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Tracie L Williams

Publications and source records attributed to Tracie L Williams.

9 recordsLinked to original sources

Detection, confirmation, and quantification of staphylococcal enterotoxin B in food matrixes using liquid chromatography--mass spectrometry.

Although immunoassay-based methods are sensitive and widely used for measuring protein toxins in food matrixes, there is a need for methods that can directly confirm the molecular identity of the toxin in situations where immunoassay tests yield a positive result. A method has been developed that uses mass spectrometry to identify a protein toxin, staphylococcal enterotoxin B (SEB), in a model food matrix, apple juice. The approach employs ultrafiltration to remove low molecular weight components from the sample, after which the remaining high molecular weight fraction, containing the protein, is digested with trypsin. The tryptic fragments are separated from residual biopolymers and analyzed by liquid chromatography-electrospray mass spectrometry. The background is still sufficiently complex that tandem mass spectrometry (MS/MS) is used to confirm the identity of target peptides. Limits of detection are 80 ng of SEB for MS and 100 ng for full scan MS/MS, using a tryptic fragment as the analytical target. Lower detection limits can be obtained using selected ion monitoring and multiple reaction monitoring. The presence of SEB can be confirmed at concentrations as low as 5 parts-per-billion by increasing the size of the sample to 10 mL. The method is applicable to the detection of SEB in other water-soluble food matrixes.

Chromatography, Liquid↗

A top-down proteomics approach for differentiating thermal resistant strains of Enterobacter sakazakii.

Thermal tolerance has been identified as an important factor relevant to the pathogenicity of Enterobacter sakazakii in human neonates. To identify a biomarker specific for this phenotypic trait, intact protein expression profiles of 12 strains of E. sakazakii were obtained using liquid chromatography mass spectrometry. Proteins were extracted from the bacterial cells, separated by reversed-phase liquid chromatography and mass analyzed. At the end of the chromatography run, the uncharged masses of the multiply charged proteins were determined via automated software routines. The resulting data provided an accurate mass expression profile of the proteins found in the individual strains. From the individual expression profiles, it was possible to identify unique proteins corresponding to strains with thermal resistance. One protein found only in the thermal tolerant strains was sequenced and identified as homologous to a hypothetical protein found in the thermal tolerant bacteria, Methylobacillus flagellatus KT. The protein sequence of this protein was then used to reverse-engineer PCR primers for the gene sequence associated with the protein. In all cases, only thermal tolerant strains of E. sakazakii produced amplified PCR products, demonstrating the specificity of this biomarker.

Amino Acid Sequence↗

Identifying new PCR targets for pathogenic bacteria using top-down LC/MS protein discovery.

We have investigated the use of a top-down liquid chromatography/mass spectrometric (LC/MS) approach for the identification of specific protein biomarkers useful for differentiation of closely related strains of bacteria. The sequence information derived from the protein biomarker was then used to develop specific polymerase chain reaction primers useful for rapid identification of the strains. Shiga-toxigenic Escherichia coli (STEC) strains were used for this evaluation. The expressed protein profiles of two closely related serotype 0157:H7 strains, the predominant strain implicated in illness worldwide, and the nonpathogenic E. coli K-12 strain were compared with each other in an attempt to identify new protein markers that could be used to distinguish the 0157:H7 strains from each other and from the E. coli K-12 strain. Sequencing of a single protein unique to one of the 0157:H7 strains identified it as a cytolethal distending toxin, a potential virulence marker. The protein sequence information enabled the derivation of genetic sequence information for this toxin, thus allowing the development of specific polymerase chain reaction primers for its detection. In addition, the top-down LC/MS technique was able to identify other unique biomarkers and differentiate nearly identical 0157:H7 strains, which exhibited identical phenotypic, serologic, and genetic traits. The results of these studies demonstrate that this approach can be expanded to other serotypes of interest and provide a rational approach to identifying new molecular targets for detection.

Bacterial Proteins↗

Relative quantitation of intact proteins of bacterial cell extracts using coextracted proteins as internal standards.

A method for quantitating protein expression using LC/MS of whole proteins is described. This method is based on the fact that some proteins present in cells are abundant universal proteins whose expression levels exhibit little variation. This method demonstrates that these coextracted proteins can be used as internal standards to which the other proteins in the sample can be compared. By comparing the intensities of a selected protein to marker proteins, or internal standards, a relative ratio is obtained. This ratio can then be used to determine the relative amount of protein expression between cellular extracts. The validity of this approach is described for a standard protein mixture, as well as, E. coli cells that were known to differentially express green fluorescent protein.

Bacterial Proteins↗

Identification of a protein biomarker unique to the pandemic O3:K6 clone of Vibrio parahaemolyticus.

The present method of characterizing Vibrio parahaemolyticus strains involves serotyping or detection methods based on assessment of the presence or absence of genes thought to be markers of an organism's pathogenicity. It is unclear whether these assays detect all pathogenic V. parahaemolyticus strains since a clear correlation between the presence of a particular gene and the organism's pathogenicity has not yet been observed. We have described a proteomics-based method to distinguish individual V. parahaemolyticus strains on the basis of their protein profiles and identified a specific protein that is characteristic of the pandemic O3:K6 strain and its clonal derivatives. In the pandemic clone of V. parahaemolyticus, a histone-like DNA-binding protein, HU-alpha, has a C-terminal amino acid sequence different from those of other strains of V. parahaemolyticus. Upon further study, it was discovered that the gene encoding this protein has a 16-kbp insert at the 3' terminus of the open reading frame for this protein. By using the protein sequence of the unique biomarker for the pandemic clone of V. parahaemolyticus, it was possible to rationally design specific PCR-based probes and assays that permit the rapid and precise identification of pandemic strains of V. parahaemolyticus.

Amino Acid Sequence↗

Experimental factors affecting the quality and reproducibility of MALDI TOF mass spectra obtained from whole bacteria cells.

Numerous experimental factors are shown to significantly influence the spectra obtained when bacteria are analyzed by MALDI TOF/MS. Detailed investigation of the instrument parameters and sample preparation are all shown to influence the spectra. Of these, the preanalysis sample preparation steps incorporate the most important elements influencing the quality and reproducibility of the spectra. Some of the most important sample preparation factors include the method employed for sterilization, the type of matrix, the matrix solvent and concentration of cells in the matrix, as well as the type and concentration of acid added to the matrix. The effects of these parameters, as well as other aspects of sample preparation and the effects of several instrumental parameters on spectra are presented. Optimization and control of all experimental variables leads to a stable protocol for analysis of bacteria. The protocol employs a Nd:Yag laser and describes both sample handling and instrument conditions which consistently yield reproducible MALDI TOF mass spectra with greater than 25 peaks from both gram-positive and gram-negative bacteria.

Acids↗

Synthesis and characterization of diametrically substituted tetra-O-n-butylcalix[4]arene ligands and their chelated complexes of titanium, molybdenum, and palladium.

The ligation properties of three new upper-rim-substituted calix[4]arene ligands, 5,17-bis(hydroxymethyl)-tetra-n-butoxycalix[4]arene ((HOCH2)2-nBu4Clx, 7), 5,17-bis((diphenylphosphinito)methoxy)-tetra-n-butoxycalix[4]arene ((PPh2OCH2)2-nBu4Clx, 8), and 5,17-bis((diphenylphosphino)methyl)-tetra-n-butoxycalix[4]arene ((PPh2CH2)2-nBu4Clx, 10) are reported herein. The newly prepared compounds differ from previously reported diametrically substituted calix[4]arene derivatives in that the lower-rim substituent was n-butyl. The presence of this lower-rim substituent did not reduce the inherent crystallinity of these complexes as purification of all materials occurred via simple crystallizations. The key precursor for the syntheses of 8 and 10 was 7, acquisition of which occurred in six steps starting from tetra-tert-butylcalix[4]arene, 1. Calix[4]arene derivatives include, tetra-n-butoxycalix[4]arene (nBu4Clx, 3), 5,11,17,23-tetrabromo-tetra-n-butoxycalix[4]arene (Br4-nBu4Clx, 4), 5,17-dibromo-tetra-n-butoxycalix[4]arene (Br2-nBu4Clx, 5), 5,17-bis(formyl)-tetra-n-butoxycalix[4]arene ((CHO)2-nBu4Clx, 6), and 5,17-bis(chloromethyl)-tetra-n-butoxycalix[4]arene ((ClCH2)2-nBu4Clx, 9), all of which were synthesized using modifications of existing procedures. Characterization of all compounds occurred, when possible, using 1H, 13C, and 31P NMR, elemental analyses, FAB-MS, ESI-MS, FT-IR, and X-ray crystallography. The solid-state structures of all calix[4]arene intermediates and ligands showed that the annulus adopted the pinched-cone conformation in which the average C(5)...C(17) intraannular separation was 4.5 +/- 0.4 A. Reaction of 7 with CpTiMe3 yielded the cis-chelate, CpTi(Me)[(OCH2)2-nBu4Clx] (11), quantitatively. Data obtained using ESI-MS (positive-ion mode) confirmed the monomer formulation showed above, and 1H NMR spectra provided sufficient information to deduce the nature of the Ti coordination sphere. Reaction of 8 with cis-Cl2Pd(NCPh)2 in refluxing benzene afforded cis-Cl2Pd[(PPh2OCH2)2-nBu4Clx] (12) in good yields. The monomeric identity of this compound was verified by both X-ray crystallography and positive-ion ESI-MS. The cis-bidentate calix[4]arene ligand did not undergo any noticeable contortion upon chelation of the PdCl2 fragment. Acid-promoted decomposition of 12 occurred in the presence of adventitious HCl and gaseous HCl, and the products of this decomposition were 9 and [mu2-ClPd(PPh2OH)(PPh2O)]2. In addition, chelates of 8 that contained Mo(CO)3L (L = NCMe (14a), NCEt (14b), and CO (14c)) showed that the mode of coordination was relatively insensitive to the identity of the metal. X-ray crystallography afforded views of the solid-state structures of 14b,c and, like 12, showed that the Mo(CO)3L fragment resided above the pinched-cone of the calix[4]arene. 1H NMR revealed that C-H/pi interactions existed between L (14a,b) and a phenyl ring of the coordinated phosphinite. Finally, the bis(diphenylphosphine)calix[4]arene ligand (10) readily coordinated the Mo(CO)3L species, but the reaction did not go to completion, as evidenced by 1H NMR, even after a 5 day reaction time. Data suggest that the product is similar to that observed for 12 and 14, but the incomplete reaction complicated attempts to obtain pure material and prohibited definitive assignment of the coordination array.

Journal Article↗

Automated postprocessing of electrospray LC/MS data for profiling protein expression in bacteria.

We describe an integrated approach for automating protein analysis of bacterial cell extracts. The method uses electrospray LC/MS to generate chromatographic profiles of proteins present in an extract, along with a software program that automates the data analysis. The software program, Retana, automates the sequential summing, centroiding, and deconvolution of multiply charged proteins present in consecutive scans of the LC/MS analysis. This procedure generates a concise, single spectrum of proteins present in the extract, along with their retention time and relative abundance. A comparison of the method with "whole cell" MALDI analysis demonstrates improved mass resolution and mass accuracy, along with the appearance of a greater number of proteins. Additionally, it is possible to compare protein expression among strains of bacteria by normalizing the relative abundance of similar proteins in each analysis.

Automation↗

Cyclometalated products of [(COE)(2)RhCl](2) and 1,3-(RSCH(2))(2)C(6)H(4) (R = (t)Bu, (i)Pr) Are Dimeric. Synthesis, molecular structures, and solution dynamics of [mu-ClRh(H)(RSCH(2))(2)C(6)H(3)-2,6](2).

Two tridentate thioether pincer ligands, 1,3-(RSCH(2))(2)C(6)H(4) (R = (t)()Bu, 1a; R = (i)()Pr, 1b) underwent cyclometalation using [(COE)(2)RhCl](2) in air/moisture-free benzene at room temperature. The resultant complexes, [mu-ClRh(H)(RSCH(2))(2)C(6)H(3)-2,6](2) (R = (t)Bu, 2a; R = (i)Pr, 2b) are dimeric both in the solid state and in solution. A battery of variable-temperature one- and two-dimensional (1)H NMR experiments showed conclusively that both complexes undergo dynamic exchange in solution. Exchange between two dimeric diastereomers of 2a in solution occurred via rotation about the Rh-C(ipso) bond. The dynamic exchange of 2b was significantly more complex as an additional exchange mechanism, sulfur inversion, occurred, which resulted in the exchange between several diastereomers in solution.

Journal Article↗