Digital Commons Network^™

Psychological Research In Action: Mentoring At An Urban Hsi Institution With Intersectional Perspectives And Outcomes, Pa Her, Jean E. Hillstrom, Amanda Almond

Publications and Research

This paper is from the perspective of three women who are psychology faculty members at various points in their professional development. It was written with the intention to promote ways for students and faculty members of color to construct representations of themselves as mentors. The New York City College of Technology’s (City Tech) participation in National Science Foundation (NSF) and National Institute of Health (NIH) grants, as well as institutionally-funded research initiatives, provided the authors with a context for engaging undergraduate students through research within the field of psychology. City Tech is a Hispanic serving institution with an urban campus …

Cryptic Diversity And Discordance In Single‐Locus Species Delimitation Methods Within Horned Lizards (Phrynosomatidae: Phrynosoma), Christopher Blair, Robert W. Bryson Jr.

Publications and Research

Biodiversity reduction and loss continues to progress at an alarming rate, and thus there is widespread interest in utilizing rapid and efficient methods for quantifying and delimiting taxonomic diversity. Single-locus species-delimitation methods have become popular, in part due to the adoption of the DNA barcoding paradigm. These techniques can be broadly classified into tree-based and distance-based methods depending on whether species are delimited based on a constructed genealogy. Although the relative performance of these methods has been tested repeatedly with simulations, additional studies are needed to assess congruence with empirical data. We compiled a large data set of mitochondrial ND4 …

Development And Validation Of The Microbiology For Health Sciences Concept Inventory, Heather M. Seitz, Rachel E. A. Horak, Megan W. Howard, Lucy W. Kluckhohn Jones, Theodore Muth, Christopher Parker, Andrea Pratt Rediske, Maureen M. Whitehurst

Publications and Research

Identifying misconceptions in student learning is a valuable practice for evaluating student learning gains and directing educational interventions. By accurately identifying students’ knowledge and misconceptions about microbiology concepts, instructors can design effective classroom practices centered on student understanding. Following the development of ASM’s Curriculum Guidelines in 2012, we developed a concept inventory, the Microbiology for Health Sciences Concept Inventory (MHSCI), that measures learning gains and identifies student misconceptions in health sciences microbiology classrooms. The 23-question MHSCI was delivered to a wide variety of students at multiple institution types. Psychometric analysis identified that the MHSCI instrument is both discriminatory and reliable …

Gene Coexpression Network Analysis Of Fruit Transcriptomes Uncovers A Possible Mechanistically Distinct Class Of Sugar/Acid Ratio-Associated Genes In Sweet Orange, Liang Qiao, Minghao Cao, Jian Zheng, Yihong Zhao, Zhi-Liang Zheng

Publications and Research

Background: The ratio of sugars to organic acids, two of the major metabolites in fleshy fruits, has been considered the most important contributor to fruit sweetness. Although accumulation of sugars and acids have been extensively studied, whether plants evolve a mechanism to maintain, sense or respond to the fruit sugar/acid ratio remains a mystery. In a prior study, we used an integrated systems biology tool to identify a group of 39 acid-associated genes from the fruit transcriptomes in four sweet orange varieties (Citrus sinensis L. Osbeck) with varying fruit acidity, Succari (acidless), Bingtang (low acid), and Newhall and Xinhui (normal …

Beeman Studies Racism In Today’S America, Aldemaro Romero Jr.

Publications and Research

“When I went to college at Indiana University of Pennsylvania, I became interested in sociology because it addressed issues of family and class dynamics and the issues that low-income working-class families struggle with. I avoided the racial element of it at first because my family and I had always been targeted as being among the few people of color in that community, and there is a kind of shame involved with that.”

This is how Dr. Angie Beeman explains how she came to be a sociologist. A native of Somerset, Pennsylvania, she went on to obtain a doctorate at the …

Draft Nuclear Genome Sequence Of The Halophilic And Beta-Carotene- Accumulating Green Alga Dunaliella Salina Strain Ccap19/18, Juergen Polle, Kerrie Barry, John Cushman, Jeremy Schmutz, Duc Tran, Leyla T. Hathwaik, Won C. Yin, Jerry Jenkins, Zaid Mckie-Krisberg, Simon Prochnik, Erika Lindquist, Rhyan B. Dockter, Catherine Adam, Henrik Molina, Jakob Bunkenborg, Eonseon Jin, Mark Buchheim, Jon Magnuson

Publications and Research

The halotolerant alga Dunaliella salina is a model for stress tolerance and is used commercially for production of beta-carotene (pro-vitamin A). The presented draft genome of the genuine strain CCAP19/18 will allow investigations into metabolic processes involved in regulation of stress responses, including carotenogenesis and adaptations to life in high-salinity environments.

Synthesis, Crystal Structure, And Photoluminescent Properties Of 3,3′,4,4′-Tetraethyl-5,5′-Divinyl-2,2′-Bipyrrole Derivatives, Toru Okawara, Reo Kawano, Hiroya Morita, Alan Finkelstein, Renjiro Toyofuku, Kanako Matsumoto, Kenji Takehara, Toshihiko Nagamura, Seiji Iwasa, Sanjai Kumar

Publications and Research

Photoluminescent divinylbipyrroles were synthesized from 3,3′,4,4′-tetraetyl-2,2′-bipyrrole-5,5′-dicarboxaldehyde and activated methylene compounds via aldol condensation.For mechanistic clarity, molecular structures of Meldrum’s acid- and 1,3-dimethylbarbituricacid-derived divinylbipyrroles were determined by single-crystal X-ray diffraction. Photoluminescentproperties of the synthesized divinylbipyrroles in dichloromethane were found to be dependent onthe presence of electron withdrawing groups at the vinylic terminal. The divinylbipyrroles derivedfrom malononitrile, Meldrum’s acid, and 1,3-dimethylbarbituric acid showed fluorescent peaks at553, 576, and 602 nm respectively. Computational studies indicated that the alkyl substituents on thebipyrrole 3 and 3′positions increased energy level of the highest occupied molecular orbital (HOMO)compared to the unsubstituted derivatives and provided rationale for the …

Ecosystem Drought Response Timescales From Thermal Emission Versus Shortwave Remote Sensing, Erika Andujar, Nir Krakauer, Chuixiang Yi, Felix Kogan

Publications and Research

Remote sensing is used for monitoring the impacts of meteorological drought on ecosystems, but few large-scale comparisons of the response timescale to drought of different vegetation remote sensing products are available. We correlated vegetation health products derived frompolar-orbiting radiometer observations with a meteorological drought indicator available at different aggregation timescales, the Standardized Precipitation Evapotranspiration Index (SPEI), to evaluate responses averaged globally and over latitude and biome.The remote sensing products are Vegetation Condition Index (VCI), which uses normalized difference vegetation index (NDVI) to identify plant stress, Temperature Condition Index (TCI), based on thermal emission as a measure of surface temperature, and …

Comparative Transcriptomics Reveal Developmental Turning Points During Embryogenesis Of A Hemimetabolous Insect, The Damselfly Ischnura Elegans, Sabrina Simon, Sven Sagasser, Edoardo Saccenti, Mercer R. Brugler, M. Eric Schranz, Heike Hadrys, George Amato, Rob Desalle

Publications and Research

Identifying transcriptional changes during embryogenesis is of crucial importance for unravelling evolutionary, molecular and cellular mechanisms that underpin patterning and morphogenesis. However, comparative studies focusing on early/embryonic stages during insect development are limited to a few taxa. Drosophila melanogaster is the paradigm for insect development, whereas comparative transcriptomic studies of embryonic stages of hemimetabolous insects are completely lacking. We reconstructed the first comparative transcriptome covering the daily embryonic developmental progression of the blue-tailed damselfly Ischnura elegans (Odonata), an ancient hemimetabolous representative. We identified a “core” set of 6,794 transcripts – shared by all embryonic stages – which are mainly involved …

Comparative Transcriptomics Reveal Developmental Turning Points During Embryogenesis Of A Hemimetabolous Insect, The Damselfly Ischnura Elegans, Sabrina Simon, Sven Sagasser, Edoardo Saccenti, Mercer R. Brugler, M. Eric Schranz, Heike Hadrys, George Amato, Rob Desalle

Publications and Research

Identifying transcriptional changes during embryogenesis is of crucial importance for unravelling evolutionary, molecular and cellular mechanisms that underpin patterning and morphogenesis. However, comparative studies focusing on early/embryonic stages during insect development are limited to a few taxa. Drosophila melanogaster is the paradigm for insect development, whereas comparative transcriptomic studies of embryonic stages of hemimetabolous insects are completely lacking. We reconstructed the first comparative transcriptome covering the daily embryonic developmental progression of the blue-tailed damselfly Ischnura elegans (Odonata), an ancient hemimetabolous representative. We identified a “core” set of 6,794 transcripts – shared by all embryonic stages – which are mainly involved …

Mentalized Affectivity: A New Model And Assessment Of Emotion Regulation, David M. Greenberg, Jonela Kolasi, Camilla P. Hegsted, Yoni Berkowitz, Elliot L. Jurist

Publications and Research

Here we introduce a new assessment of emotion regulation called the Mentalized Affectivity Scale (MAS). A large online adult sample (N = 2,840) completed the 60-item MAS along with a battery of psychological measures. Results revealed a robust three-component structure underlying mentalized affectivity, which we labeled: Identifying emotions (the ability to identify emotions and to reflect on the factors that influence them); Processing emotions (the ability to modulate and distinguish complex emotions); and Expressing emotions (the tendency to express emotions outwardly or inwardly). Hierarchical modeling suggested that Processing emotions delineates from Identifying them, and Expressing emotions delineates from Processing them. …

Substitutions In Conserved Regions Preceding And Within The Linker Affect Activity And Flexibility Of Trnase Zl, The Long Form Of Trnase Z, Makensie Saoura, Kyla Pinnock, Maria Pujantell-Graell, Louis Levinger

Publications and Research

The enzyme tRNase Z, a member of the metallo-β-lactamase family, endonucleolytically removes 3' trailers from precursor tRNAs, preparing them for CCA addition and aminoacylation. The short form of tRNase Z, tRNase ZS, functions as a homodimer and is found in all prokaryotes and some eukaryotes. The long form, tRNase ZL, related to tRNase ZS through tandem duplication and found only in eukaryotes, possesses ~2,000-fold greater catalytic efficiency than tRNase ZS. tRNase ZL consists of related but diverged amino and carboxy domains connected by a flexible linker (also referred to as a flexible tether) and functions as a monomer. The amino …

Spinal Excitability Changes After Transspinal And Transcortical Paired Associative Stimulation In Humans, Maria Knikou

Publications and Research

Paired associative stimulation (PAS) produces enduring neuroplasticity based on Hebbian associative plasticity. This study established the changes in spinal motoneuronal excitability by pairing transcortical and transspinal stimulation. Transcortical stimulation was delivered after (transspinal-transcortical PAS) or before (transcortical-transspinal PAS) transspinal stimulation. Before and after 40 minutes of each PAS protocol, spinal neural excitability was assessed based on the amplitude of the transspinal-evoked potentials (TEPs) recorded from ankle muscles of both legs at different stimulation intensities (recruitment input-output curve). Changes in TEPs amplitude in response to low-frequency stimulation and paired transspinal stimuli were also established before and after each PAS protocol. TEP …

Effects Of A Beach Nourishment Project In Jamaica Bay, New York, On Horseshoe Crab (Limulus Polyphemus) Spawning Activity And Egg Deposition, Christina P. Colon

Publications and Research

Restoration of horseshoe crab spawning habitats through beach nourishment may be considered as a potential strategy to enhance reproductive success in areas where estuarine beaches have been lost to coastal erosion and development. The US Army Corps of Engineers performed a beach nourishment project at Plumb Beach (Jamaica Bay, Brooklyn, NY) in 2012 to stabilize the shoreline. While the addition of sand was done to protect infrastructure, it created an opportunity to examine the responses of American horseshoe crabs (Limulus polyphemus) to beach nourishment using a BACI (before-after control impact) design. During Spring 2012, be fore beach nourishment, horseshoe crabs …

The Pulse Vision & Change Rubrics, Version 1.0: A Valid And Equitable Tool To Measure Transformation Of Life Sciences Departments At All Institution Types, Loretta Brancaccio-Taras, Pamela Pape-Lindstrom, Marcy Peteroy-Kelly, Karen Aguirre, Judy Awong-Taylor, Teri Balser, Michael J. Cahill, Regina F. Frey, Thomas Jack, Michael Kelrick, Kate Marley, Kathryn G. Miller, Marcy Osgood, Sandra Romano, J. Akif Uzman, Jiuqing Zhao

Publications and Research

The PULSE Vision & Change Rubrics, version 1.0, assess life sciences departments’ progress toward implementation of the principles of the Vision and Change report. This paper reports on the development of the rubrics, their validation, and their reliability in measuring departmental change aligned with the Vision and Change recommendations. The rubrics assess 66 different criteria across five areas: Curriculum Alignment, Assessment, Faculty Practice/Faculty Support, Infrastructure, and Climate for Change. The results from this work demonstrate the rubrics can be used to evaluate departmental transformation equitably across institution types and represent baseline data about the adoption of the Vision and Change …

Civility Needs To Return To Higher Education, Aldemaro Romero Jr.

Publications and Research

According to The Institute for Civility in Government, civility is “about more than just polite- ness, although politeness is a necessary first step. It is about disagreeing without disrespect, seeking com- mon ground as a starting point for dialogue about differences, listening past one’s preconceptions, and teaching others to do the same.”

If we go by current events in academia it seems that civility has all but been lost. We see students actively impeding or shouting out at outside speakers just because those guests do not adhere to a particular “party line,” a pure version of a particular ideology, or …

The Impact Of Climate Change On Biodiversity In Nepal: Current Knowledge, Lacunae, And Opportunities, Aishwarya Bhattacharjee, Jose D. Anadon, David L. Lohnman, Tenzing Doleck, Tarendra Lakhankar, Bharat Babu Shrestha, Praseed Thapa, Durga Devkota, Sundar Tiwari, Ajay Jha, Mohan Siwakoti, Naba R. Devkota, Pramod K. Jha, Nir Y. Krakauer

Publications and Research

Nepal has an extreme altitudinal range from 60–8850m with heterogeneous topography and distinct climatic zones. The country is considered a biodiversity hotspot, with nearly a quarter of the land area located in protected areas. Nepal and the surrounding Himalayan region are particularly vulnerable to climate change because of their abrupt ecological and climatic transitions. Tens of millions of people rely on the region’s ecosystem services, and observed and modeled warming trends predict increased climate extremes in the Himalayas. To study the ecological impacts of climate change in Nepal and inform adaptation planning, we review the literature on past, present, and …

Escape Burrowing Of Modern Freshwater Bivalves As A Paradigm For Escape Behavior In The Devonian Bivalve Archanodon Catskillensis, Katja Knoll, Rebecca B. Chamberlain, John A. Chamberlain

Publications and Research

Many freshwater bivalves restore themselves to the sediment water interface after burial by upward escape burrowing. We studied the escape burrowing capacity of two modern unionoids, Elliptio complanata and Pyganodon cataracta and the invasive freshwater venerid Corbicula fluminea, in a controlled laboratory setting varying sediment grain size and burial depth. We found that the relatively streamlined E. complanata is a better escape burrower than the more obese P. cataracta. E. complanata is more likely to escape burial in both fine and coarse sand, and at faster rates than P. cataracta. However, successful escape from 10 cm burial, especially in fine …

Positive Interactions Among Foraging Seabirds, Marine Mammals And Fishes And Implications For Their Conservation, Richard R. Veit, Nancy M. Harrison

Publications and Research

There is increasing recognition of the importance of “positive interactions” among species in structuring communities. For seabirds, an important kind of positive interaction is the use of birds of the same species, birds of other species, and other marine predators such as cetaceans, seals and fishes as cues to the presence of prey. The process by which a single bird uses, say, a feeding flock of birds as a cue to the presence of prey is called “local enhancement” or “facilitation.” There are subtly different uses of each of these terms, but the issue we address here is the ubiquity …

Ligand Modulation Of Sidechain Dynamics In A Wild-Type Human Gpcr, Lindsay D. Clark, Igor Dikiy, Karen Chapman, Karin Ej Rodstrom, James Aramini, Michael V. Levine, George Khelashvili, Soren Gf Rasmussen, Kevin H. Gardner, Daniel M. Rosenbaum

Publications and Research

GPCRs regulate all aspects of human physiology, and biophysical studies have deepened our understanding of GPCR conformational regulation by different ligands. Yet there is no experimental evidence for how sidechain dynamics control allosteric transitions between GPCR conformations. To address this deficit, we generated samples of a wild-type GPCR (A2AR) that are deuterated apart from 1H/13C NMR probes at isoleucine d1 methyl groups, which facilitated 1H/13C methyl TROSY NMR measurements with opposing ligands. Our data indicate that low [Na+] is required to allow large agonist-induced structural changes in A2AR, and that patterns of sidechain dynamics substantially differ between agonist (NECA) and …

Incorporation And Evaluation Of Authentic Research Experiences Into The Curriculum Through Development Of A Theory Of Action, Pamela Brown, Tammie Cumming, Joan D. Pasley

Publications and Research

A theory of action outlining undergraduate research program inputs and desired outcomes was developed and used to guide implementation of Course-Based Undergraduate Research Experience (CURE) sections and to create assessment tools to measure attainment of program goals in both apprentice-model undergraduate research and CURE. Student survey results for these two research programs were compared and suggest that many aspects of the academic goals such as designing an experiment, using equipment, collecting and analyzing data, and collaborating with others were achieved in both groups. Regarding the relationship with mentors, both groups reported receiving academic advisement in course selection and career options. …

Stochastic Resonance In A Proton Pumping Complex I Of Mitochondria Membranes, Davneet Kaur, Ilan Filonenko, Lev Mourokh, Cornelius Fendler, Robert H. Blick

Publications and Research

We make use of the physical mechanism of proton pumping in the so-called Complex I within mitochondria membranes. Our model is based on sequential charge transfer assisted by conformational changes which facilitate the indirect electron-proton coupling. The equations of motion for the proton operators are derived and solved numerically in combination with the phenomenological Langevin equation describing the periodic conformational changes. We show that with an appropriate set of parameters, protons can be transferred against an applied voltage. In addition, we demonstrate that only the joint action of the periodic energy modulation and thermal noise leads to efficient uphill proton …

Cellular Mechanisms Of Cortisol-Induced Changes In Mauthner-Cell Excitability In The Startle Circuit Of Goldfish, Daniel R. Bronson, Thomas Preuss

Publications and Research

Predator pressure and olfactory cues (alarm substance) have been shown to modulate Mauthner cell (M-cell) initiated startle escape responses (C-starts) in teleost fish. The regulation of such adaptive responses to potential threats is thought to involve the release of steroid hormones such as cortisol. However, the mechanism by which cortisol may regulate M-cell excitability is not known. Here, we used intrasomatic, in vivo recordings to elucidate the acute effects of cortisol on M-cell membrane properties and sound evoked post-synaptic potentials (PSPs). Cortisol tonically decreased threshold current in the M-cell within 10 min before trending towards baseline excitability over an hour …

You Learn What You Live: Prevalence Of Childhood Adversity In The Lives Of Juveniles Arrested For Sexual Offenses, Jill S. Levenson, Michael Baglivio, Kevin T. Wolff, Nathan Epps, William Royall, Katherine C. Gomez, Dahlia Kaplan

Publications and Research

Social workers often find themselves working with children or adolescents who have been victims of adverse childhood experiences (ACEs), including youths who have ended up in the juvenile justice system. Childhood trauma has been linked to negative health, mental health, and behavioral outcomes across the lifespan. The aim of this study was to examine the prevalence rates of child maltreatment and household dysfunction in the lives of juveniles who have been arrested for sexual offenses (JSO; n = 6,549). ACE prevalence rates for JSOs were compared by gender to juveniles arrested for other crimes, to adults arrested for sexual offenses, …

Zarnoch Studies The Health Of Our Waters, Aldemaro Romero Jr.

Publications and Research

Some people look at scientists and think of them as narrowly focused on obscure issues, but that is not the case with Dr. Chester Zarnoch. “You’re not just exploring the biology and the chemistry associated with the problem you’re working on, but also thinking about social implications, about economic implications,” he says.

A native of Manhattan, Zarnoch has studied and worked his entire life in New York, from receiving his bachelor’s degree at Southampton College of Long Island University, his master’s in the philosophy of biology at the City University of New York (CUNY) Graduate Center, a master’s in biology …

A First Linkage Map And Downy Mildew Resistance Qtl Discovery For Sweet Basil (Ocimum Basilicum) Facilitated By Double Digestion Restriction Site Associated Dna Sequencing (Ddradseq), Robert M. Pyne, Josh Honig, Jennifer Vaiciunas, Adolfina R. Koroch, Christian Wyenandt, Stacy Bonos, James Simon

Publications and Research

Limited understanding of sweet basil (Ocimum basilicum L.) genetics and genome structure has reduced efficiency of breeding strategies. This is evidenced by the rapid, worldwide dissemination of basil downy mildew (Peronospora belbahrii) in the absence of resistant cultivars. In an effort to improve available genetic resources, expressed sequence tag simple sequence repeat (EST-SSR) and single nucleotide polymorphism (SNP) markers were developed and used to genotype the MRI x SB22 F2 mapping population, which segregates for response to downy mildew. SNP markers were generated from genomic sequences derived from double digestion restriction site associated DNA sequencing (ddRADseq). Disomic segregation was observed …

Can Squirrel Monkeys Learn An Abna Grammar? A Re-Evaluation Of Ravignani Et Al. (2013), Stefano Ghirlanda

Publications and Research

Ravignani et al. (2013) habituated squirrel monkeys to sound sequences conforming to an ABnA grammar (nD1;2;3), then tested them for their reactions to novel gram- matical and non-grammatical sequences. Although they conclude that the monkeys ``consistently recognized and generalized the sequence ABnA,'' I remark that this conclusion is not robust. The statistical significance of results depends on specific choices of data analysis, namely dichotomization of the response variable and omission of specific data points. Additionally, there is little evidence of generalization to novel patterns (n D 4;5), which is important to conclude that the monkeys recognized the ABnA grammar beyond …

Respiratory Sinus Arrhythmia Activity Predicts Internalizing And Externalizing Behaviors In Non-Referred Boys, Wei Zhang, Shawn E. Fagan, Yu Gao

Publications and Research

Atypical respiratory sinus arrhythmia (RSA), a biomarker of emotion dysregulation, is associated with both externalizing and internalizing behaviors. In addition, social adversity and gender may moderate this association. In this study, we investigated if RSA (both resting RSA and RSA reactivity in an emotion regulation task) predicts externalizing and/or internalizing behaviors and the extent to which social adversity moderates this relationship. Two hundred and fifty-three children (at Time 1, mean age D 9.05, SD D 0.60, 48% boys) and their caregivers from the community participated in this study. Resting RSA and RSA reactivity were assessed, and caregivers reported children’s externalizing …

Chloride Intracellular Channel Proteins Respond To Heat Stress In Caenorhabditis Elegans, Jun Liang, Yakov Shaulov, Cathy Savage-Dunn, Stéphane Boissinot, Tasmia Hoque

Publications and Research

Chloride intracellular channel proteins (CLICs) are multi-functional proteins that are expressed in various cell types and differ in their subcellular location. Two CLIC homologs, EXL-1 (excretory canal abnormal like-1) and EXC-4 (excretory canal abnormal± 4), are encoded in the Caenorhabditis elegans genome, providing an excellent model to study the functional diversification of CLIC proteins. EXC-4 functions in excretory canal formation during normal animal development. However, to date, the physiological function of EXL-1 remains largely unknown. In this study, we demonstrate that EXL-1 responds specifically to heat stress and translocates from the cytoplasm to the nucleus in intestinal cells and body …

Maternal Hypothalamic-Pituitary-Adrenal Axis Response To Foraging Uncertainty: A Model Of Individual Vs. Social Allostasis And The "Superorganism Hypothesis", Jeremy D. Coplan, Nishant K. Gupta, Asif Karim, Anna Rozenboym, Eric L.P. Smith, John G. Kral, Leonard A. Rosenblum

Publications and Research

Introduction: Food insecurity is a major global contributor to developmental origins of adult disease. The allostatic load of maternal food uncertainty from variable foraging demand (VFD) activates corticotropin-releasing factor (CRF) without eliciting hypothalamic-pituitary-adrenal (HPA) activation measured on a group level. Individual homeostatic adaptations of the HPA axis may subserve second-order homeostasis, a process we provisionally term “social allostasis.” We postulate that maternal food insecurity induces a “superorganism” state through coordination of individual HPA axis response.

Methods: Twenty-four socially-housed bonnet macaque maternal-infant dyads were exposed to 16 weeks of alternating two-week epochs of low or high foraging demand shown to compromise …