Physical Sciences and Mathematics Commons^™

Evidence For The Role Of Cyp51a And Xenobiotic Detoxification In Differential Sensitivity To Azole Fungicides In Boxwood Blight Pathogens, Stefanos Stravoravdis, Robert E. Marra, Nicholas R. Leblanc, Joanne Crouch, Jonathan P. Hulvey

Microbiology Department Faculty Publication Series

Boxwood blight, a fungal disease of ornamental plants (Buxus spp.), is caused by two sister species, Calonectria pseudonaviculata (Cps) and C. henricotiae (Che). Compared to Cps, Che is documented to display reduced sensitivity to fungicides, including the azole class of antifungals, which block synthesis of a key fungal membrane component, ergosterol. A previous study reported an ergosterol biosynthesis gene in Cps, CYP51A, to be a pseudogene, and RNA-Seq data confirm that a functional CYP51A is expressed only in Che. The lack of additional ergosterol biosynthesis genes showing significant differential expression suggests that the functional CYP51A in Che could contribute to …

Polymeric Nanoparticles Active Against Dual-Species Bacterial Biofilms, Jessa Marie V. Makabenta, Jungmi Park, Cheng-Hsuan Li, Aritra Nath Chattopadhyay, Ahmed Nabawy, Ryan F. Landis, Akash Gupta, Suzannah Schmidt-Malan, Robin Patel, Vincent M. Rotello

Chemistry Department Faculty Publication Series

Biofilm infections are a global public health threat, necessitating new treatment strategies. Biofilm formation also contributes to the development and spread of multidrug-resistant (MDR) bacterial strains. Biofilm-associated chronic infections typically involve colonization by more than one bacterial species. The co-existence of multiple species of bacteria in biofilms exacerbates therapeutic challenges and can render traditional antibiotics ineffective. Polymeric nanoparticles offer alternative antimicrobial approaches to antibiotics, owing to their tunable physico-chemical properties. Here, we report the efficacy of poly(oxanorborneneimide) (PONI)-based antimicrobial polymeric nanoparticles (PNPs) against multi-species bacterial biofilms. PNPs showed good dual-species biofilm penetration profiles as confirmed by confocal laser scanning microscopy. …

Diversity-Production Relationships Of Fish Communities In Freshwater Stream Ecosystems, Bonnie J. E. Myers, C. Andrew Dolloff, Jackson R. Webster, Keith H. Nislow, Andrew L. Rypel

Environmental Conservation Faculty Publication Series

Aim Ecological relationships between species richness and biomass production are increasingly thought to be pervasive across the globe. Yet, diversity-production relationships have not been explored extensively for freshwater fish communities even though fisheries production provides key services to humans. Our aim was to evaluate the diversity-production relationship of fish communities inhabiting freshwater streams across the Appalachian Mountain range and examine how diversity-production relationships varied across streams possessing different thermal signatures. Location Our study area included 25 freshwater stream ecosystems spanning from Vermont to North Carolina in the United States. Twenty sites were located in Maryland south to Tennessee and North …

Anaerobic Membrane Bioreactors As A Treatment For Wastewater And Biogas Production At University Of Massachusetts Amherst, Marley Norton, Brady Bell, Ariel Fine

Student Showcase

Achieving carbon net neutrality at UMass by the year 2032 would require an unprecedented scale of renovation. However, we stand before an opportunity to set a nationwide standard in college campus sustainability. The usage of water also requires energy, as both are inextricable commodities, high in demand and often non-renewable. The central heating plant (CHP) distributes heat across the 1,400+ acre campus and consumes copious amounts of natural gas. A viable solution to relieving the dominant reliance on non-renewable energy without leaving the CHP as a stranded asset revolves around the implementation of a hybrid low temperature hot water system …

2019 Patterns Around Us Handout, Benjamin Davidovitch, Narayanan Menon, Wayne Kermenski, Jennifer Welborn

Patterns Around Us

This is a FREE two-day program designed for Middle and High School General Science, Biology, Physics, Technology/Engineering teachers. It is funded by the National Science Foundation.Space is limited, so apply soon! Some limited funding is available for overnight stay.

“Science may be described as the attempt to give good accounts of the patterns in nature. The result of scientific investigation is an understanding of natural processes.... Overall, the key criterion of science is that it provides a clear, rational, and succinct account of a pattern in nature....” Massachusetts State Frameworks for Science and Technology.

Participants will explore the processes of …

Food Writing, Carol Ann Connare Ms

Sustainability Education Resources

This advanced writing four-credit course approaches food writing from a news reporting perspective. The Pioneer Valley is home to a network of food producers, from farmers and cheesemakers to brewers and beekeepers. Students will travel into the field to meet people who make and grow what we eat, conducting interviews and collecting information to synthesize into multimedia stories for publication around themes such as health, history, travel, ecology, animal welfare, social change, nutrition, and home cooking. Students will experience the full spectrum of food writing—blogs, magazine articles, personal essays, reviews, recipes, social and cultural commentary—and create stories in a variety …

Investigating Patterns Using Analyzing Digital Images (Adi) Software, Jennifer Welborn, Wayne Kermenski

Patterns Around Us

The mean and variation of a population are easily seen by graphing the number of individuals that have a trait of a given value. In this experiment, we will investigate color variation found in a mealworm population using ADI.

In this investigation, we will use digital images and ADI to measure the increased surface area created by villi located in the small intestines.

Wrinkling Of A Floating Sheet, Narayanan Menon

Patterns Around Us

The objective of today’s work will be to generate wrinkle patterns on very thin polymer films using the forces generated by the surface tension of a water drop. You’ll do a few sizes of water drop and we’ll give you a couple of thicknesses of film. Digital images of the pattern will allow us to make observations of the number and size of the wrinkles generated. We will try to develop an understanding of the dependence of the pattern on the materials used and the forces applied

Branching In Nature, Jennifer Welborn, Wayne Kermenski

Patterns Around Us

No abstract provided.

Wrinkling In Nature, Jennifer Welborn, Wayne Kermenski

Patterns Around Us

This lab experience is separated into four investigative segments:

1. Human saliva and enzymes

2. Osmosis and Dialysis Tubing

3. Analyzing dry and imbibed weights of wrinkled and smooth pea seeds

4. Putting it All Together, What makes Wrinkled Peas?

Overview, Benjamin Davidovitch, Narayanan Menon, Jennifer Welborn, Wayne Kermenski

Patterns Around Us

No abstract provided.

Superhero Robotics, Frank Sup, Brian Umberger, Nick Sawyer

Science and Engineering Saturday Seminars

No abstract provided.

From Planning To Passing: The Amherst, Massachusetts Plastic Bag Ban, Kevin J. Hollerbach

Student Showcase

This case study will detail the background and influences for a plastic bag ban in the town of Amherst, outline the steps taken from planning to passage, and address roadblocks and missteps that may be avoided with the implementation of future bans. It is my hope that this document will not only serve as a guide, but also an inspiration for additional local action in Massachusetts and across the country. No matter what the national political climate or attitude towards environmental issues, local action is always possible, and change is usually easier than you think. Think globally, act locally!

Patterns Around Us Presentation, Benny Davidovitch

Patterns Around Us

No abstract provided.

Supporting New England Communities To Become River-Smart: Policies And Programs That Can Help New England Towns Thrive Despite River Floods, Eve Vogel, Et. Al.

Water Reports

This report aims to help New England’s communities and their residents, as well as the governments thatserve them, to better deal with and adjust to riverfloods. It points to practical policy solutions at federal, state and regional levels that can support NewEngland communities to become what we call river-smart.

2016 Newsletter, Julian Tyson, Kevin Griffith

STEM Education Institute Newsletters

PVSTEMNet Update, Pg. 2

Arsenic Education, Pg. 3-6

UMass Biotech Initiatives, Pg. 7-8

BioTeach Program, Pg. 9

NSTA Award, Pg. 10

Cosmos Course, Pg.11

Humor and Climate, Pg. 12-13

More Cli-Sci Fiction, Pg. 14

Science and Engineering Saturday Seminars, Pg. 15-16

Tuesday Talks, Pg. 17-18

Continent-Wide Survey Reveals Massive Decline In African Savannah Elephants, Michael J. Chase, Scott Schlossberg, Curtice R. Griffin, Philippe J.C. Bouché, Sintayehu W. Djene, Paul W. Elkan, Sam Ferreira, Falk Grossman, Edward Mtarima Kohi, Kelly Landen, Patrick Omondi, Alexis Peltier, S.A. Jeanetta Selier, Robert Sutcliffe

Environmental Conservation Faculty Publication Series

African elephants (Loxodonta africana) are imperiled by poaching and habitat loss. Despite global attention to the plight of elephants, their population sizes and trends are uncertain or unknown over much of Africa. To conserve this iconic species, conservationists need timely, accurate data on elephant populations. Here, we report the results of the Great Elephant Census (GEC), the first continent-wide, standardized survey of African savannah elephants. We also provide the first quantitative model of elephant population trends across Africa. We estimated a population of 352,271 savannah elephants on study sites in 18 countries, representing approximately 93% of all savannah …

Gemini: A Computationally-Efficient Search Engine For Large Gene Expression Datasets, Timothy Defreitas, Hachem Saddiki, Patrick Flaherty

Mathematics and Statistics Department Faculty Publication Series

Background

Low-cost DNA sequencing allows organizations to accumulate massive amounts of genomic data and use that data to answer a diverse range of research questions. Presently, users must search for relevant genomic data using a keyword, accession number of meta-data tag. However, in this search paradigm the form of the query – a text-based string – is mismatched with the form of the target – a genomic profile.

Results

To improve access to massive genomic data resources, we have developed a fast search engine, GEMINI, that uses a genomic profile as a query to search for similar genomic profiles. GEMINI …

Wellspring Waste To Energy Feasibility Study, Andrew Clinton, Emily Hajjar, Frank Nakashian

School of Public Policy Capstones

This study was conducted by the University of Massachusetts Amherst public policy masters students for Springfield based Wellspring Cooperative, a nonprofit focused on cooperative job creation and training. The project assesses three potential scale options for Wellspring in order to use organic material to heat and/or generate electricity to power its hydroponic greenhouse. Though the greenhouse is not constructed as of yet, its source of energy is an important element for Wellspring. Motivations for utilizing organic waste to power the greenhouse are due in part to the influx of food waste sources being diverted due to the new Massachusetts Food …

Syllabus: Sustainable Living: Solutions For The 21st Century, Lena Fletcher

Sustainability Education Resources

In this innovative interdisciplinary course you will work with your peers to research and understand how sustainability in different contexts presents solutions to many problems facing modern society. You will work in teams to investigate, evaluate, communicate, and reflect on the multifaceted challenges associated with natural resource use, food systems, energy, transportation, waste, the built environment, water quality, and climate change. You will also research case studies, debate controversies, assess political and cultural contexts, investigate technological advances, and identify gaps in scientific knowledge. Using these resources, you and your peers will be tasked with developing your own sustainable solutions for …

Gelatin Diffusion Experiment, Jennifer Welborn

Nanotechnology Teacher Summer Institutes

In this activity, nanotech participants will:

- See how food dyes and gelatin are used to model the delivery of nanoscale medicines to cells in the human body - Measure diffusion distances of 3 different colors of food dye by: Eye, photo image on a computer, ADI software (Analyzing Digital Images) Some useful websites:

• http://www.echalk.co.uk/Science/biologyContent.htm Life Processes and Cells
• http://workbench.concord.org/database/activities/321.html Molecular Workbench Database. Diffusion, osmosis, ...

Powers Of Ten: From Meters To Nanometers And Beyond, Rob Snyder

Nanotechnology Teacher Summer Institutes

The goal of this activity is to guide students toward an understanding of nanoscale dimensions by:

• Making a number of measurements using meter sticks, magnifiers, microscopes and spectrometers so students can make observations and generate their own data.

• Using scientific notation to compare the measurements they have made with the dimensions of very small structures

Robust Optimization Of Biological Protocols, Patrick Flaherty, Ronald W. Davis

Mathematics and Statistics Department Faculty Publication Series

When conducting high-throughput biological experiments, it is often necessary to develop a protocol that is both inexpensive and robust. Standard approaches are either not cost-effective or arrive at an optimized protocol that is sensitive to experimental variations. Here, we describe a novel approach that directly minimizes the cost of the protocol while ensuring the protocol is robust to experimental variation. Our approach uses a risk-averse conditional value-at-risk criterion in a robust parameter design framework. We demonstrate this approach on a polymerase chain reaction protocol and show that our improved protocol is less expensive than the standard protocol and more robust …

Wrinkling In Buckling And A Thin Sheet, Narayanan Menon

Patterns Around Us

Module 1: Euler Buckling

Learning Objectives:

• What is an instability? A sudden change in behaviour in response to a small change in conditions.

• Instabilities usually involve a change in symmetry from a more symmetric situation to a less symmetric one

• The mechanism for an instability usually involves two competing forces (one force stabilizing the symmetric state, and the other one destabilizing it), with one suddenly winning the contest

• These competing forces in thin objects are often the forces of compression (destabilizing force - favors buckling or wrinkling) and of bending (stabilizing force).

Understanding by data collapse, the power of using …

The Potential For Restoration Of Tan Brook, An Urban Headwater Stream In Amherst, Massachusetts, Alison Tenhulzen, Alyssa Black, Robert F. Smith

Research

The goal of the Tan Brook Student Conservation Group is to educate undergraduate students at the University of Massachusetts Amherst about freshwater sustainability. to accomplish this, the group will act to provide opportunities in original research, applied field and laboratory methods, and outreach. The initial goal for the group will be a collaborative project describing the ecological, historical, and social significance of the Tan Brook, which will result in an informative website and educational signage located at several locations in the town of Amherst and on University property where the Tan Brook enters campus. Ultimately, the group will contribute to …

Brief Analysis Of The Tan Brook Watershed In Amherst, Massachusetts, Andrew Mckenna, Robert F. Smith

Research

The Tan Brook is a small 3.91 square kilometer watershed that runs through and encompasses the highly urbanized areas of Amherst, MA. It is part of the Connecticut River basin and the Mill River sub-basin. In order to meet the high demands of the local middle and high school, and heavy runoff from high amounts of impervious cover from downtown Amherst and the University of Massachusetts, the Tan Brook has been highly culverted.

Qualitative And Comparative Analysis Of Stormwater Management In The Tan Brook Watershed, Natalia Von Hausen, Robert F. Smith

Research

The Tan Brook Watershed is both a daylighted and diverted underground stream that runs through the Town Center of Amherst and the campus of UMass Amherst. Various stormwater management practices have been used to infiltrate stormwater runoff from streets, lots, buildings and/or vehicles. These systems are custom-designed relative to the surrounding permeability of the soil, vegetation and geographical topography. Some systems have higher success rates than others.

Resin Volatiles Of Eastern Hemlock Induced By Its Non-Native Herbivores, Joshua D. Pezet

Masters Theses 1911 - February 2014

Eastern hemlock (Tsuga canadensis) is in decline because of infestation by the invasive hemlock woolly adelgid (Adelges tsugae; ‘HWA’) and, to a lesser extent, the elongate hemlock scale (Fiorinia externa; ‘EHS’). Many conifers respond to insect herbivory by inducing oleoresin-based defenses, however it is unknown whether eastern hemlock is capable of this inducible response. We conducted a plantation setting study of artificially infested saplings to determine if feeding by HWA or EHS induces changes in the tree’s volatile chemistry. The induced changes in volatiles we found were unlike the terpenoid-based defenses of related conifers. Only HWA feeding …

Habitat Heterogeneity Concentrates Predators In The Seascape: Linking Intermediate-Scale Estuarine Habitat To Striped Bass Distribution, Cristina Kennedy

Masters Theses 1911 - February 2014

Predators are key components of aquatic ecosystems and innovative approaches to understanding their spatial distribution are imperative for research, effective management, and conservation. Discontinuities, created by abrupt changes between two unlike entities, are irregularly-distributed, intermediate-scale features that can have a disproportionate effect on organismal distribution within the seascape. Here I use the discontinuity concept to relate the distribution of a predator, striped bass (Morone saxatilis), to physical features within Plum Island Estuary (PIE), MA. I mapped the distribution of 50 acoustically-tagged striped bass during four monthly surveys at 40 sites to evaluate if heterogeneity in physical features concentrated …

Diving Behavior And Identification Of Sex Of Breeding Atlantic Puffins (Fratercula Arctica), And Nest-Site Characteristics Of Alcids On Petit Manan Island, Maine, Sarah M. Spencer

Masters Theses 1911 - February 2014

During 2008 – 2009, we quantified foraging behavior of adult Atlantic puffins (Fratercula arctica) by deploying time-depth recorders (TDRs) on 18 adults and collected morphological measurements from 40 adults nesting on Petit Manan Island, Maine. Dive data were successfully retrieved from 5 birds foraging for 14 days in 2008, and 8 birds foraging for 18 days in 2009. Pooling across all birds, a total of 8,097 dives were recorded, with peaks in activity during 0400-0800 and 1600-2000, and no diving between 2100 and 0400. Mean (± SD) dives/bird/day was 276.4 (± 84.7), with dives grouped into bouts lasting …