Diversity in sequence-dependent control of GRO chemokine mRNA half-life.

Neutrophil trafficking to sites of injury or infection is regulated, in part, by the closely related GRO family of chemokines (CXCL1, -2, and -3). Expression of the GRO chemokine genes is known to be determined by transcriptional bursts in response to proinflammatory stimulation, but post-transcriptional mechanisms that regulate mRNA half-life are now recognized as important determinants. mRNA half-life is regulated via distinct sequence motifs and sequence-specific, RNA-binding proteins, whose function is subject to regulation by extracellular proinflammatory stimuli.

Nearly finished genomes produced using gel microdroplet culturing reveal substantial intraspecies genomic diversity within the human microbiome.

The majority of microbial genomic diversity remains unexplored. This is largely due to our inability to culture most microorganisms in isolation, which is a prerequisite for traditional genome sequencing. Single-cell sequencing has allowed researchers to circumvent this limitation.

Draft Genome Sequence of a Single Cell of SAR86 Clade Subgroup IIIa.

SAR86 denotes a 16S clade of gammaproteobacteria that are ubiquitous in ocean surface waters. So far, SAR86 is resistant to cultivation; thus, little is known about the genome contents or physiology of this clade. Recently, four partial genome sequences for SAR86 subclades I and II were published.

2D plasmonic and diffractive structures with sharp features by UV laser patterning.

The aim of this work is to produce 2D plasmonic and diffractive structures in Ag films with sharp features for which both a deeper understanding of laser induced transformation upon modulated laser intensity and a correlation between structural and optical properties are required. We compare results obtained by exposing silver films to an excimer laser operating at 193 nm whose intensity is either modulated or homogeneous. In all cases, one laser exposure is enough to break the film into nanoparticles (NPs).

Estimation of the deamidation rates of major deamidation sites in a Fab fragment of mouse IgG1-κ by capillary isoelectric focusing of mutated Fab fragments.

The deamidation of asparagine (Asn or N) residues in proteins is a common post-translational chemical modification. The identification of deamidation sites and determination of the degree of deamidation have been carried out by the combination of peptide mapping and mass spectrometry. However, when a peptide fragment contains multiple amides, such analysis becomes difficult and sometimes impossible.

Sub 2-μm macroporous silica particles derivatized for enhanced lectin affinity enrichment of glycoproteins.

A new, mechanically stable silica microparticle with macrosized internal pores (1.6 μm particles with 100 nm pores) has been developed for chromatography. The particles are characterized by an extensive network of interconnected macropores with a high intraparticle void volume, as observed by transmission electron microscopy (TEM).

The green monster process for the generation of yeast strains carrying multiple gene deletions.

Phenotypes for a gene deletion are often revealed only when the mutation is tested in a particular genetic background or environmental condition(1,2). There are examples where many genes need to be deleted to unmask hidden gene functions(3,4). Despite the potential for important discoveries, genetic interactions involving three or more genes are largely unexplored.

Detecting false positives in A-B designs: potential implications for practitioners.

This study evaluated the probability of generating false positives with A-B graphs. We generated 1,000 graphs consisting of three stable A-phase data points at 25% and three random B-phase data points; 1,000 graphs consisting of three stable A-phase data points at 50% and three random B-phase data points; and 1,000 graphs consisting of three random A-phase data points and three random B-phase data points. Results indicate that false positives were produced for (a) a relatively high percentage of graphs containing nonrandom data points in the A phase and (b) less than 2% of graphs containing random data points in both the A and B phases.

Self-reflection in cognitive behavioural therapy and supervision.

Objective: Supervision is a basic part of training and ongoing education in cognitive behavioural therapy. Self-reflection is an important part of supervision. The conscious understanding of one's own emotions, feelings, thoughts, and attitudes at the time of their occurrence, and the ability to continuously follow and recognize them are among the most important abilities of both therapists and supervisors.

Challenges and strategies in serving the uninsured in Nashville, Tennessee.

This study identified challenges faced by a healthcare safety net system. Surveys of safety net outpatient clinic and hospital emergency department (ED) facilities and key informant interviews ascertained barriers to providing necessary client services and strategies to overcome them. About 60% of key informants responded that Medicaid cuts greatly increased the numbers of uninsured clients.

Analytical glycobiology at high sensitivity: current approaches and directions.

This review summarizes the analytical advances made during the last several years in the structural and quantitative determinations of glycoproteins in complex biological mixtures. The main analytical techniques used in the fields of glycomics and glycoproteomics involve different modes of mass spectrometry and their combinations with capillary separation methods such as microcolumn liquid chromatography and capillary electrophoresis. The need for high-sensitivity measurements have been emphasized in the oligosaccharide profiling used in the field of biomarker discovery through MALDI mass spectrometry.

Sequence analysis of a complete 1.66 Mb Prochlorococcus marinus MED4 genome cloned in yeast.

Marine cyanobacteria of the genus Prochlorococcus represent numerically dominant photoautotrophs residing throughout the euphotic zones in the open oceans and are major contributors to the global carbon cycle. Prochlorococcus has remained a genetically intractable bacterium due to slow growth rates and low transformation efficiencies using standard techniques. Our recent successes in cloning and genetically engineering the AT-rich, 1.

Uptake and incorporation of sialic acid by the tick Ixodes ricinus.

We describe the detection of sialylated N-linked glycans in partially fed Ixodes ricinus tick females using matrix-assisted laser desorption/ionization time-of-flight/time-of-flight mass spectrometry. Sialylated glycans were detected in salivary glands as well as in tick guts and we propose the host origin of these structures. In addition, we mapped the transport of sialylated structures from the blood meal through the gut to the salivary glands using electron microscopy.

Smoking and lung cancer-induced changes in N-glycosylation of blood serum proteins.

Glycosylation is a key post-translational protein modification which appears important in malignant transformation and tumor metastasis. Abnormal glycosylation of different proteins can often be measured in the blood serum. In this study, we extend our serum-based structural investigations to samples provided by patients diagnosed with lung cancer, paying particular attention to the effects of smoking on the serum glycomic traces.

TennCare disenrollment and avoidable hospital visits in Davidson County, Tennessee.

The objective of this study was to determine if an association existed between the mid-2005 TennCare (Medicaid) disenrollment and increases in uninsured ambulatory care sensitive condition (ACSC) non-admitted ER visits and inpatient hospitalizations in Davidson County, Tennessee (= the city of Nashville). Logistic regression modeling, using an interactive term for insurance category x year, indicated that the effect of no insurance on ACSC ER visits increased by 18% from 2003 to 2007 (p<.001), but no significant effect was found for uninsured ACSC inpatient hospitalizations.

SH3 domain tyrosine phosphorylation--sites, role and evolution.

Background: SH3 domains are eukaryotic protein domains that participate in a plethora of cellular processes including signal transduction, proliferation, and cellular movement. Several studies indicate that tyrosine phosphorylation could play a significant role in the regulation of SH3 domains.

Results: To explore the incidence of the tyrosine phosphorylation within SH3 domains we queried the PhosphoSite Plus database of phosphorylation sites.

Principles of supervision in cognitive behavioural therapy.

Background: Psychotherapy requires clinical supervision. This is systematic guidance of a therapist by a supervisor. Inevitably, there is a question of training new high-quality therapists.

Use of magnetic hydrazide-modified polymer microspheres for enrichment of glycoproteins.

The field of microbial proteomics has currently experienced a boom in the discovery of glycosylated proteins of various pathogenic bacteria as potential mediators of host-pathogen interactions. The presence of glycoproteins has recently been discovered in a Gram-negative pathogenic bacterium , utilizing glycoprotein detection and isolation techniques in combination with mass spectrometry. The isolation of glycoproteins is a prerequisite for their subsequent mass-spectrometric identification.

Glycomic and proteomic profiling of pancreatic cyst fluids identifies hyperfucosylated lactosamines on the N-linked glycans of overexpressed glycoproteins.

Pancreatic cancer is now the fourth leading cause of cancer deaths in the United States, and it is associated with an alarmingly low 5-year survival rate of 5%. However, a patient's prognosis is considerably improved when the malignant lesions are identified at an early stage of the disease and removed by surgical resection. Unfortunately, the absence of a practical screening strategy and clinical diagnostic test for identifying premalignant lesions within the pancreas often prevents early detection of pancreatic cancer.

Characterization of protein glycosylation in Francisella tularensis subsp. holarctica: identification of a novel glycosylated lipoprotein required for virulence.

FTH_0069 is a previously uncharacterized strongly immunoreactive protein that has been proposed to be a novel virulence factor in Francisella tularensis. Here, the glycan structure modifying two C-terminal peptides of FTH_0069 was identified utilizing high resolution, high mass accuracy mass spectrometry, combined with in-source CID tandem MS experiments. The glycan observed at m/z 1156 was determined to be a hexasaccharide, consisting of two hexoses, three N-acetylhexosamines, and an unknown monosaccharide containing a phosphate group.

Examination of glycan profiles from IgG-depleted human immunoglobulins facilitated by microscale affinity chromatography.

Among the most important proteins involved in disease and healing processes are the immunoglobulins (Igs). Although many of the Igs have been studied through proteomics, aside from IgG, immunoglobulin carbohydrates have not been extensively characterized in different states of health. It seems valuable to develop techniques that permit an understanding of changes in the structures and abundances of Ig glycans in the context of disease onset and progression.

Investigation of scents on cheeks and foreheads of large felines in connection to the facial marking behavior.

We investigated head- and cheek-rubbing behavior in four species of large felines, lions (Leo panther), leopards (Panthera pardus), tigers (Panthera tigris), and cougars (Puma concolor), in captivity. Preliminary behavioral observations found that lions and tigers, but not leopards and cougars, showed behavioral responses to cardboard rubbing samples from head and cheek areas from conspecific felines, compared to the blank cardboard controls. In this context, surface samples on the facial areas of each species were collected to analyze volatile organic compounds that could be involved in the facial marking of felines.

N-linked glycan structures and their expressions change in the blood sera of ovarian cancer patients.

Glycosylated proteins play important roles in a broad spectrum of biochemical and biological processes, and prior reports have suggested that changes in protein glycosylation occur during cancer initiation and progression. Ovarian cancer (OC) is a fatal malignancy, most commonly diagnosed after the development of metastases. Therefore, early detection of OC is key to improving survival.

Therapist and supervisor competencies in cognitive behavioural therapy.

Hypothesis: For cognitive behavioural therapy, acquisition and maintenance of psychotherapeutic and supervisory competencies is crucial.

Methods: The PubMed, Web of Science and Scopus databases were searched for articles containing the following keywords: cognitive-behavioural therapy, competencies, therapeutic relationship, intervention, technique, training, supervision, self-reflection, empirically supported, transference, countertransference, scheme of therapy, dialectical behaviour therapy. The search was performed by repeating the words in different combinations with no language or time limitations.

Gel-free shotgun proteomic analysis of human milk.

The composition of milk has adapted during the evolution of the species to fulfill the specific nutritional needs of the offspring. Currently, it is widely recognized that milk benefits go beyond mere nutrition and serve as a source of a number of functional components to the newborn, particularly host defense effectors. However, the human milk proteome description is still incomplete, primarily because the detection of low-abundance proteins remains challenging.