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Anthocyanin Characterization, Total Phenolic Quantification And Antioxidant Features Of Some Chilean Edible Berry Extracts, Anghel Brito, Carlos Areche, Beatriz Sepúlveda, Edward J. Kennelly, Mario J. Simirgiotis

Publications and Research

The anthocyanin composition and HPLC fingerprints of six small berries endemic of the VIII region of Chile were investigated using high resolution mass analysis for the first time (HR-ToF-ESI-MS). The antioxidant features of the six endemic species were compared, including a variety of blueberries which is one of the most commercially significant berry crops in Chile. The anthocyanin fingerprints obtained for the fruits were compared and correlated with the antioxidant features measured by the bleaching of the DPPH radical, the ferric reducing antioxidant power (FRAP), the superoxide anion scavenging activity assay (SA), and total content of phenolics, flavonoids and anthocyanins …

Lineage-Specific Interface Proteins Match Up The Cell Cycle And Differentiation In Embryo Stem Cells, Angela Re, Christopher T. Workman, Levi Waldron, Alessandro Quattrone, Søren Brunak

Publications and Research

The shortage of molecular information on cell cycle changes along embryonic stem cell (ESC) differentiation prompts an in silico approach, which may provide a novel way to identify candidate genes or mechanisms acting in coordinating the two programs. We analyzed germ layer specific gene expression changes during the cell cycle and ESC differentiation by combining four human cell cycle transcriptome profiles with thirteen in vitro human ESC differentiation studies. To detect cross-talk mechanisms we then integrated the transcriptome data that displayed differential regulation with protein interaction data. A new class of non-transcriptionally regulated genes was identified, encoding proteins which interact …

Differential Basolateral–Apical Distribution Of Scavenger Receptor, Class B, Type I In Cultured Cells And The Liver, Stefanie Fruhwürth, Werner J. Kovacs, Robert Bittman, Simon Messner, Clemens Röhrl, Herbert Stangl

Publications and Research

The high-density lipoprotein (HDL) receptor, scavenger receptor class B, type I (SR-BI), mediates selective cholesteryl ester uptake into the liver, which finally results in cholesterol secretion into the bile. Despite several reports, the distribution of hepatic SR-BI between the sinusoidal and canalicular membranes is still under debate. We present immunohistological data using specific markers showing that the bulk of SR-BI is present in sinusoidal membranes and, to a lesser extent, in canalicular membranes in murine and human liver sections. In addition, SR-BI was detected in preparations of rat liver canalicular membranes. We also compared the in vivo findings to HepG2 …

Collective Behaviour Without Collective Order In Wild Swarms Of Midges, Alessandro Attanasi, Andrea Cavagna, Lorenzo Del Castello, Irene Giardina, Stefania Melillo, Leonardo Parisi, Oliver Pohl, Bruno Rossaro, Edward Shen, Edmondo Silvestri, Massimilano Viale

Publications and Research

Collective behaviour is a widespread phenomenon in biology, cutting through a huge span of scales, from cell colonies up to bird flocks and fish schools. The most prominent trait of collective behaviour is the emergence of global order: individuals synchronize their states, giving the stunning impression that the group behaves as one. In many biological systems, though, it is unclear whether global order is present. A paradigmatic case is that of insect swarms, whose erratic movements seem to suggest that group formation is a mere epiphenomenon of the independent interaction of each individual with an external landmark. In these cases, …

Building Up Analgesia In Humans Via The Endogenous Μ-Opioid System By Combining Placebo And Active Tdcs: A Preliminary Report, Marcos F. Dossantos, Ilkka K. Martikainen, Thiago D. Nascimento, Tiffany M. Love, Misty D. Deboer, Heidi M. Schambra, Marom Bikson, Jon-Kar Zubieta, Alexandre F. Dasilva

Publications and Research

Transcranial Direct Current Stimulation (tDCS) is a method of non-invasive brain stimulation that has been frequently used in experimental and clinical pain studies. However, the molecular mechanisms underlying tDCS-mediated pain control, and most important its placebo component, are not completely established. In this pilot study, we investigated in vivo the involvement of the endogenous μ-opioid system in the global tDCS-analgesia experience. Nine healthy volunteers went through positron emission tomography (PET) scans with [11C]carfentanil, a selective μ-opioid receptor (MOR) radiotracer, to measure the central MOR activity during tDCS in vivo (non-displaceable binding potential, BPND) - one of the main analgesic mechanisms …

Comorbidity Of Infectious Diseases And Anxiety Disorders In Adults And Its Association With Quality Of Life: A Community Study, Cornelia Witthauer, Andrew T. Gloster, Andrea Hans Meyer, Renee D. Goodwin, Roselind Lieb

Publications and Research

Objective: Infectious diseases and anxiety disorders are common and both are associated with substantial burden to individual, families, and society. A better understanding of their association may be helpful in explicating possible etiological mechanisms related to both. The goal of the current study was to investigate the relationship between specific infectious diseases and anxiety disorders among adults in the community, and to examine whether the co-occurrence of the two is associated with poorer quality of life compared to subjects with one or neither condition.

Methods: We used data from the 1998 German Mental Health survey with 4181 subjects aged 18–65. …

Structural Differentiation Of Graphs Using Hosoya-Based Indices, Matthias Dehmer, Abbe Mowshowitz, Yongtang Shi

Publications and Research

In this paper, we introduce the Hosoya-Spectral indices and the Hosoya information content of a graph. The first measure combines structural information captured by partial Hosoya polynomials and graph spectra. The latter is a graph entropy measure which is based on blocks consisting of vertices with the same partial Hosoya polynomial. We evaluate the discrimination power of these quantities by interpreting numerical results.

Obesity Indicators And C - Reactive Protein In African And Haitian Americans With And Without Type 2 Diabetes, Fatma G. Huffman, Joan A. Vaccaro, T. M. Rowe, Gustavo G. Zarini, Shiryn D. Sukhram, Lemia H. Shaban, Susan Himburg

Publications and Research

Purpose: High sensitivity C-reactive protein (CRP) is a risk factor for cardiovascular disease based on finding in primarily non-Hispanic White populations. Obesity, another risk factor for cardiovascular disease, is higher in Blacks as compared to non-Hispanic Whites. The objective of this study was to assess the relationship between CRP, a marker of systemic inflammation, and obesity indicators by ethnicity, diabetes status and gender for two Black ethnicities.

Methods: Anthropometrics and venous blood were collected for African and Haitian Americans with and without type 2 diabetes in a cross-sectional study. A total of 434 participants; 190 African Americans, 244 Haitian Americans, …

Transpinal And Transcortical Stimulation Alter Corticospinal Excitability And Increase Spinal Output, Maria Knikou

Publications and Research

The objective of this study was to assess changes in corticospinal excitability and spinal output following noninvasive transpinal and transcortical stimulation in humans. The size of the motor evoked potentials (MEPs), induced by transcranial magnetic stimulation (TMS) and recorded from the right plantar flexor and extensor muscles, was assessed following transcutaneous electric stimulation of the spine (tsESS) over the thoracolumbar region at conditioning-test (C-T) intervals that ranged from negative 50 to positive 50 ms. The size of the transpinal evoked potentials (TEPs), induced by tsESS and recorded from the right and left plantar flexor and extensor muscles, was assessed following …

Increasing Maternal Or Post-Weaning Folic Acid Alters Gene Expression And Moderately Changes Behavior In The Offspring, Subit Barua, Kathryn K. Chadman, Salomon Kuizon, Diego Buenaventura, Nathan W. Stapley, Felicia Ruocco, Umme Begum, Sara R. Guariglia, W. Ted Brown, Mohamad Junaid

Publications and Research

Background: Studies have indicated that altered maternal micronutrients and vitamins influence the development of newborns and altered nutrient exposure throughout the lifetime may have potential health effects and increased susceptibility to chronic diseases. In recent years, folic acid (FA) exposure has significantly increased as a result of mandatory FA fortification and supplementation during pregnancy. Since FA modulates DNA methylation and affects gene expression, we investigated whether the amount of FA ingested during gestation alters gene expression in the newborn cerebral hemisphere, and if the increased exposure to FA during gestation and throughout the lifetime alters behavior in C57BL/6J mice.

Methods …

A Good Compromise: Rapid And Robust Species Proxies For Inventorying Biodiversity Hotspots Using The Terebridae (Gastropoda: Conoidea), Maria Vittoria Modica, Nicolas Puillandre, Magalie Castelin, Yu Zhang, Mandë Holford

Publications and Research

Devising a reproducible approach for species delimitation of hyperdiverse groups is an ongoing challenge in evolutionary biology. Speciation processes combine modes of passive and adaptive trait divergence requiring an integrative taxonomy approach to accurately generate robust species hypotheses. However, in light of the rapid decline of diversity on Earth, complete integrative approaches may not be practical in certain species-rich environments. As an alternative, we applied a two-step strategy combining ABGD (Automated Barcode Gap Discovery) and Klee diagrams, to balance speed and accuracy in producing primary species hypotheses (PSHs). Specifically, an ABGD/Klee approach was used for species delimitation in the Terebridae, …

Solving The Jigsaw Puzzle Of Wound-Healing Potato Cultivars: Metabolite Profiling And Antioxidant Activity Of Polar Extracts, Keyvan Dastmalchi, Qing Cai, Kevin Zhou, Wenlin Huang, Olga Serra, Ruth E. Stark

Publications and Research

Potato (Solanum tuberosum L.) is a worldwide food staple, but substantial waste accompanies the cultivation of this crop due to wounding of the outer skin and subsequent unfavorable healing conditions. Motivated by both economic and nutritional considerations, this metabolite profiling study aims to improve understanding of closing layer and wound periderm formation and guide the development of new methods to ensure faster and more complete healing after skin breakage. The polar metabolites of wound-healing tissues from four potato cultivars with differing patterns of tuber skin russeting (Norkotah Russet, Atlantic, Chipeta, and Yukon Gold) were analyzed at three and seven days …

Species-Level View Of Population Structure And Gene Flow For A Critically Endangered Primate (Varecia Variegata), Andrea L. Baden, Sheila M. Holmes, Steig E. Johnson, Shannon E. Engberg, Edward E. Louis, Brenda J. Bradley

Publications and Research

Lemurs are among the world's most threatened mammals. The critically endangered black-and-white ruffed lemur (Varecia variegata), in particular, has recently experienced rapid population declines due to habitat loss, ecological sensitivities to habitat degradation, and extensive human hunting pressure. Despite this, a recent study indicates that ruffed lemurs retain among the highest levels of genetic diversity for primates. Identifying how this diversity is apportioned and whether gene flow is maintained among remnant populations will help to diagnose and target conservation priorities. We sampled 209 individuals from 19 sites throughout the remaining V. variegata range. We used 10 polymorphic microsatellite loci and …

Decolorization Of Hair Dye By Lignocellulosic Waste Materials From Contaminated Waters, Habib Zahir, Michelle Naidoo, Rada-Mayya Kostadinova, Karla A. Ortiz, Rosario Sun-Kuo, Abel E. Navarro

Publications and Research

Basic yellow 57 (BY57) was chosen as a model hair dye due to its prevalence in cosmetics wastewaters. This study proposes the use of lignocellulosic materials like spent tea leaves of peppermint (PM), chai tea (CT), and chamomile (CM) as raw adsorbents for the removal of BY57 from contaminated solutions. Batch adsorption experiments were carried out at room temperature to achieve the maximum adsorption capacity. Results indicate that the highest removal is achieved at pH 6–8, with a minimum adsorbent mass of 75 mg and in the absence of salinity, crowding agents and heavy metals. Adsorption equilibria were modeled according …

Evaluation Of A New Method Of Fossil Retrodeformation By Algorithmic Symmetrization: Crania Of Papionins (Primates, Cercopithecidae) As A Test Case, Melissa Tallman, Nina Amenta, Eric Delson, Stephen R. Frost, Deboshmita Ghosh, Zachary S. Klukkert, Andrea Morrow, Gary J. Sawyer

Publications and Research

Diagenetic distortion can be a major obstacle to collecting quantitative shape data on paleontological specimens, especially for three-dimensional geometric morphometric analysis. Here we utilize the recently -published algorithmic symmetrization method of fossil reconstruction and compare it to the more traditional reflection & averaging approach. In order to have an objective test of this method, five casts of a female cranium of Papio hamadryas kindae were manually deformed while the plaster hardened. These were subsequently “retrodeformed” using both algorithmic symmetrization and reflection & averaging and then compared to the original, undeformed specimen. We found that in all cases, algorithmic retrodeformation improved …

Borreliabase: A Phylogeny-Centered Browser Of Borrelia Genomes, Lia Di, Pedro E. Pagan, Daniel Packer, Che L. Martin, Saymon Akther, Girish Ramrattan, Emmanuel F. Mongodin, Claire M. Fraser, Steven E. Schutzer, Benjamin J. Luft, Sherwood R. Casjens, Wei-Gang Qiu

Publications and Research

Background The bacterial genus Borrelia (phylum Spirochaetes) consists of two groups of pathogens represented respectively by B. burgdorferi, the agent of Lyme borreliosis, and B. hermsii, the agent of tick-borne relapsing fever. The number of publicly available Borrelia genomic sequences is growing rapidly with the discovery and sequencing of Borrelia strains worldwide. There is however a lack of dedicated online databases to facilitate comparative analyses of Borrelia genomes. Description We have developed BorreliaBase, an online database for comparative browsing of Borrelia genomes. The database is currently populated with sequences from 35 genomes of eight Lyme-borreliosis (LB) group Borrelia species and …

Physical Activity And Sedentary Behaviors Associated With Risk Of Progression From Gestational Diabetes Mellitus To Type 2 Diabetes Mellitus: A Prospective Cohort Study, Wei Bao, Deirdre K. Tobias, Katherine Bowers, Jorge Chavarro, Allan Vaag, Louise Groth Grunnet, Marin Strom, James Mills, Aiyi Liu, Michele Kiely, Cuilin Zhang

Publications and Research

Importance: Women with a history of gestational diabetes mellitus (GDM) are at substantially increased risk of type 2 diabetes mellitus (T2DM). The identification of important modifiable factors could help prevent T2DM in this high-risk population.

Objective: To examine the role of physical activity and television watching and other sedentary behaviors, and changes in these behaviors in the progression from GDM to T2DM.

Design, Setting, and Participants: Prospective cohort study of 4554 women from the Nurses' Health Study II who had a history of GDM, as part of the ongoing Diabetes & Women's Health Study. These women were followed up from …

Hispanic Residential Ethnic Density And Depression In Post-Acute Coronary Syndrome Patients: Re-Thinking The Role Of Social Support, Ellen-Ge Denton, Jonathan A. Shaffer, Carmela Alcantra, Lynn Clemow, Elizabeth Denton

Publications and Research

Background: The ethnic density hypothesis suggests that ethnic density confers greater social support and consequently protects against depressive symptoms in ethnic minority individuals. However, the potential benefits of ethnic density have not been examined in individuals who are facing a specific and salient life stressor.

Aims: We examined the degree to which the effects of Hispanic ethnic density on depressive symptoms are explained by socioeconomic resources and social support.

Methods: Patients with acute coronary syndrome (ACS, N = 472) completed the Beck Depression Inventory (BDI) and measures of demographics, ACS clinical factors and perceived social support. Neighborhood characteristics, including median …

Behavioral And Neuroanatomical Abnormalities In Pleiotrophin Knockout Mice, Jason W. Krellman, Henry H. Ruiz, Veronica A. Marciano, Bracha Mondrow, Susan D. Croll

Publications and Research

Pleiotrophin (PTN) is an extracellular matrix-associated protein with neurotrophic and neuroprotective effects that is involved in a variety of neurodevelopmental processes. Data regarding the cognitive-behavioral and neuroanatomical phenotype of pleiotrophin knockout (KO) mice is limited. The purpose of this study was to more fully characterize this phenotype, with emphasis on the domains of learning and memory, cognitive-behavioral flexibility, exploratory behavior and anxiety, social behavior, and the neuronal and vascular microstructure of the lateral entorhinal cortex (EC). PTN KOs exhibited cognitive rigidity, heightened anxiety, behavioral reticence in novel contexts and novel social interactions suggestive of neophobia, and lamina-specific decreases in neuronal …

Case Study: From Gummy Bears To Celery Stalks: Diffusion And Osmosis, Kevin M. Bonney

Publications and Research

The article describes a case study which interperses information on diffusion and osmosis with content review and knowledge application questions, as well as simple experiment that can be conducted without the use of a laboratory. Topics discussed include biological membranes, the use of gummy bears to demonstrate osmosis and osmosis in animal cells. Also mentioned is osmosis in plants. It notes that the case study was developed for use in an introductory undergraduate biology course.

The Adverse Impact Of Racial Microaggressions On College Students' Self-Esteem, Kevin L. Nadal, Yinglee Wong, Katie E. Griffin, Kristin Davidoff, Julie Sriken

Publications and Research

Racial microaggressions are subtle (often unintentional or unconscious) forms of racial discrimination that negatively affect victims’ mental health. Utilizing an undergraduate student sample (N = 225), the current study examined the relationship between racial microaggressions and self-esteem. Results indicate that racial microaggressions negatively predict a lower selfesteem, and that microaggressions that occur in educational and workplace environments are particularly harmful to self-esteem. Finally, findings reveal that individuals of various racial and ethnic minority groups experience racial microaggressions differently. Implications for student development and recommendations for further research involving racial microaggressions and college students are discussed.

The Create Strategy For Intensive Analysis Of Primary Literature Can Be Used Effectively By Newly Trained Faculty To Produce Multiple Gains In Diverse Students, Leslie M. Stevens, Sally G. Hoskins

Publications and Research

The CREATE (Consider Read, Elucidate the hypotheses, Analyze and interpret the data, and Think of the next Experiment) strategy aims to demystify scientific research and scientists while building critical thinking, reading/analytical skills, and improved science attitudes through intensive analysis of primary literature. CREATE was developed and piloted at the City College of New York (CCNY), a 4-yr, minority-serving institution, with both upper-level biology majors and first-year students interested in science, technology, engineering, and mathematics. To test the extent to which CREATE strategies are broadly applicable to students at private, public, research-intensive, and/or primarily undergraduate colleges/universities, we trained a cohort of …

Naïve Hosts Of Avian Brood Parasites Accept Foreign Eggs, Whereas Older Hosts Fine-Tune Foreign Egg Discrimination During Laying, Csaba Moskát, Miklós Bán, Mark E. Hauber

Publications and Research

Background: Many potential hosts of social parasites recognize and reject foreign intruders, and reduce or altogether escape the negative impacts of parasitism. The ontogenetic basis of whether and how avian hosts recognize their own and the brood parasitic eggs remains unclear. By repeatedly parasitizing the same hosts with a consistent parasitic egg type, and contrasting the responses of naïve and older breeders, we studied ontogenetic plasticity in the rejection of foreign eggs by the great reed warbler (Acrocephalus arundinaceus), a host species of the common cuckoo (Cuculus canorus).

Results: In response to experimental parasitism before the …

Deep Two-Photon Microscopic Imaging Through Brain Tissue Using The Second Singlet State From Fluorescent Agent Chlorophyll Α In Spinach Leaf, Lingyan Shi, Adrián Rodríguez-Contreras, Yury Budansky, Yang Pu, Thien An Nguyen, Robert R. Alfano

Publications and Research

Abstract. Two-photon (2P) excitation of the second singlet (S2) state was studied to achieve deep optical microscopic imaging in brain tissue when both the excitation (800 nm) and emission (685 nm) wavelengths lie in the “tissue optical window” (650 to 950 nm). S2 state technique was used to investigate chlorophyll α (Chl α) fluorescence inside a spinach leaf under a thick layer of freshly sliced rat brain tissue in combination with 2P microscopic imaging. Strong emission at the peak wavelength of 685 nm under the 2P S2 state of Chl α enabled the imaging depth up to 450 μm through …

Alcohol Drinking Patterns And Differences In Alcohol-Related Harm: A Population-Based Study Of The United States, D. Antai, G. B. Lopez, J. Antai, D. S. Anthony

Publications and Research

Alcohol use and associated alcohol-related harm (ARH) are a prevalent and important public health problem, with alcohol representing about 4% of the global burden of disease. A discussion of ARH secondary to alcohol consumption necessitates a consideration of the amount of alcohol consumed and the drinking pattern. This study examined the association between alcohol drinking patterns and self-reported ARH. Pearson chi-square test (χ2) and logistic regression analyses were used on data from the National Comorbidity Survey Replication (NCS-R). The NCS-R is a cross-sectional nationally representative sample. Data was obtained by face-to-face interviews from 9282 adults aged ≥18 years in the …

Gene Set Enrichment Analysis (Gsea) Of Toxoplasma Gondii Expression Datasets Links Cell Cycle Progression And The Bradyzoite Developmental Program, Matthew Mcknight Croken, Weigang Qiu, Michael W. White, Kami Kim

Publications and Research

Background Large amounts of microarray expression data have been generated for the Apicomplexan parasite Toxoplasma gondii in an effort to identify genes critical for virulence or developmental transitions. However, researchers’ ability to analyze this data is limited by the large number of unannotated genes, including many that appear to be conserved hypothetical proteins restricted to Apicomplexa. Further, differential expression of individual genes is not always informative and often relies on investigators to draw big-picture inferences without the benefit of context. We hypothesized that customization of gene set enrichment analysis (GSEA) to T. gondii would enable us to rigorously test whether …

Comparative Population Assessments Of Nautilus Sp. In The Philippines, Australia, Fiji, And American Samoa Using Baited Remote Underwater Video Systems, Gregory Jeff Barord, Frederick Dooley, Andrew Dunstan, Anthony Ilano, Karen N. Keister, Heike Neumeister, Thomas Preuss, Shane Schoepfer, Peter D. Ward

Publications and Research

The extant species of Nautilus and Allonautilus (Cephalopoda) inhabit fore-reef slope environments across a large geographic area of the tropical western Pacific and eastern Indian Oceans. While many aspects of their biology and behavior are now well-documented, uncertainties concerning their current populations and ecological role in the deeper, fore-reef slope environments remain. Given the historical to current day presence of nautilus fisheries at various locales across the Pacific and Indian Oceans, a comparative assessment of the current state of nautilus populations is critical to determine whether conservation measures are warranted. We used baited remote underwater video systems (BRUVS) to make …

Motor Cortex Electrical Stimulation Augments Sprouting Of The Corticospinal Tract And Promotes Recovery Of Motor Function, Jason B. Carmel, John H. Martin

Publications and Research

The corticospinal system—with its direct spinal pathway, the corticospinal tract (CST) – is the primary system for controlling voluntary movement. Our approach to CST repair after injury in mature animals was informed by our finding that activity drives establishment of connections with spinal cord circuits during postnatal development. After incomplete injury in maturity, spared CST circuits sprout, and partially restore lost function. Our approach harnesses activity to augment this injury-dependent CST sprouting and to promote function. Lesion of the medullary pyramid unilaterally eliminates all CST axons from one hemisphere and allows examination of CST sprouting from the unaffected hemisphere. We …

Impedimetric Detection Of Mutant P53 Biomarker-Driven Metastatic Breast Cancers Under Hyposmotic Pressure, Menglu Shi, Nataly Shtraizent, Alla Polotskaia, Jill Bargonetti, Hiroshi Matsui

Publications and Research

In cancer cells, the oncogenic mutant p53 (mtp53) protein is present at high levels and gain-of-function (GOF) activities with more expression of mtp53 proteins contribute to tumor growth and metastasis. Robust analytical approaches that probe the degree of metastasis of cancer cells in connection with the mtp53 activity will be extremely useful not only for establishing a better cancer prognosis but also understanding the fundamental mechanism of mtp53 oncogenic action. Here we assessed the influence of mtp53 in breast cancers to the mechanical property of breast cancer cells. Recently, ovarian and kidney cancer cell lines have been shown to have …

Cross-Study Validation For The Assessment Of Prediction Algorithms, Christoph Bernau, Markus Riester, Anne-Laure Boulesteix, Giovanni Parmigiani, Curtis Huttenhower, Levi Waldron, Lorenzo Trippa

Publications and Research

Motivation: Numerous competing algorithms for prediction in high-dimensional settings have been developed in the statistical and machine-learning literature. Learning algorithms and the prediction models they generate are typically evaluated on the basis of cross-validation error estimates in a few exemplary datasets. However, in most applications, the ultimate goal of prediction modeling is to provide accurate predictions for independent samples obtained in different settings. Cross-validation within exemplary datasets may not adequately reflect performance in the broader application context. Methods: We develop and implement a systematic approach to ‘cross-study validation’, to replace or supplement conventional cross-validation when evaluating high-dimensional prediction models in …