Multiparameter Longitudinal Imaging of Immune Cell Activity in Chimeric Antigen Receptor T Cell and Checkpoint Blockade Therapies.

Longitudinal multimodal imaging presents unique opportunities for noninvasive surveillance and prediction of treatment response to cancer immunotherapy. In this work we first designed a novel granzyme B activated self-assembly small molecule, G-SNAT, for the assessment of cytotoxic T lymphocyte mediated cancer cell killing. G-SNAT was found to specifically detect the activity of granzyme B within the cytotoxic granules of activated T cells and engaged cancer cells .

Hereditary diffuse gastric cancer therapeutic roadmap: current and novel approaches in a nutshell.

Hereditary diffuse gastric cancer (HDGC) is a rare malignancy characterized by autosomal dominant inheritance of pathological variants of the gene encoding E-cadherin, which is involved in cell-cell adhesion, maintenance of epithelial architecture, tumor suppression, and regulation of intracellular signaling pathways. Late-stage recognition of HDGC is typically associated with a poor clinical outcome due to its metastatic potential and risk of lobular breast cancer (LBC) development. The American College of Gastroenterology issued guidelines to evaluate HDGC, test for genetic variants, and recommend prophylactic gastrectomy for carriers of mutations.

ePath: an online database towards comprehensive essential gene annotation for prokaryotes.

Experimental techniques for identification of essential genes (EGs) in prokaryotes are usually expensive, time-consuming and sometimes unrealistic. Emerging in silico methods provide alternative methods for EG prediction, but often possess limitations including heavy computational requirements and lack of biological explanation. Here we propose a new computational algorithm for EG prediction in prokaryotes with an online database (ePath) for quick access to the EG prediction results of over 4,000 prokaryotes ( https://www.

Bioinformatics Workflow for Gonococcal Proteomics.

High-throughput quantitative proteomics unravels secrets of Neisseria gonorrhoeae biology by profiling proteome responses to environmental and endogenous cues and opens translational research paths through identification of vaccine candidates, drug targets/virulence factors, and biomarkers. Bioinformatics tools and databases are indispensable for downstream analysis of proteomic datasets to generate biologically meaningful outcomes. In this chapter, we present a workflow for proteomic data analysis with emphasis on publicly available resources, software systems, and tools that predict protein subcellular localization (CELLO, PSORTb v3.

Quantitative Proteomics of the 2016 WHO Reference Strains Surveys Vaccine Candidates and Antimicrobial Resistance Determinants.

The sexually transmitted disease gonorrhea (causative agent: ) remains an urgent public health threat globally because of its reproductive health repercussions, high incidence, widespread antimicrobial resistance (AMR), and absence of a vaccine. To mine gonorrhea antigens and enhance our understanding of gonococcal AMR at the proteome level, we performed the first large-scale proteomic profiling of a diverse panel ( = 15) of gonococcal strains, including the 2016 World Health Organization (WHO) reference strains. These strains show all existing AMR profiles - established through phenotypic characterization and reference genome publication - and are intended for quality assurance in laboratory investigations.

Analysis of essential gene dynamics under antibiotic stress in Streptococcus sanguinis.

The paradoxical response of Streptococcus sanguinis to drugs prescribed for dental and clinical practices has complicated treatment guidelines and raised the need for further investigation. We conducted a high throughput study on concomitant transcriptome and proteome dynamics in a time course to assess S. sanguinis behaviour under a sub-inhibitory concentration of ampicillin.

ciaR impacts biofilm formation by regulating an arginine biosynthesis pathway in Streptococcus sanguinis SK36.

Streptococcus sanguinis is an early colonizer of the tooth surface and competes with oral pathogens such as Streptococcus mutans to maintain oral health. However, little is known about its mechanism of biofilm formation. Here, we show that mutation of the ciaR gene, encoding the response regulator of the CiaRH two-component system in S.

Proteomic Approach for Extracting Cytoplasmic Proteins from using Mass Spectrometry.

is a commensal and early colonizer of oral cavity as well as an opportunistic pathogen of infectious endocarditis. Extracting the soluble proteome of this bacterium provides deep insights about the physiological dynamic changes under different growth and stress conditions, thus defining "proteomic signatures" as targets for therapeutic intervention. In this protocol, we describe an experimentally verified approach to extract maximal cytoplasmic proteins from SK36 strain.

Involvement of signal peptidase I in Streptococcus sanguinis biofilm formation.

Biofilm accounts for 65-80 % of microbial infections in humans. Considerable evidence links biofilm formation by oral microbiota to oral disease and consequently systemic infections. Streptococcus sanguinis, a Gram-positive bacterium, is one of the most abundant species of the oral microbiota and it contributes to biofilm development in the oral cavity.

Identification of Small-Molecule Inhibitors against Meso-2, 6-Diaminopimelate Dehydrogenase from Porphyromonas gingivalis.

Species-specific antimicrobial therapy has the potential to combat the increasing threat of antibiotic resistance and alteration of the human microbiome. We therefore set out to demonstrate the beginning of a pathogen-selective drug discovery method using the periodontal pathogen Porphyromonas gingivalis as a model. Through our knowledge of metabolic networks and essential genes we identified a "druggable" essential target, meso-diaminopimelate dehydrogenase, which is found in a limited number of species.

Identification and antibacterial resistance of bacteria isolated from poultry.

Food-borne infections are among the prominent health hazards. Antibacterial agents (ABA) are usually administered to poultry in Lebanon as antibiotic growth promoters (AGP), which might lead to the dissemination of resistant bacterial strains. The aims of this study were to isolate potential food borne pathogens from poultry and investigate an association between AGP usage and antibacterial resistance (ABR).

The effect of five antibacterial agents on the physiological levels of serum nitric oxide in mice.

In addition to their action on microorganisms, antibacterial agents have been reported to affect host defense mechanisms. Nitric oxide (NO) that is produced by a number of cell types in the innate immune response is bactericidal, but when produced in excessive amounts it could be detrimental to the host. In this study, five antibacterial agents (gentamicin, tobramycin, imipenem, tigecycline, isoniazid) were compared with respect to their ability to affect NO production in mice.