Life Sciences Commons^™

What Forests Teach Us About Community, Paige E. Copenhaver-Parry

Faculty Publications - Department of Biological & Molecular Science

Each spring, I have the privilege of witnessing the miracle of new life as seeds that have buried themselves in the soil over the winter sprout roots, shed their papery coats, and stretch their bright green needles up toward the sun. My students and I spend weeks crawling across the forest floor – bellies, knees, and elbows scraping through the rich humus – as we identify, count, and measure hundreds of newly emerged conifer seedlings. Some of these seedlings will eventually grow into some of the largest trees in the world, but for now they stand scarcely two inches tall.

Taking Temperature With Leaves: A Semester-Long Structured- Inquiry Research Investigation For Undergraduate Plant Biology, Paige E. Copenhaver-Parry

Faculty Publications - Department of Biological & Molecular Science

Inquiry- and course-based research pedagogies have demonstrated effectiveness for preparing undergraduate biology students with authentic scientific skills and competencies, yet many students lack the experience to engage successfully in open-ended research activities without sufficient scaffolding and structure. Further, curricula for student-centered laboratory activities are lacking for several biological disciplines, including plant biology and botany. In this article, I describe a semester-long structured-inquiry research curriculum developed for a plant biology course taught to second-year biology students that integrates key elements of inquiry and discovery while providing a structured approach to gaining research skills. In the research project, students collect leaves from …

The Allometry Of Daily Energy Expenditure In Hummingbirds: An Energy Budget Approach, Anushu Shankar, Donald R. Powers, Liliana M. Dávalos, Catherine H. Graham

Faculty Publications - Department of Biological & Molecular Science

1. Within-clade allometric relationships represent standard laws of scaling between energy and size, and their outliers provide new avenues for physiological and ecological research. According to the metabolic-level boundaries hypothesis, metabolic rates as a function of mass are expected to scale closer to 0.67 when driven by surface-related processes (e.g. heat or water flux), while volume-related processes (e.g. activity) generate slopes closer to one.

2. In birds, daily energy expenditure (DEE) scales with body mass (M) in the relationship log (DEE)=2.35+0.68×log (M), consistent with surface-level processes driving the relationship. However, taxon-specific patterns differ from the scaling slope of all birds. …

Salamander Stress And Duress: The Relationship Between Cort, Autotomy And Regeneration, And Exploratory Behaviour, Aaron M. Sullivan, Jacquelyn L. Lewis

Faculty Publications - Department of Biological & Molecular Science

Responses to stress are generally mediated through the production of glucocorticoids by the hypothalamic-pituitary-adrenal (or -interrenal) axis. The prolonged production of stress hormones can contribute to delayed wound healing and growth, but little is known about their influence on regeneration following tail autotomy, or exploratory behaviour in autotomized individuals. Here we examined the relationship between stress, re-generation, and exploratory behaviour in Allegheny Mountain dusky salamanders (Desmognathus ochrophaeus) by manipulating corticosterone (CORT) levels via cutaneous patch. First, we measured tail regeneration in salamanders with elevated CORT for 13 weeks after the induction of tail autotomy. Test subjects received a weekly patch …

Evaluating Volatile Organic Compound Emissions From Cross-Laminated Timber Bonded With A Soy-Based Adhesive, Michael Yauk, Jason Stenson, Micah T. Donor, Kevin Van Den Wymelenberg

Faculty Publications - Department of Biological & Molecular Science

Volatile organic compound (VOC) emissions from indoor sources are large determinants of the indoor air quality (IAQ) and occupant health. Cross-laminated timber (CLT) is a panelized engineered wood product often left exposed as an interior surface finish. As a certified structural building product, CLT is currently exempt from meeting VOC emission limits for composite wood products and confirming emissions through California Department of Public Health (CDPH) Standard Method testing. In this study, small chamber testing was conducted to evaluate VOC emissions from three laboratory-produced CLT samples: One bonded with a new soy-based cold-set adhesive; a second bonded with a commercially …

Protonation Isomers Of Highly Charged Protein Ions Can Be Separated In Faims-Ms, J. Diana Zhang, Micah T. Donor, Amber D. Rolland, Michael G. Leeming, Huixin Wang, Adam J. Trevitt, K.M. Mohibul Kabir, James S. Prell, William A. Donald

Faculty Publications - Department of Biological & Molecular Science

High-field asymmetric waveform ion mobility spectrometry-mass spectrometry (FAIMS-MS) can resolve over an order of magnitude more conformers for a given protein ion than alternative methods. Such an expansion in separation space results, in part, from protein ions with masses of >29 kDa undergoing dipole alignment in the high electric field of FAIMS, and the resolution of ions that adopt pendular vs free rotor states. In this study, FAIMS-MS, collision-induced dissociation (CID), and travelling wave (TW) IMS-MS were used to investigate the pendular and free rotor states of protonated carbonic anhydrase II (CAII, 29 kDa). The electrospray ionization additive 1,2-butylene carbonate …

Increasing Collisional Activation Of Protein Complexes Using Smaller Aperture Source Sampling Cones On A Synapt Q-Im-Tof Instrument With A Stepwave Source, Jesse W. Wilson, Micah T. Donor, Samantha O. Shepherd, James S. Prell

Faculty Publications - Department of Biological & Molecular Science

Quadrupole-ion mobility-time-of-flight (Q-IM-TOF) mass spectrometers have revolutionized investigation of native biomolecular complexes. High pressures in the sources of these instruments aid transmission of protein complexes through damping of kinetic energy by collisional cooling. Since adducts are removed through collisional heating (declustering), excessive collisional cooling can prevent removal of non-specific adducts from protein ions, leading to inaccurate mass measurements, broad mass spectral peaks, and obfuscation of ligand binding. We show that reducing the source pressure using smaller aperture source sampling cones (SC) in a Waters Synapt G2-Si instrument increases protein ion heating by decreasing collisional cooling, providing a simple way to …

Rapid Determination Of Activation Energies For Gas-Phase Protein Unfolding And Dissociation In A Q-Im-Tof Mass Spectrometer, Micah T. Donor, Samantha O. Shepherd, James S. Prell

Faculty Publications - Department of Biological & Molecular Science

Ion mobility-mass spectrometry has emerged as a powerful tool for interrogating a wide variety of chemical systems. Collision-induced unfolding (CIU), typically performed in time-of-flight instruments, has been utilized to obtain valuable qualitative insight into protein structure and illuminate subtle differences between related species. CIU experiments can be performed relatively quickly, but unfolding energy information obtained from them has not yet been interpreted quantitatively. While several methods can determine quantitative dissociation energetics for small molecules, clusters, and peptides, these methods have rarely been applied to proteins, and never to study unfolding. Here, we present a method to rapidly determine activation energies …