determinations of bound sugars at monomeric concentrations as low as 0.3 wt% on enzymatic lignin (EL) have been achieved. The bound sugars are hydrolyzed by H2SO4, most likely as low molecular weight oligomers. In the same H2SO4 treatment, the oligomers are hydrolyzed to monomers which are subsequently quantified by 1H NMR analyses. A significant enrichment of bound arabinan was previously reported when a crude milled wood lignin (MWL) was compared to the starting wood meal. A similar arabinan enrichment was observed for ELs from kraft and soda-AQ (SAQ) pulps in the present study. Also, well-resolved cross-peaks have been obtained in 2D HSQC NMR analyses of ELs. It has so far been confirmed that the EL from a 30.6 kappa number SAQ pulp from sugar maple contained ∼30% more benzyl ethers linked to primary-OH groups in sugar units than the corresponding EL from a 33.7 kappa number kraft pulp.

Analysis of 2-deuterated isopentenyl alcohols by 1H NMR of chiral esters

Abstract A convenient procedure is presented whereby the chirality of isopentenyl alcohols labeled with deuterium in the 2-position can be determined by 1 H NMR analysis of their chiral esters. The MTPA, MPA and O -acetylmandelate esters were investigated in a series of NMR solvents. The best results were obtained using the O -acetylmandelates in C 6 D 6 with homodecoupling of the 1-position.

NMR Tube Degradation Method for Sugar Analysis of Glycosides

The sugar subunits of natural glycosides can be conveniently determined by acid hydrolysis and (1)H NMR spectroscopy without isolation or derivatization. The chemical shifts, coupling constants, and integral ratios of the anomeric signals allow each monosaccharide to be identified and its molar ratio to other monosaccharides to be quantified. The NMR data for the anomeric signals of 28 monosaccharides and three disaccharides are reported. Application of the method is demonstrated with the flavonoid glycoside naringin (1), the aminoglycoside antibiotics kanamycin (2) and tobramycin (3), and the saponin digitonin (4).

Structural identities of four glycosylated lipids in the oral bacterium Streptococcus mutans UA159.

The cariogenic bacterium Streptococcus mutans is an important dental pathogen that forms biofilms on tooth surfaces, which provide a protective niche for the bacterium where it secretes organic acids leading to the demineralization of tooth enamel. Lipids, especially glycolipids are likely to be key components of these biofilm matrices. The UA159 strain of S. mutans was among the earliest microorganisms to have its genome sequenced. While the lipids of other S. mutans strains have been identified and characterized, lipid analyses of UA159 have been limited to a few studies on its fatty acids. Here we report the structures of the four major glycolipids from stationary-phase S. mutans UA159 cells grown in standing cultures. These were shown to be monoglucosyldiacylglycerol (MGDAG), diglucosyldiacylglycerol (DGDAG), diglucosylmonoacylglycerol (DGMAG) and, glycerophosphoryldiglucosyldiacylglycerol (GPDGDAG). The structures were determined by high performance thin-layer chromatography, mass spectrometry and nuclear magnetic resonance spectroscopy. The glycolipids were identified by accurate, high resolution, and tandem mass spectrometry. The identities of the sugar units in the glycolipids were determined by a novel and highly efficient NMR method. All sugars were shown to have α-glycosidic linkages and DGMAG was shown to be acylated in the sn-1 position by NMR. This is the first observation of unsubstituted DGMAG in any organism and the first mass spectrometry data for GPDGDAG.

C-4 sterol demethylation enzymes distinguish bacterial and eukaryotic sterol synthesis

Significance Sterols are essential eukaryotic lipids that can be preserved as steroids in sedimentary rocks for billions of years. Because eukaryotes are the predominant modern day producers of these lipids, fossilized sterols are used as geological biomarkers for the presence of specific eukaryotes in ancient environments. Sterol lipids are also produced by a few bacteria, but the biosynthesis and function of sterols in bacteria are not as well-understood. In this study, we used a combination of bioinformatics and lipid analyses to identify bacterial sterol synthesis proteins. Our results indicate that bacteria have evolved distinct aspects of the sterol synthesis pathway independent of eukaryotes and show that exploring sterol physiology in bacteria can provide insight into this geologically relevant pathway. Sterols are essential eukaryotic lipids that are required for a variety of physiological roles. The diagenetic products of sterol lipids, sterane hydrocarbons, are preserved in ancient sedimentary rocks and are utilized as geological biomarkers, indicating the presence of both eukaryotes and oxic environments throughout Earth’s history. However, a few bacterial species are also known to produce sterols, bringing into question the significance of bacterial sterol synthesis for our interpretation of sterane biomarkers. Recent studies suggest that bacterial sterol synthesis may be distinct from what is observed in eukaryotes. In particular, phylogenomic analyses of sterol-producing bacteria have failed to identify homologs of several key eukaryotic sterol synthesis enzymes, most notably those required for demethylation at the C-4 position. In this study, we identified two genes of previously unknown function in the aerobic methanotrophic γ-Proteobacterium Methylococcus capsulatus that encode sterol demethylase proteins (Sdm). We show that a Rieske-type oxygenase (SdmA) and an NAD(P)-dependent reductase (SdmB) are responsible for converting 4,4-dimethylsterols to 4α-methylsterols. Identification of intermediate products synthesized during heterologous expression of SdmA-SdmB along with 13C-labeling studies support a sterol C-4 demethylation mechanism distinct from that of eukaryotes. SdmA-SdmB homologs were identified in several other sterol-producing bacterial genomes but not in any eukaryotic genomes, indicating that these proteins are unrelated to the eukaryotic C-4 sterol demethylase enzymes. These findings reveal a separate pathway for sterol synthesis exclusive to bacteria and show that demethylation of sterols evolved at least twice—once in bacteria and once in eukaryotes.