The importance of benthos in weight of evidence sediment assessments--a case study

Sediment quality in a Texas reservoir subject to point and non-point sources of contaminants was assessed using the Sediment Quality Triad weight of evidence approach. Fifteen stations were sampled plus a reference station which, unfortunately, comprised a different habitat type than the other 15 stations. Accordingly, standard comparisons between reference and exposed stations were inappropriate. Interpretation of potential relationships between benthic community structure and sediment-associated contaminants was also confounded by differences in habitat-related characteristics (e.g., water depth and total organic carbon) within the reservoir. Multivariate analyses of the benthic community identified two station groupings separated primarily by habitat-related differences rather than contaminant-related toxicity. Laboratory toxicity tests and chemical analyses, including measures of bioavailability, did not differ consistently between the two community-based station groupings, indicating that toxicity resulting from chemical contamination was not the primary factor in observed community structure in the reservoir, although alterations to the benthos due to chemical contamination could not be ruled out in the absence of an appropriate reference comparison. Appropriately giving highest weight to resident benthic community structure, followed by the results of laboratory toxicity tests, then chemical analyses, provided the best possible assessment of chemical pollution in the absence of a suitable reference comparison. The alternative approach of relying on only sediment toxicity and chemistry data, without considering the full weight of evidence, would have provided misleading information.     

Probing protein structure by amino acid‐specific covalent labeling and mass spectrometry

For many years, amino acid‐specific covalent labeling has been a valuable tool to study protein structure and protein interactions, especially for systems that are difficult to study by other means. These covalent labeling methods typically map protein structure and interactions by measuring the differential reactivity of amino acid side chains. The reactivity of amino acids in proteins generally depends on the accessibility of the side chain to the reagent, the inherent reactivity of the label and the reactivity of the amino acid side chain. Peptide mass mapping with ESI‐ or MALDI‐MS and peptide sequencing with tandem MS are typically employed to identify modification sites to provide site‐specific structural information. In this review, we describe the reagents that are most commonly used in these residue‐specific modification reactions, details about the proper use of these covalent labeling reagents, and information about the specific biochemical problems that have been addressed with covalent labeling strategies. © 2008 Wiley Periodicals, Inc., Mass Spec Rev 28:785–815, 2009     

Gadolinium-containing copolymeric chelates—a new potential MR contrast agent

Rationale and objectives: To develop and partially characterize a new class of potential blood pool magnetic resonance (MR) contrast agents.Methods: Various copolymeric chelates of gadolinium-diethylenetriamine pentaacetic acid (Gd-DTPA) were prepared with differing molecular weights of polyethylene glycol (PEG) or polypropylene glycol (PPG) as linkers between the monomeric chelate units. Gadolinium content of the polymeric chelates was determined by atomic absorption spectra. Relaxivity of the polymeric chelates was measured at 1.5 Tesla and compared with Gadolinium-DTPA. MR angiography (MRA) was performed in rabbits comparing Gd-DTPA with Gd-copolymers.Results: The gadolinium content of the copolymeric chelates ranged from 2.95 to 22.2% on weight basis. The molecular weight of the PEG linkers in the copolymers ranged from about 150 to about 3400. Ther ₁ (1/T1, mM⁻¹ s⁻¹) for Gd-DTPA=4.1. Ther ₁ values for the different Gd-containing polymers ranged from 3.8 to 5.8, with the lowestr ₁ for the polymer prepared with the lowest-molecular-weight complex. The higher-molecular-weight complexes resulted in moderately higher relaxivity. MRA with Gd-copolymers, in rabbits, showed markedly greater vascular enhancement relative to an equivalent dose of Gd-DTPA. Vascular enhancement was much more sustained with the copolymeric agent and confined to vascular space; i.e. no appreciable background tissue enhancement—a reflection of distribution into extravascular fluid space—was observed.Conclusions: Relative to Gd-DTPA monomers, PEG-containing Gd-DTPA polymeric complexes provided moderate increases in relaxivity but markedly greater efficacy during in vivo MRA. In vitro relaxivity studies of Gd-copolymers showed only an approximately 50% increase inr ₁ relaxivity compared with Gd-DTPA. The PEG-containing complex's lack of rigidity may have diminished the effect of spin diffusion on relaxation, thereby accounting for this modest increase. The greater efficacy of Gd-copolymers during in vivo MRA may reflect compartmentalization within the vascular space and possibly enhanced relaxation of the macromolecular copolymers in the blood. Gd-copolymers are promising agents that merit additional study.     

Deblurring of color images corrupted by impulsive noise.

We consider the problem of restoring a multichannel image corrupted by blur and impulsive noise (e.g., salt-and-pepper noise). Using the variational framework, we consider the L1 fidelity term and several possible regularizers. In particular, we use generalizations of the Mumford-Shah (MS) functional to color images and gamma-convergence approximations to unify deblurring and denoising. Experimental comparisons show that the MS stabilizer yields better results with respect to Beltrami and total variation regularizers. Color edge detection is a beneficial by-product of our methods.     

On-line restricted assignment of temporary tasks with unknown durations

We consider load balancing of temporary tasks on m machines in the restricted assignment model. It is known that the best competitive ratio for this problem is . This bound is not achieved by the greedy algorithm whose competitive ratio is known to be Ω(m2/3). We give an alternative analysis to the greedy algorithm which is better than the known analysis for relatively small values of m. We also show that for a small number of machines, namely m?5, the greedy algorithm is optimal.     

Tight Bounds on the Competitive Ratio on Accommodating Sequences for the Seat Reservation Problem

The unit price seat reservation problem is investigated. The seat reservation problem is the problem of assigning seat numbers on-line to requests for reservations in a train traveling through k stations. We are considering the version where all tickets have the same price and where requests are treated fairly, that is, a request which can be fulfilled must be granted.For fair deterministic algorithms, we provide an asymptotically matching upper bound to the existing lower bound which states that all fair algorithms for this problem are -competitive on accommodating sequences, when there are at least three seats.Additionally, we give an asymptotic upper bound of for fair randomized algorithms against oblivious adversaries.We also examine concrete on-line algorithms, First-Fit and Random for the special case of two seats. Tight analyses of their performance are given.     

Photoperiod-induced differential expression of angiogenesis genes in testes of adult Peromyscus leucopus

Non-pathological angiogenesis in adults is rare and is largely thought to be restricted to wound healing and female reproductive cycles. Adult male rodents, however, display seasonal angiogenesis to support seasonal changes in reproductive tissue morphology. Non-tropical rodents use photoperiod (day length) to determine the time of year. During short days, the reproductive system undergoes involution and mating behaviours stop, adaptations which presumably allow energy resources to be shifted to processes necessary for winter survival. We compared the patterns of gene expression involved in angiogenesis in testes of white-footed mice (Peromyscus leucopus) following 7, 14, 21 or 34 weeks of long or short day lengths. Short days decreased body mass, reproductive tract mass and seminiferous tubule diameter. Potential genes involved in seasonal angiogenesis were screened by hybridizing testicular RNA from each group to angiogenesis-specific microarrays. Genes that were > or =6-fold different between long- and short-day testes (i.e. hypoxia-inducible factor 1alpha(Hif1alpha), plasminogen activator inhibitor 1 (Serpine1), transforming growth factor beta receptor 3 (Tgfbetar3) and tumour necrosis factor (Tnf )) were sequenced and expression differences were compared throughout gonadal regression and recrudescence using quantitative RT-PCR. Our results suggest that short days trigger expression of Hif1alpha, Serpine1, and Tgfbetar3 to inhibit angiogenesis or promote apoptosis during testicular regression, and also trigger expression of Tnf to promote angiogenesis during testicular recrudescence.     

Schizophrenic patterns of arousal and stimulus barrier functioning.

Investigated the psychophysiological arousal and psychological stimulus barrier functioning in 20 male chronically hospitalized schizophrenics, 20 male outpatient schizophrenics with minimal institutionalization, and 20 male controls. Each S completed the Beck Depression Inventory (Short Form), the Structured Clinical Interview, and the Taylor Manifest Anxiety Scale. Also, each S was administered a stimulus barrier assessment interview, and skin conductance characteristics were measured in response to a standardized sequence of 15 1,000-Hz, 75-db tones. After 6 wks, the procedure was repeated. All schizophrenics exhibited either of 2 abnormal patterns of arousal that were never shown by the normal controls. Overresponders were slow to habituate and exhibited a high number of orienting responses, a high baseline skin conductance level, and a high incidence of spontaneous fluctuations. Underresponders exhibited low baseline skin conductance levels, few spontaneous fluctuations, and either an absence of orienting activity or only an isolated initial orienting response. The stimulus barrier ratings were highly correlated with these psychophysiological patterns. Certain schizophrenics alternated between these response patterns. Change status and response pattern were related to a number of psychological variables. (31 ref) (PsycINFO Database Record (c) 2010 APA, all rights reserved)