Strategies for Teaching Information Literacy to English Language Learners

Academic librarians are encountering a growing number of English Language Learners (ELLs) every day, as our classrooms have become more linguistically diverse every year. In this dramatically changing environment, academic librarians are expected to meet the needs of increasingly diverse students speaking multiple languages. The purpose of this paper is to present widely used teaching strategies to support ELLs based on an exhaustive literature review. Study also suggests collaboration among ESL or classroom instructors and librarians to enhance semester-long learning experience

Stony Brook University Author Perspectives on Article Processing Charges

INTRODUCTION The purpose of this study is to gain an understanding of Stony Brook University (SBU) author perspectives on article processing charges (APCs). Publishing an article without restrictions, also known as open access publishing, can be a costly endeavor. Many publishers charge APCs ranging from hundreds to thousands of dollars to publish an article without access restrictions. Authors who cannot obtain funding from grant agencies or their institution must pay APCs on their own. Do APCs fundamentally impact how authors choose their preferred publication venues? METHODS A cross-sectional survey was designed to learn SBU author perspectives on, and concerns about, APCs. RESULTS Responses mainly came from the sciences. Many SBU authors preferred to publish in a prestigious journal or journal of their choice rather than in an open access journal. Most authors published their articles in open access journals even if they were required to pay APCs. Many authors found that it was difficult finding funding for APCs and some expressed their concerns about the double charging practice. DISCUSSION SBU authors might believe that publishing in established and prestigious journals could secure their career’s advancement. Authors who chose to pay open access journals with APCs might be following publishing criteria. Libraries can encourage authors to negotiate with publishers to obtain a discount or waiver of APCs, when possible. Institutions should negotiate shifting journal subscription costs toward hybrid open access publishing. CONCLUSION Data will be used to inform how the SBU Libraries can help authors locate funding opportunities for APCs

Universities through the Eyes of Bibliographic Databases: A Retroactive Growth Comparison of Google Scholar, Scopus and Web of Science

The purpose of this study is to ascertain the suitability of GS's url-based method as a valid approximation of universities' academic output measures, taking into account three aspects (retroactive growth, correlation, and coverage). To do this, a set of 100 Turkish universities were selected as a case study. The productivity in Web of Science (WoS), Scopus and GS (2000 to 2013) were captured in two different measurement iterations (2014 and 2018). In addition, a total of 18,174 documents published by a subset of 14 research-focused universities were retrieved from WoS, verifying their presence in GS within the official university web domain. Findings suggest that the retroactive growth in GS is unpredictable and dependent on each university, making this parameter hard to evaluate at the institutional level. Otherwise, the correlation of productivity between GS (url-based method) and WoS and Scopus (selected sources) is moderately positive, even though it varies depending on the university, the year of publication, and the year of measurement. Finally, only 16% out of 18,174 articles analyzed were indexed in the official university website, although up to 84% were indexed in other GS sources. This work proves that the url-based method to calculate institutional productivity in GS is not a good proxy for the total number of publications indexed in WoS and Scopus, at least in the national context analyzed. However, the main reason is not directly related to the operation of GS, but with a lack of universities' commitment to open access.Comment: 19 pages, 3 figures and 7 table

Collaboration Between Health Sciences Librarians and Faculty as Reflected by Articles Published in the Journal of the Medical Library Association

A recent study by Higgins and colleagues reports that the Journal of the Medical Library Association (JMLA) had the highest percentage of articles with both librarian and faculty co-authors out of 13 peer-reviewed journals in STEM librarianship and education between 2005 and 2014. A deeper and updated analysis of JMLA research articles and case studies published between 2008 and 2017 revealed that 29% of articles had both librarian and faculty co-authors. The main topics of librarian-faculty collaboration as described in these articles were related to patient and consumer health information and clinical information-seeking and decision-making by healthcare providers. Most faculty co-authors came from the disciplines of biomedical/health informatics and biostatistics and library and information science. The publication of these articles in JMLA provides evidence of health sciences librarians and information specialists’ ability to collaborate with faculty members to advance the knowledgebase and practice of librarianship and the health sciences

Genetic study of congenital bile-duct dilatation identifies de novo and inherited variants in functionally related genes

Background: Congenital dilatation of the bile-duct (CDD) is a rare, mostly sporadic, disorder that results in bile retention with severe associated complications. CDD affects mainly Asians. To our knowledge, no genetic study has ever been conducted. Methods: We aim to identify genetic risk factors by a “trio-based” exome-sequencing approach, whereby 31 CDD probands and their unaffected parents were exome-sequenced. Seven-hundred controls from the local population were used to detect gene-sets significantly enriched with rare variants in CDD patients. Results: Twenty-one predicted damaging de novo variants (DNVs; 4 protein truncating and 17 missense) were identified in several evolutionarily constrained genes (p < 0.01). Six genes carrying DNVs were associated with human developmental disorders involving epithelial, connective or bone morphologies (PXDN, RTEL1, ANKRD11, MAP2K1, CYLD, ACAN) and four linked with cholangio- and hepatocellular carcinomas (PIK3CA, TLN1 CYLD, MAP2K1). Importantly, CDD patients have an excess of DNVs in cancer-related genes (p < 0.025). Thirteen genes were recurrently mutated at different sites, forming compound heterozygotes or functionally related complexes within patients. Conclusions: Our data supports a strong genetic basis for CDD and show that CDD is not only genetically heterogeneous but also non-monogenic, requiring mutations in more than one genes for the disease to develop. The data is consistent with the rarity and sporadic presentation of CDD

Local activation of focal adhesion kinase orchestrates the positioning of presynaptic scaffold proteins and Ca2+ signalling to control glucose-dependent insulin secretion

A developing understanding suggests that spatial compartmentalisation in pancreatic β cells is critical in controlling insulin secretion. To investigate the mechanisms, we have developed live-cell subcellular imaging methods using the mouse organotypic pancreatic slice. We demonstrate that the organotypic pancreatic slice, when compared with isolated islets, preserves intact β-cell structure, and enhances glucose-dependent Ca2+ responses and insulin secretion. Using the slice technique, we have discovered the essential role of local activation of integrins and the downstream component, focal adhesion kinase (FAK), in regulating β cells. Integrins and FAK are exclusively activated at the β-cell capillary interface and using in situ and in vitro models we show their activation both positions presynaptic scaffold proteins, like ELKS and liprin, and regulates glucose-dependent Ca2+ responses and insulin secretion. We conclude that FAK orchestrates the final steps of glucose-dependent insulin secretion within the restricted domain where β-cell contact the islet capillaries

Local activation of focal adhesion kinase orchestrates the positioning of presynaptic scaffold proteins and Ca2+ channel function to control glucose dependent insulin secretion

A developing understanding suggests that spatial compartmentalisation of components the glucose stimulus-secretion pathway in pancreatic β cells are critical in controlling insulin secretion. To investigate the mechanisms, we have developed live-cell sub-cellular imaging methods using the organotypic pancreatic slice. We demonstrate that the organotypic pancreatic slice, when compared with isolated islets, preserves intact β cell structure, and enhances glucose dependent Ca2+ responses and insulin secretion. Using the slice technique, we have discovered the essential role of local activation of integrins and the downstream component, focal adhesion kinase, in regulating β cells. Integrins and focal adhesion kinase are exclusively activated at the β cell capillary interface and using in situ and in vitro models we show their activation both positions presynaptic scaffold proteins, like ELKS and liprin, and regulates glucose dependent Ca2+ responses and insulin secretion. We conclude that focal adhesion kinase orchestrates the final steps of glucose dependent insulin secretion within the restricted domain where β cells contact the islet capillaries

A ratiometric fluorescent sensor for the mitochondrial copper pool

Ratiometric probe for Cu(i) reveals influence of cisplatin on mitochondrial copper homeostasis.</p

Single Step Plasma Process for Covalent Binding of Antimicrobial Peptides on Catheters to Suppress Bacterial Adhesion

Catheter-associated biofilms are responsible for a large fraction of hospital acquired infections. Antimicrobial surface coating on catheters providing prevention at source is extensively studied to reduce bacterial adhesion. Antimicrobial peptides such as melimine and Mel4, covalently linked to surfaces have shown excellent potential in animal and human studies to suppress infection without toxicity. Covalent binding of the peptides on catheter surfaces improves efficacy but so far has been implemented using multi-step wet chemical coupling that will impede widespread adoption. Here we demonstrate plasma immersion ion implantation (PIII) as a single step treatment that covalently couples antimicrobial peptides to polyvinyl chloride (PVC). Strong antimicrobial activity was demonstrated by higher than 3 log kill of S. aureus. A variant of the process was demonstrated as an antimicrobial treatment for chemically inert glass surfaces. Covalent coupling was rigorously tested by stringent SDS washing. We further demonstrated that the plasma treatment can effectively functionalize both internal and external surfaces of catheter tubing, reducing 99% of bacterial adhesion. The process is feasible as a patient-safe treatment for treating various types of catheters and is suitable for commercial mass production. In a logical extension of the work, the process could be adapted to bone replacement scaffolds of all types including metallic, polymeric and ceramic

Plasma Activation of Microplates Optimized for One-Step Reagent-Free Immobilization of DNA and Protein

Activated microplates are widely used in biological assays and cell culture to immobilize biomolecules, either through passive physical adsorption or covalent cross-linking. Covalent attachment gives greater stability in complex biological mixtures. However, current multistep chemical activation methods add complexity and cost, require specific functional groups, and can introduce cytotoxic chemicals that affect downstream cellular applications. Here, we show a method for one-step linker-free activation of microplates by energetic ions from plasma for covalent immobilization of DNA and protein. Two types of energetic ion plasma treatment were shown to be effective: plasma immersion ion implantation (PIII) and plasma-activated coating (PAC). This is the first time that PIII and PAC have been reported in microwell plates with nonflat geometry. We confirm that the plasma treatment generates radical-activated surfaces at the bottom of wells despite potential shadowing from the walls. Comprehensive surface characterization studies were used to compare the PIII and PAC microplate surface composition, wettability, radical density, optical properties, stability, and biomolecule immobilization density. PAC plates were found to have more nitrogen and lower radical density and were more hydrophobic and more stable over 3 months than PIII plates. Optimal conditions were obtained for high-density DNA (PAC, 0 or 21% nitrogen, pH 3–4) and streptavidin (PAC, 21% nitrogen, pH 5–7) binding while retaining optical properties required for typical high-throughput biochemical microplate assays, such as low autofluorescence and high transparency. DNA hybridization and protein activity of immobilized molecules were confirmed. We show that PAC activation allows for high-density covalent immobilization of functional DNA and protein in a single step on both 96- and 384-well plates without specific linker chemistry. These microplates could be used in the future to bind other user-selected ligands in a wide range of applications, for example, for solid phase polymerase chain reaction and stem cell culture and differentiation