Tetrahymena Genome Database (TGD): a new genomic resource for Tetrahymena thermophila research

We have developed a web-based resource (available at ) for researchers studying the model ciliate organism Tetrahymena thermophila. Employing the underlying database structure and programming of the Saccharomyces Genome Database, the Tetrahymena Genome Database (TGD) integrates the wealth of knowledge generated by the Tetrahymena research community about genome structure, genes and gene products with the newly sequenced macronuclear genome determined by The Institute for Genomic Research (TIGR). TGD provides information curated from the literature about each published gene, including a standardized gene name, a link to the genomic locus in our graphical genome browser, gene product annotations utilizing the Gene Ontology, links to published literature about the gene and more. TGD also displays automatic annotations generated for the gene models predicted by TIGR. A variety of tools are available at TGD for searching the Tetrahymena genome, its literature and information about members of the research community

Bostonia: The Boston University Alumni Magazine. Volume 12

Founded in 1900, Bostonia magazine is Boston University’s main alumni publication

Local Moment Formation in the Periodic Anderson Model with Superconducting Correlations

We study local moment formation in the presence of superconducting correlations among the f-electrons in the periodic Anderson model. Local moments form if the Coulomb interaction U>U_cr. We find that U_cr is considerably stronger in the presence of superconducting correlations than in the non-superconducting system. Our study is done for various values of the f-level energy and electronic density. The smallest critical U_cr values occur for the case where the number of f- electrons per site is equal to one. In the presence of d-wave superconducting correlations we find that local moment formation presents a quantum phase transition as function of pressure. This quantum phase transition separates a region where local moments and d-wave superconductivity coexist from another region characterized by a superconducting ground state with no local moments. We discuss the possible relevance of these results to experimental studies of the competition between magnetic order and superconductivity in CeCu_2Si_2.Comment: 4 pages. accepted for publication in Phys. Rev.

Input of PBDE exposure in juvenile Chinook salmon along their out-migrant pathway through the Snohomish River, WA

Polybrominated diphenyl ether (PBDE) flame retardant inputs to Puget Sound may be impairing the health of juvenile Chinook salmon and reducing their early marine survival in the Salish Sea, possibly contributing to their decline and limiting their recovery. Previous studies have shown Chinook salmon outmigrating from the Snohomish River accumulate PBDEs at concentrations high enough to alter their immune response, increasing their susceptibility to naturally occurring diseases; however, the source of PBDEs is unknown. Our study objective was to determine where in the Snohomish River system migrating Chinook salmon are exposed to and accumulate PBDEs, and to assess the source so that corrective actions can be implemented. Levels of PBDEs and other persistent organic pollutants were measured in salmon from the upstream tributaries of the Snoqualmie and Skykomish regions, representing the cumulative exposure from all sources prior to entering the Snohomish River, and were compared to those in salmon from subsequent downstream regions of the mainstem to assess where salmon are exposed and the exposure source. Additionally, contaminant levels were measured in salmon sampled from distributary channels of the lower delta to evaluate the extent of PBDE exposure in the outmigrating Snohomish River population. Analyses of the contaminant and body burden data reveal that juvenile Chinook salmon are primarily exposed to and accumulate PBDEs at two sites within the lower delta of the Snohomish River, both located in the immediate vicinity of a wastewater treatment plant outfall. Identification of the region within the Snohomish watershed where salmon are most exposed to PBDEs, as well as the source, allows environmental managers to establish corrective actions to control PBDE inputs. Ultimately, reductions in PBDE exposure should improve the health of Chinook salmon and enhance their marine survival

Reducing sugar and aroma in a confectionery gel without compromising flavour through addition of air inclusions

Sugar plays an important role in both the flavour and structure of confectionery. Targets have been set to reduce sugar; however, common strategies often result in changes in flavour and consumer rejection. In this study, an approach was developed to reduce sugar in confectionery gels by aeration, without significantly affecting perceived chewiness. Gelatine based gels with a 23% and 38% reduction in density were formulated using aeration. Mean bubble size was consistent across all gels (0.05–0.06 mm). Time-intensity sensory evaluation was carried out by a trained sensory panel (n = 10). With aeration, no significant difference in overall flavour perception was observed in the 23% and 38% reduced sugar and aroma gels. Air inclusions create a greater surface area, therefore accelerating mass transfer of volatiles and release of sucrose at the food-saliva interface. Consequently, we propose that less calorie dense products can be produced without compromising flavour by using gel aeration technologies

Technoscience and the modernization of freshwater fisheries assessment and management

Inland fisheries assessment and management are challenging given the inherent com- plexity of working in diverse habitats (e.g., rivers, lakes, wetlands) that are dynamic on organisms that are often cryptic and where fishers are often highly mobile. Yet, technoscience is offering new tools that have the potential to reimagine how inland fisheries are assessed and managed. So-called ‘‘technoscience’’ refers to instances in which science and technology unfurl together, offering novel ways of spurring and achieving meaningful change. This paper considers the role of technoscience and its potential for modernizing the assessment and management of inland fisheries. It first explores technoscience and its potential benefits, followed by presentation of a series of synopses that explore the application (both successes and challenges) of new tech- nologies such as environmental DNA (eDNA), genomics, electronic tags, drones, phone apps, iEcology, and artificial intelligence to assessment and management. The paper also considers the challenges and barriers that exist in adopting new technologies. The paper concludes with a provocative assessment of the potential of technoscience to reform and modernize inland fisheries assessment and management. Although these tools are increasingly being embraced, there is a lack of platforms for aggregating these data streams and providing managers with actionable information in a timely manner. The ideas presented here should serve as a catalyst for beginning to work collectively and collaboratively towards fisheries assessment and management systems that harness the power of technology and serve to modernize inland fisheries management. Such transformation is urgently needed given the dynamic nature of environmental change, the evolving threat matrix facing inland waters, and the complex behavior of fishers. Quite simply, a dynamic world demands dynamic fisheries management; technoscience has made that within reach.publishedVersio

The role of sodium chloride in the sensory and physico-chemical properties of sweet biscuits

© 2021 Salt is included in many foods which consumers do not regard as salty. This “hidden-salt” may offer functional benefits but is often overlooked in sodium reduction strategies. This study investigated its role in shortbread-like sweet biscuits (1.05 g NaCl/100 g). Sensory tests revealed significant flavour and texture differences after a salt reduction of 33% (0.86 g/ 100 g). This was explained by differences in the partitioning of hydrophobic aroma compounds into the headspace and a significant impact on structure. Texture analysis and X-ray-µCT measurements revealed a reduced hardness with larger and more air cells in salt-reduced biscuits. It is suggested that salt impacts on cereal proteins by altering their aggregation around flour particles and at bubble walls and that slower water loss occurs in salted matrices during baking. Hence, this study revealed the key properties significantly affected by salt reduction and proposes an explanation which will help to develop a targeted “hidden-salt” reduction strategy

Superconductivity in the SU(N) Anderson Lattice at U=\infty

We present a mean-field study of superconductivity in a generalized N-channel cubic Anderson lattice at U=\infty taking into account the effect of a nearest-neighbor attraction J. The condition U=\infty is implemented within the slave-boson formalism considering the slave bosons to be condensed. We consider the $f$-level occupancy ranging from the mixed valence regime to the Kondo limit and study the dependence of the critical temperature on the various model parameters for each of three possible Cooper pairing symmetries (extended s, d-wave and p-wave pairing) and find interesting crossovers. It is found that the d- and p- wave order parameters have, in general, very similar critical temperatures. The extended s-wave pairing seems to be relatively more stable for electronic densities per channel close to one and for large values of the superconducting interaction J.Comment: Seven Figures; one appendix. Accepted for publication in Phys. Rev.

Personalized ctDNA micro-panels can monitor and predict clinical outcomes for patients with triple-negative breast cancer

Circulating tumor DNA (ctDNA) in peripheral blood has been used to predict prognosis and therapeutic response for triple-negative breast cancer (TNBC) patients. However, previous approaches typically use large comprehensive panels of genes commonly mutated across all breast cancers. Given the reduction in sequencing costs and decreased turnaround times associated with panel generation, the objective of this study was to assess the use of custom micro-panels for tracking disease and predicting clinical outcomes for patients with TNBC. Paired tumor-normal samples from patients with TNBC were obtained at diagnosis (T0) and whole exome sequencing (WES) was performed to identify somatic variants associated with individual tumors. Custom micro-panels of 4-6 variants were created for each individual enrolled in the study. Peripheral blood was obtained at baseline, during Cycle 1 Day 3, at time of surgery, and in 3-6 month intervals after surgery to assess variant allele fraction (VAF) at different timepoints during disease course. The VAF was compared to clinical outcomes to evaluate the ability of custom micro-panels to predict pathological response, disease-free intervals, and patient relapse. A cohort of 50 individuals were evaluated for up to 48 months post-diagnosis of TNBC. In total, there were 33 patients who did not achieve pathological complete response (pCR) and seven patients developed clinical relapse. For all patients who developed clinical relapse and had peripheral blood obtained ≤ 6 months prior to relapse (n = 4), the custom ctDNA micro-panels identified molecular relapse at an average of 4.3 months prior to clinical relapse. The custom ctDNA panel results were moderately associated with pCR such that during disease monitoring, only 11% of patients with pCR had a molecular relapse, whereas 47% of patients without pCR had a molecular relapse (Chi-Square; p-value = 0.10). In this study, we show that a custom micro-panel of 4-6 markers can be effectively used to predict outcomes and monitor remission for patients with TNBC. These custom micro-panels show high sensitivity for detecting molecular relapse in advance of clinical relapse. The use of these panels could improve patient outcomes through early detection of relapse with preemptive intervention prior to symptom onset