Life Sciences Commons^™

Sentience Does Not Require “Higher” Cognition, Giorgio Vallortigara

Animal Sentience

I agree with Marino (2017a,b) that the cognitive capacities of chickens are likely to be the same as those of many others vertebrates. Also, data collected in the young of this precocial species provide rich information about how much cognition can be pre-wired and predisposed in the brain. However, evidence of advanced cognition — in chickens or any other organism — says little about sentience (i.e., feeling). We do not deny sentience in human beings who, because of cognitive deficits, would be incapable of exhibiting some of the cognitive feats of chickens. Moreover, complex problem solving, such as transitive inference, …

Misperceiving And Underestimating The Ubiquitous Chicken, Carrie P. Freeman

Animal Sentience

Marino has provided an accurate and nuanced view about chickens’ complex capabilities as sentient individuals. I explore the implications of these findings for scholars as well as for activists in the protection of farmed animals.

Is Psychological Science Committing “Suicide” By Linguistic Muddling?, Roger K. Thomas

Animal Sentience

Beginning mainly with the “cognitive revolution” in psychology in the latter half of the 20^th century, psychological science has been committing “suicide” slowly via linguistic muddling. Peña-Guzmán’s target article is but one of thousands of cuts contributing to this death by “suicide.” Having said that, given the current state of affairs in animal cognition research, there is much to commend in Peña-Guzmán’s article. I leave that to others, however. This commentary explains how the suicide by muddling of psychological science is happening in general, with the understanding that it applies also to Peña-Guzmán’s target article.

On Assisted Suicide, Clark Glymour

Animal Sentience

What would be the moral implications of the capacity for suicide in nonhuman animals? Humans can be helped to end their lives if they no longer find them bearable. Should captive animals not be given the same possibility?

Vestured Pits In Echium (Boraginaceae): Island Woodiness Revisited, Sherwin Carlquist

Aliso: A Journal of Systematic and Floristic Botany

Vestured pits are present on pits of secondary xylem vessels of all studied Echium species, roots as well as stems. Variations in vesturing presence do occur in the genus (across wide circular pit cavities; along margins of elliptical pit apertures; aggregated to various degrees; variously abundant), but these are difficult to define precisely and are related primarily to organography and ecology rather than to the taxonomic system. The Macaronesian species have been reported to form a single clade. Wood anatomical features other than vesturing are also closely keyed to species ecology and, in particular subclades, growth forms. Woodiness, exemplified by …

Community Structure And Demography In A Saline Pan-Dune Mosaic In The Western Mojave Desert, M. Rasoul Sharifi, William N. Brostoff, Philip W. Rundel

Aliso: A Journal of Systematic and Floristic Botany

A unique saline ecological system formed by an extensive mosaic of small clay pans and low stable dunes exists within Edwards Air Force Base in the western Mojave Desert of California. This ecosystem lies between the large Rosamond and Rogers dry lakes on the old Pleistocene lakebed of Lake Thompson. Plant communities on the low and relatively stable dunes were broadly classed as saltbush scrub, with a total canopy cover of 30–36%. Atriplex confertifolia was the typical dominant, with Ericameria nauseosa as an important associate. Taller dunes of younger age and less saline soils had similar plant cover, but a …

Richness And Current Status Of Gymnosperm Communities In Aguascalientes, Mexico, María Elena Siqueiros-Delgado, Rebecca S. Miguel, José A. Rodríguez-Avalos, Julio Martínez-Ramírez, José C. Sierra-Muñoz

Aliso: A Journal of Systematic and Floristic Botany

The gymnosperm diversity of Aguascalientes, Mexico, is presented. Fifteen species from five genera and three families are reported, two of Coniferales (Cupressaceae and Pinaceae) and one of Gnetales (Ephedraceae). Pinus is the most diverse and abundant genus with seven species. The most abundant species is P. teocote, while P. strobiformis is the scarcest. Juniperus is the next most diverse genus, represented by four species, with J. deppeana the most abundant and J. durangensis the scarcest. Cupressus lusitanica, Taxodium mucronatum and Ephedra compacta are each the sole representatives of their genera. Most conifers occupy the mountainous part of the …

The Potential Of Epigenetics Research To Transform Conceptions Of Phenotype Development, David S. Moore

Pitzer Faculty Publications and Research

Epigenetics remains an exciting subdiscipline of biology, generating discoveries and insights about development. Because epigenetic phenomena can draw attention to the dynamic, interactional, and probabilistic nature of phenotype development, epigenetics research could hasten the demise of both nature-nurture debates and reductionist, genetically determinist perspectives on phenotype development. However, new data alone will not inevitably transform conceptualizations of phenotype origins, because it remains possible to assimilate epigenetic phenomena into traditional conceptual frameworks; epigenetic discoveries could even strengthen biologically determinist conclusions if traditional conceptualizations are retained. Although epigenetics will not force conceptual transformation, epigenetics research encourages the dismissal of the nature-nurture dichotomy …

Development Of Cellular Assays To Monitor Enzymatic And Biological Activity Of Cd73: A Key Modulator Of Anti-Tumor Immune Response, Alexandra Fanuka

Graduate School of Biomedical Sciences Theses and Dissertations

Ecto-5’-nucleotidase, known as CD73, is an extracellular enzyme that converts adenosine monophosphate (AMP) to adenosine and has recently been identified as a potential drug target for cancer immunotherapy. Its immunosuppressive effects, mediated by the activity of adenosine, are associated with higher rates of tumor invasion and metastasis, as well as poorer prognoses overall in many cancer types. CD73 is often co-expressed with ectonucleoside triphosphate diphosphohydrolase-1 (CD39), which catalyzes the conversion of adenosine triphosphate (ATP) to adenosine diphosphate (ADP), and ADP to AMP on the surface of tumor cells. Dual expression further propagates immunosuppressive effects of adenosine in the tumor microenvironment. …

Shape Indexes For Semi-Automated Detection Of Windbreaks In Thematic Tree Cover Maps From The Central United States, Greg C. Liknes, Dacia M. Meneguzzo, Todd A. Kellerman

United States Department of Agriculture, Forest Service / University of Nebraska-Lincoln: Faculty Publications

Windbreaks are an important ecological resource across the large expanse of agricultural land in the central United States and are often planted in straight-line or L-shaped configurations to serve specific functions. As high-resolution (i.e., <5 m) land cover data sets become more available for these areas, semi-or fully-automated methods for distinguishing windbreaks from other patches of trees are needed for use with thematic raster data sets. To address this need, we created three shape indexes: a morphology-based index that we have named the Straight and Narrow Feature Index (SNFI), a windbreak sinuosity index, and an area index indicating the occupied fractional area of a bounding box. The indexes were tested in two study areas: (1) a riparian area dominated by sinuous bands of trees but mixed with row crop agriculture and (2) an agricultural area with a mix of straight-line and L-shaped windbreaks. In the riparian area, a Kruskall–Wallis rank sum test indicated class differences for all three indexes, and pairwise comparisons indicate windbreaks and riparian trees are separable using any of the three indexes. SNFI also produced significant differences between windbreaks oriented in different directions (east–west vs. north–south). In the agricultural area, the Kruskall–Wallis rank sum test indicated differences between classes for all three indexes, and pairwise comparisons show that all class pairs have significant differences for at least one index, with the exception of L-shaped windbreaks vs. non-windbreak tree patches. We also used classification trees to objectively assign representative samples of tree patches to classes using both single indexes and multiple indexes. Classes were correctly assigned for more than 90% of the samples in both the riparian and agricultural study areas. In the riparian area, combining indexes did not improve accuracy compared to using SNFI alone, whereas in the agricultural area, combining the three indexes produced the best result. Thematic data sets derived from high-resolution imagery are becoming more available, and extracting useful information can be a challenge, partly due to the large amount of data to assess. Calculating the three shape indexes presented can assist with efficient identification of candidate windbreaks and as such, hold good promise for value-added analysis of tree function in the central United States.

Road Accidents Bigdata Mining And Visualization Using Support Vector Machines, Usha Lokala, Srinivas Nowduri, Prabhakar K. Sharma

Kno.e.sis Publications

Useful information has been extracted from the road accident data in United Kingdom (UK), using data analytics method, for avoiding possible accidents in rural and urban areas. This analysis make use of several methodologies such as data integration, support vector machines (SVM), correlation machines and multinomial goodness. The entire datasets have been imported from the traffic department of UK with due permission. The information extracted from these huge datasets forms a basis for several predictions, which in turn avoid unnecessary memory lapses. Since data is expected to grow continuously over a period of time, this work primarily proposes a new …

Relatedness-Based Multi-Entity Summarization, Kalpa Gunaratna, Amir Hossein Yazdavar, Krishnaprasad Thirunarayan, Amit Sheth, Gong Cheng

Kno.e.sis Publications

Representing world knowledge in a machine processable format is important as entities and their descriptions have fueled tremendous growth in knowledge-rich information processing platforms, services, and systems. Prominent applications of knowledge graphs include search engines (e.g., Google Search and Microsoft Bing), email clients (e.g., Gmail), and intelligent personal assistants (e.g., Google Now, Amazon Echo, and Apple’s Siri). In this paper, we present an approach that can summarize facts about a collection of entities by analyzing their relatedness in preference to summarizing each entity in isolation. Specifically, we generate informative entity summaries by selecting: (i) inter-entity facts that are similar and …

A Hybrid Mpi-Openmp Strategy To Speedup The Compression Of Big Next-Generation Sequencing Datasets, Sandino Vargas-Perez, Fahad Saeed

Parallel Computing and Data Science Lab Technical Reports

DNA sequencing has moved into the realm of Big Data due to the rapid development of high-throughput, low cost Next-Generation Sequencing (NGS) technologies. Sequential data compression solutions that once were sufficient to efficiently store and distribute this information are now falling behind. In this paper we introduce phyNGSC, a hybrid MPI-OpenMP strategy to speedup the compression of big NGS data by combining the features of both distributed and shared memory architectures. Our algorithm balances work-load among processes and threads, alleviates memory latency by exploiting locality, and accelerates I/O by reducing excessive read/write operations and inter-node message exchange. To make the …

Fisheries Management Paper No.283 - Abalone Resource Of Western Australia Harvest Strategy 2106 - 2021, Department Of Fisheries Western Australia

Fisheries Management Papers

Harvest strategies for aquatic resources managed by the Western Australian Department of Fisheries (the Department) are formal documents prepared to support the decision-making processes required to ensure the management of these resources are consistent with the principles of Ecologically Sustainable Development (ESD). The objectives of ESD are reflected in the objects of the Fish Resources Management Act 1994 (FRMA) and Section 9 of the Aquatic Resources Management Act, which will replace the FRMA once proclaimed.

The publication of these strategies is intended to make the decision-making considerations and processes for the management of specified aquatic resources publicly transparent and provide …

Differences In Prey Availability Within The Territories Of Striped And Unstriped Eastern Red-Backed Salamanders (Plethodon Cinereus), Carl Anthony, Cari-Ann M. Hickerson, K. Jaworski*, M. Messner**

2017 Faculty Bibliography

No abstract provided.

Behavioral Interactions Between Terrestrial Salamanders And Spiders: Competition Or Intraguild Predation? Behavioral Interactions Between Terrestrial Salamanders And Spiders: Competition Or Intraguild Predation?, Carl Anthony, Cari-Ann M. Hickerson, Anna M. Figura

2017 Faculty Bibliography

Several studies suggest that small terrestrial salamanders are important regulators of leaf litter arthropod communities, and likely contribute to ecosystem processes such as decomposition and nutrient cycling. Despite the recognition that salamanders have the potential to strongly affect ecosystem function through both direct and indirect pathways, little is known regarding the nature of interactions between small vertebrates and the large, predatory arthropods with which they share both microhabitat and prey. Our study was designed to explore interactions between Eastern Red-backed Salamanders, Plethodon cinereus, and spiders in the genus Wadotes in an eastern North American temperate forest ecosystem. We were particularly …

Cyanomargarita Gen. Nov. (Nostocales, Cyanobacteria): Convergent Evolution Resulting In, Jeffrey R. Johansen, Sergei Shalygin, Regina Shalygina, Nicole Pietrasiak

2017 Faculty Bibliography

Two populations of Rivularia‐like cyanobacteria were isolated from ecologically distinct and biogeographically distant sites. One population was from an unpolluted stream in the Kola Peninsula of Russia, whereas the other was from a wet wall in the Grand Staircase‐Escalante National Monument, a desert park‐land in Utah. Though both were virtually indistinguishable from Rivularia in field and cultured material, they were both phylogenetically distant from Rivularia and the Rivulariaceae based on both 16S rRNA and rbcLX phylogenies. We here name the new cryptic genus Cyanomargarita gen. nov., with type species C. melechinii sp. nov., and additional species C. calcarea …

A Revision Of The Genus Geitlerinema And A Description Of The Genus Anagnostidinema Gen. Nov. (Oscillatoriophycidae, Cyanobacteria), Jeffrey R. Johansen, Otakar Strunecký, Markéta Bohunická, Kateřina Čapková Čapková, Lenka Raabová, Petr Dvořák, Jiří Komárek

2017 Faculty Bibliography

The simple filamentous cyanobacterial genus Geitlerinema is heterogeneous. At least two distinct phylogenetic clades can be derived from the set of most common freshwater Geitlerinema species. Our revision is based on the original description of the type species G. splendidum aka Oscillatoria spendida and on molecular sequencing of morphologically relevant strains. The revised Geitlerinema contains only one species according to morphological similarity with its original description. Consequently, the majority of other freshwater species inferred from molecular sequencing of 16S rRNA gene and 16S–23S ITS analysis (related both genetically and morphologically to G. pseudacutissimum) must be classified as a special taxon …

Deimatic Behaviour Exhibited By The Green And Black Poison Frog (Dendrobates Auratus) After Exposure From A Cover Object, Ralph Saporito

2017 Faculty Bibliography

No abstract provided.

Gene Expression Profiling Of Bovine Ovarian Follicular And Luteal Cells Provides Insight Into Cellular Identities And Functions, Sarah Romereim, Adam F. Summers, William E. Pohlmeier, Pan Zhang, Xiaoying Hou, Heather A. Talbott, Robert A. Cushman, Jennifer R. Wood, John S. Davis, Andrea S. Cupp

Department of Animal Science: Faculty Publications

After ovulation, somatic cells of the ovarian follicle (theca and granulosa cells) become the small and large luteal cells of the corpus luteum. Aside from known cell type-specific receptors and steroidogenic enzymes, little is known about the differences in the gene expression profiles of these four cell types. Analysis of the RNA present in each bovine cell type using Affymetrix microarrays yielded new cell-specific genetic markers, functional insight into the behavior of each cell type via Gene Ontology Annotations and Ingenuity Pathway Analysis, and evidence of small and large luteal cell lineages using Principle Component Analysis. Enriched expression of select …

The Neuropsychology Of Sport And Performance, Arthur C. Maerlender

Center for Brain, Biology, and Behavior: Faculty Publications

Neuropsychological theory has been a mainstay for understanding pathology within the brain-behavior context. However, our theories for predicting superior behavior are not as well developed. Sport neuropsychology was developed on the presumption that athletes represent a population in a relatively well-controlled environment for studying brain pathology due to injury. This study of pathology within a high-performance environment has been responsible for identifying the effects of mild traumatic brain injury (mTBI) on individual functioning. Far less attention has been paid to the other end of the performance continuum, and yet, viable brain-behavior hypotheses should hold true across the spectrum of function …

Validity And Reliability Of Baseline Testing In A Standardized Environment, Kathryn L. Higgins, Todd Caze, Arthur C. Maerlender

Center for Brain, Biology, and Behavior: Faculty Publications

Objective — The Immediate Postconcussion Assessment and Cognitive Testing (ImPACT) is a computerized neuropsychological test battery commonly used to determine cognitive recovery from concussion based on comparing post-injury scores to baseline scores. This model is based on the premise that ImPACT baseline test scores are a valid and reliable measure of optimal cognitive function at baseline. Growing evidence suggests that this premise may not be accurate and a large contributor to invalid and unreliable baseline test scores may be the protocol and environment in which baseline tests are administered. This study examined the effects of a standardized environment and administration …

Measurement Of Cortisol In Saliva: A Comparison Of Measurement Error Within And Between International Academic‑Research Laboratories, Jessica L. Calvi, Frances R. Chen, Victoria Brann Benson, Eleanor Brindle, Matt Bristow, Alpana De, Sonja Entringer, Helen Findlay, Christine Heim, Eric A. Hodges, Heiko Klawitter, Sonia Lupien, Holly M. Rus, Jitske Tiemensma, Silvanna Verlezza, Claire-Dominique Walker, Douglas A. Granger

Center for Brain, Biology, and Behavior: Faculty Publications

Objective: Hundreds of scientific publications are produced annually that involve the measurement of cortisol in saliva. Intra- and inter-laboratory variation in salivary cortisol results has the potential to contribute to crossstudy inconsistencies in findings, and the perception that salivary cortisol results are unreliable. This study rigorously estimates sources of measurement variability in the assay of salivary cortisol within and between established international academic-based laboratories that specialize in saliva analyses. One hundred young adults (Mean age: 23.10 years; 62 females) donated 2 mL of whole saliva by passive drool. Each sample was split into multiple- 100 μL aliquots and …

Patterns Of Referral In High School Concussion Management Programs: A Pilot Study Of Consultants From Different Disciplines, Jonathan Lichtenstein, Kate S. Linnea, Arthur C. Maerlender

Center for Brain, Biology, and Behavior: Faculty Publications

School-based concussion management programs cover thousands of young athletes, yet there is little in the way of research to assess program processes or outcomes. This study examined the referral patterns of consultants working with ten high school concussion management programs. In addition to the number of referrals made to specialists, other potential outcome variables were explored. The sample included over 5,000 athlete-seasons and 298 concussions managed directly by certified athletic trainers. All programs used computerized neuropsychological testing (both baseline and post injury). Two groups were compared: five programs used a clinical neuropsychologist (NP) as the testing consultant and five used …

Attention Is Associated With Postural Control In Those With Chronic Ankle Instability, Adam B. Rosen, Nicholas T. Than, William Z. Smith, Jennifer M. Yentes, Melanie L. Mcgrath, Mukul Mukherjee, Sarah A. Myers, Arthur C. Maerlender

Center for Brain, Biology, and Behavior: Faculty Publications

Chronic ankle instability (CAI) is often debilitating and may be affected by a number of intrinsic and environmental factors. Alterations in neurocognitive function and attention may contribute to repetitive injury in those with CAI and influence postural control strategies. Thus, the purpose of this study was to determine if there was a difference in attentional functioning and static postural control among groups of Comparison, Coper and CAI participants and assess the relationship between them within each of the groups. Recruited participants performed single-limb balance trials and completed the CNS Vital Signs (CNSVS) computer-based assessment to assess their attentional function. Center …

Sandbagging On The Immediate Post-Concussion Assessment And Cognitive Testing (Impact) In A High School Athlete Population, Kathryn L. Higgins, Robert L. Denny, Arthur C. Maerlender

Center for Brain, Biology, and Behavior: Faculty Publications

The Immediate Post-Concussion Assessment and Cognitive Testing (ImPACT) is a computerized neuropsychological test battery commonly used to assess cognitive functioning after a concussion. It is recommended that application of ImPACT utilizes a baseline administration so athletes have an individualized baseline with which to compare post-injury results should they sustain a concussion. It has been suggested that athletes may provide suboptimal effort, called “sandbagging,” in order to return to their baseline cognitive scores, and thus to play, more quickly. This research examines ImPACT baseline scores when high school athletes were asked to attempt to “sandbag,” and compares those scores with scores …

Psychological And Neural Contributions To Appetite Self-Regulation, Luke E. Stoeckel, Leann L. Birch, Todd Heatherton, Traci Mann, Christine Hunter, Susan Czajkowski, Lisa Onken, Paige K. Berger, Cary R. Savage

Center for Brain, Biology, and Behavior: Faculty Publications

Objective: This paper reviews the state of the science on psychological and neural contributions to appetite self-regulation in the context of obesity. Methods: Three content areas (neural systems and cognitive functions; parenting and early childhood development; and goal setting and goal striving) served to illustrate different perspectives on the psychological and neural factors that contribute to appetite dysregulation in the context of obesity. Talks were initially delivered at an NIH workshop consisting of experts in these three content areas, and then content areas were further developed through a review of the literature. Results: Self-regulation of appetite involves a complex interaction …

Pilot Study Of Endurance Runners And Brain Responses Associated With Delay Discounting, Laura E. Martin, Jason-Flor V. Sisante, David R. Wilson, Angela A. Moody, Cary R. Savage, Sandra A. Billinger

Center for Brain, Biology, and Behavior: Faculty Publications

High levels of endurance training have been associated with potentially negative health outcomes and addictive-like symptoms such as exercise in the presence of injury and higher levels of impulsivity. This pilot study examined the relationships among self-report measures of addictive symptoms related to exercise and behavioral and neural measures of impulsivity in endurance runners. We hypothesized endurance runners would have increased preference for immediate rewards and greater activation of cognitive control regions when making decisions involving delayed rewards. Twenty endurance runners (at least 20 miles/week) were recruited to undergo measures of self-report exercise addiction symptoms, impulsive decision-making (delay discounting) and …

Lateral Hypothalamic Activity Indicates Hunger And Satiety States In Humans, Omid Talakoub, Raquel R. Paiva, Matija Milosevic, Marcelo Q. Hoexter, Ruth Franco, Eduardo Alho, Jessie Navarro, Jose F. Pereira Jr., Milos R. Popovic, Cary Savage, Antonio C. Lopes, Pedro Alvarenga, Durval Damiani, Manoel J. Teixeira, Euripides C. Miguel, Erich T. Fonoff, Marcelo C. Batistuzzo, Clement Hamani

Center for Brain, Biology, and Behavior: Faculty Publications

Lateral hypothalamic area (LHA) local field potentials (LFPs) were recorded in a Prader–Willi patient undergoing deep brain stimulation (DBS) for obesity. During hunger, exposure to food-related cues induced an increase in beta/ low-gamma activity. In contrast, recordings during satiety were marked by prominent alpha rhythms. Based on these findings, we have delivered alphafrequency DBS prior to and during food intake. Despite reporting an early sensation of fullness, the patient continued to crave food. This suggests that the pattern of activity in LHA may indicate hunger/satiety states in humans but attest to the complexity of conducting neuromodulation studies in obesity.

Enhancing Soybean Photosynthetic Co2 Assimilation Using A Cyanobacterial Membrane Protein, Ictb, William T. Hay, Saadia Bihmidine, Nedim Mutlu, Khang Le Hoang, Tala Awada, Donald P. Weeks, Thomas Clemente, Stephen P. Long

Center for Plant Science Innovation: Faculty Publications

Soybean C₃ photosynthesis can suffer a severe loss in efficiency due to photorespiration and the lack of a carbon concentrating mechanism (CCM) such as those present in other plant species or cyanobac-teria. Transgenic soybean (Glycine max cv. Thorne) plants constitutively expressing cyanobacterial ictB (inorganic carbon transporter B) gene were generated using Agrobacterium-mediated transformation. Although more recent data suggest that ictB does not actively transport HCO3-/CO2, there is nevertheless mounting evidence that transformation with this gene can increase higher plant photosynthesis. The hypothesis that expression of the ictB gene would improve photosynthesis, biomass production and seed yield in soybean …