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Saint Bonaventure, NY, United States

Chadwick W.,U.S. National Institute on Aging | Zhou Y.,U.S. National Institute on Aging | Park S.-S.,U.S. National Institute on Aging | Wang L.,U.S. National Institute on Aging | And 5 more authors.
PLoS ONE | Year: 2010

Oxidative exposure of cells occurs naturally and may be associated with cellular damage and dysfunction. Protracted low level oxidative exposure can induce accumulated cell disruption, affecting multiple cellular functions. Accumulated oxidative exposure has also been proposed as one of the potential hallmarks of the physiological/pathophysiological aging process. We investigated the multifactorial effects of long-term minimal peroxide exposure upon SH-SY5Y neural cells to understand how they respond to the continued presence of oxidative stressors. We show that minimal protracted oxidative stresses induce complex molecular and physiological alterations in cell functionality. Upon chronic exposure to minimal doses of hydrogen peroxide, SH-SY5Y cells displayed a multifactorial response to the stressor. To fully appreciate the peroxide-mediated cellular effects, we assessed these adaptive effects at the genomic, proteomic and cellular signal processing level. Combined analyses of these multiple levels of investigation revealed a complex cellular adaptive response to the protracted peroxide exposure. This adaptive response involved changes in cytoskeletal structure, energy metabolic shifts towards glycolysis and selective alterations in transmembrane receptor activity. Our analyses of the global responses to chronic stressor exposure, at multiple biological levels, revealed a viable neural phenotype in-part reminiscent of aged or damaged neural tissue. Our paradigm indicates how cellular physiology can subtly change in different contexts and potentially aid the appreciation of stress response adaptations.


McCannon B.C.,Saint Bonaventure University
International Game Theory Review | Year: 2011

The interaction between a sophisticated player and a fictitious player is analyzed and applied to the problem of optimal enforcement. An adaptive potential offender myopically responds to the history of past enforcement. How can a sophisticated enforcement official take advantage of this behavior? Will compliance with the law be attained? Conditions under which full compliance arises is derived and the optimal cycle of enforcing and not enforcing the law is presented. Welfare is shown to be greater than if the offender was sophisticated as well. © 2011 World Scientific Publishing Company.


Grant
Agency: NSF | Branch: Continuing grant | Program: | Phase: ADVANCES IN BIO INFORMATICS | Award Amount: 180.81K | Year: 2012

Collaborative grants have been awarded to the University of Maryland, the University of Iowa and St. Bonaventure University to develop a methodology that exploits the wealth of annotation knowledge, notably Gene Ontology (GO) and Plant Ontology (PO) annotations of Arabidopsis genes. Motivated by the availability of rich and as yet insufficiently tapped collections of gene annotations, the project aims to facilitate the discovery of hidden knowledge that could be the basis of further scientific research. The methodology will extract patterns of interest from annotation graphs (pattern discovery). Literature-based methods will extract sentences that validate the biological meaning underlying these patterns (pattern validation). To demonstrate the methodology, the PattArAn tool (Patterns in Arabidopsis Annotations) will be customized for Arabidopsis. PattArAn will provide the user with a graphical presentation of patterns of Arabidopsis genes and associated GO and PO CV terms. Graph data mining techniques and efficient algorithmic solutions to identify dense subgraphs (DSG) and to perform graph summarization (GS) will be developed. Algorithms to mine the literature for relevant sentences for an extracted pattern (referred to as the imprint) will be developed. PattArAn will enable iterative exploration and will incorporate allied steps such as consulting gene function prediction. The project will involve collaboration with biologists for building and refining annotation graphs, and validating patterns to ensure relevance to their research.

The project makes broad contributions to the Arabidopsis thaliana community. PattArAn may assist Arabidopsis curators to manage GO-PO annotations and complement existing tools such as Textpresso and AraNet. It can also be used to bootstrap an annotation database for other plant species given that their genome sequence information is available. The project offers significant research and educational experiences for graduate students (University of Maryland and Iowa) and undergraduate students (St. Bonaventure University). Team members will continue to mentor women and students from under-represented communities, participate in outreach activities, lead a Journal Club, etc. The outcomes from this research project will be disseminated via biology and bioinformatics venues. More information may be obtained at the project website: https://wiki.umiacs.umd.edu/clip/pattaran/.


Cilano K.,Saint Bonaventure University | Mazanek Z.,Saint Bonaventure University | Mazanek Z.,University of Baltimore | Khan M.,Saint Bonaventure University | And 3 more authors.
PLoS ONE | Year: 2016

The exon-exon junction complex (EJC) is a conserved eukaryotic multiprotein complex that examines the quality of and determines the availability of messenger RNAs (mRNAs) posttranscriptionally. Four proteins, MAGO, Y14, eIF4AIII and BTZ, function as core components of the EJC. The mechanisms of their interactions and the biological indications of these interactions are still poorly understood in plants. A new mutation, hap1-2. leads to premature pollen death and a reduced seed production in Arabidopsis. This mutation introduces a viable truncated transcript AtMagoΔC. This truncation abolishes the interaction between AtMago and AtY14 in vitro, but not the interaction between AtMago and AteIF4AIII. In addition to a strong nuclear presence of AtMago, both AtMago and AtMagoΔC exhibit processing-body (P-body) localization. This indicates that AtMagoΔC may replace AtMago in the EJC when aberrant transcripts are to be degraded. When introducing an NMD mutation, upf3-1, into the existing HAP1/hap1-2 mutant, plants showed a severely reduced fertility. However, the change of splicing pattern of a subset of SR protein transcripts is mostly correlated with the sr45-1 and upf3-1 mutations, not the hap1-2 mutation. These results imply that the C terminal domain (CTD) of AtMago is required for the AtMago-AtY14 heterodimerization during EJC assembly, UPF3-mediated NMD pathway and the AtMago-AtY14 heterodimerization work synergistically to regulate male gametophyte development in plants. © 2016 Cilano et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.


Privitera G.J.,Saint Bonaventure University | Agnello J.E.,Saint Bonaventure University | Walters S.A.,Saint Bonaventure University | Bender S.L.,University of Rochester
Journal of Attention Disorders | Year: 2015

Objective: An experiment was conducted to test the hypothesis that feedback about an ADHD diagnosis influences how a nonclinical sample scores on the Adult ADHD Self-Report Scale (ASRS) screener. Method: A total of 54 participants who scored below clinical significance on the ASRS in a pretest, that is, marked fewer than 4 of 6 items found to be most predictive of symptoms consistent with clinical diagnosis of adult ADHD, completed the assessment again 1 week later in a posttest with “negative,” “positive,” or no feedback written on the posttest to indicate how participants scored on the pretest. Results: In all, 8 of 10 participants who scored in the clinical significance range for ADHD in the posttest were those who received positive feedback. Scores for the positive feedback group increased most from pretest to posttest for inattentive domain items (R2 =.19). Conclusion: Patient beliefs prior to a diagnostic screening can influence ASRS self-report ratings. © 2012 SAGE Publications

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