A5007608688- Methane Hydrates and Related Phenomena
- Seismic Waves and Analysis
- Seismology and Earthquake Studies
- Geophysics and Gravity Measurements
- Ionosphere and magnetosphere dynamics
- Advanced Proteomics Techniques and Applications
- Identification and Quantification in Food
- Transgenic Plants and Applications
- Genomics and Phylogenetic Studies
- Toxin Mechanisms and Immunotoxins
- Forensic and Genetic Research
- Microbial Community Ecology and Physiology
- Bacterial Identification and Susceptibility Testing
- Bacillus and Francisella bacterial research
- Enzyme Structure and Function
- Bacteriophages and microbial interactions
- Endoplasmic Reticulum Stress and Disease
- Cell Image Analysis Techniques
- Health, Environment, Cognitive Aging
- Mass Spectrometry Techniques and Applications
- Yersinia bacterium, plague, ectoparasites research
Pacific Northwest National Laboratory
2017-2025
Genetic Signatures (Australia)
2025
Government of the United States of America
2022
General proteomics research for fundamental science typically addresses laboratory- or patient-derived samples of known origin and composition. However, in a few areas, such as environmental proteomics, clinical identification infectious organisms, archeology, art/cultural history, forensics, attributing the protein-containing sample to organisms that produced it is central focus. A small number groups have approached this problem developed software tools taxonomic characterization and/or...
Metaproteomics has been increasingly utilized for high-throughput characterization of proteins in complex environments and demonstrated to provide insights into microbial composition functional roles. However, significant challenges remain metaproteomic data analysis, including creation a sample-specific protein sequence database. A well-matched database is requirement successful metaproteomics the accuracy sensitivity PSM identification algorithms suffer when incomplete or contains...
Bottom-up proteomics is increasingly being used to characterize unknown environmental, clinical, and forensic samples. Proteomics-based bacterial identification typically proceeds by tabulating peptide "hits" (i.e., confidently identified peptides) associated with the organisms in a database; those enough hits are declared present sample. This approach has proven be successful laboratory studies; however, important research gaps remain. First, common-practice reliance on unique peptides for...
Robust and highly specific methods for the detection of protein toxin ricin are interest to law enforcement community. In previous studies, based on liquid chromatography-tandem mass spectrometry shotgun proteomics have been proposed. The successful implementation this approach relies data evaluation criteria addressing (1) quality spectrometric data, (2) confidence peptide identifications (peptide-spectrum matches), (3) number sequence specificity peptides detected. We present such use a...
Antimicrobial resistance (AMR) is a well-recognized, widespread, and growing issue of concern. With increasing incidence AMR, the ability to respond quickly infection with or exposure an AMR pathogen critical. Approaches that could accurately more identify whether also are needed rapidly existing emerging biological threats. We examined proteins associated paired antimicrobial susceptible (AMS) strains Yersinia pestis Francisella tularensis, causative agents diseases plague tularemia,...
Ricin, a toxic protein from the castor plant, is of forensic and biosecurity interest because its high toxicity common occurrence in crimes attempted crimes. Qualitative methods to detect ricin are therefore needed. Untargeted liquid chromatography-tandem mass spectrometry (LC-MS/MS) proteomics well suited their specificity. Specificity LC-MS/MS comes both LC MS components. However, modern untargeted often use nanoflow LC, which has less reproducible retention times than standard-flow making...
Abstract Metaproteomics has been increasingly utilized for high-throughput molecular characterization in complex environments and demonstrated to provide insights into microbial composition functional roles soil systems. Despite its potential the study of microbiomes, significant challenges remain data analysis, including creation a sample-specific protein sequence database as taxonomic is often unknown. Almost all metaproteome analysis tools require this their accuracy sensitivity suffer...