Research Experiences for Undergraduates in Integrative and Evolutionary Biology
- 2017 participants have been selected for this summer's REU program. The summer 2018 REU program will begin accepting applications in late fall 2017.
The Program: The University of Massachusetts Boston, located on Boston Harbor, offers a 10-week summer program for biology majors, sponsored by the National Science Foundation: Research Experiences for Undergraduates in Integrative and Evolutionary Biology. Students carry out exciting research projects and participate in many enrichment activities. Each student works on a research team under the guidance of a faculty advisor. Close mentoring relationships and participation in a community of scientists engaged in research are key parts of the experience.
The program stresses the integration of diverse fields of biology, demonstrating common themes across the biological sciences and especially the connections between cell and molecular biology on the one hand and ecology and conservation biology on the other. Student research projects span an array of biological problems, and students are paired with faculty mentors based on mutual scientific interests. The program helps students learn how research is done—students learn valuable skills and develop independence in their projects.
Students also participate in enrichment activities that promote a sense of community among students and faculty, teach scientific communication skills, and explore broader issues concerning the practice of science. These experiences occur during weekly discussions and workshops that focus on practical, personal, and ethical aspects of research. The program also features social activities and field trips in and around Boston Harbor, including a 3-day retreat at our Nantucket Island Field Station. The program ends with a research poster symposium. The program stimulates and supports interest in biological research, prepares students for advanced study, and equips students to pursue research careers.
Stipend: Participants receive a $8,100 for the 10-week period, which includes a stipend of $5,500, plus a room and board allowance of $2,600. Students can also apply for reimbursement for travel expenses to and from Boston.
Program Dates: The program runs from June 5 to August 11, 2017.
The Campus: The University of Massachusetts Boston is located south of downtown Boston on a peninsula extending into scenic Boston Harbor. The 17,000-student campus shares the peninsula with the John F. Kennedy Presidential Library and Museum and the new Edward M. Kennedy Institute for the United States Senate. The UMass Boston Biology Department consists of 28 full-time faculty; graduate students working toward MS and PhD degrees; and undergraduate students. The department is housed in the newly built, state-of-the-art Integrated Sciences Complex. The resources of the department and the university—recreational facilities, library, computer facilities, and Campus Center are available to participants.
Eligibility: Applicants must be U.S. citizens or permanent residents and must be enrolled in college for fall 2017. Students who will graduate before then are not eligible to apply. Applicants should have completed at least one semester of college-level biology. The program is a 10-week, full-time experience.
We aim to recruit a diverse student group. Individuals from the following groups are especially encouraged to apply:
- Members of minority groups underrepresented in science.
- Students from colleges and universities with limited opportunities for research.
- Students from disadvantaged backgrounds, that is, first-generation college students and/or students from low-income families.
- Veterans of the U.S. Armed Forces
Housing: Participants will be responsible for making their own housing arrangements. While there is no on-campus housing, apartments and rooms are widely available near the campus. Assistance in finding housing is available through the REU program assistant. Note that unofficial transcripts are acceptable for the application.
Questions regarding the program and application process should be sent to:
Department of Biology
University of Massachusetts Boston
Boston, MA 02125-3393
Tel 617.287.6649, Fax 617.287.6650
The following research opportunities are available:
Marine community biodiversity and ecosystem function: Our oceans provide a wide variety of valuable ecosystem services. Jarrett Byrnes’ lab seeks to understand how human activities have changed the diversity and function of ocean ecosystems. The lab works in intertidal salt marshes and subtidal kelp forests. Students will either work in 1) marshes, attempting to understand the role of different species in regulating salt marsh ecosystem health and function, or 2) kelp beds in Salem Sound, attempting to understand the forces that structure subtidal ecosystems. Work in the salt marsh project will require extensive time outdoors in salt marshes as well as traveling to sites ranging from Cape Cod to Maine. Students interested in subtidal work must have AAUS scientific diver training or equivalent.
Ecology and evolution of birds in urban environments. Human disturbances are influencing the patterns of biological diversity in ways that are only beginning to be explored. This is particularly relevant in the face of urbanization where large swathes of natural environments are being altered by the development of human settlements and introduction of novel ecological resources. Luis De Leon's lab studies how the introduction of novel ecological resources and habitat modification can affect bird populations in urban environments. REU students in this group will conduct field surveys along urbanization gradients to explore questions regarding the ecological and evolutionary consequences of urbanization on local bird communities.
Marine Community Ecology: Research in Ron Etter’s lab is exploring how benthic (competition, predation, etc.) and pelagic (oceanography, dispersal) processes interact to control the structure, dynamics and function of marine communities. We are currently investigating how ocean currents influence larval dispersal and connectivity among populations in the Gulf of Maine. Understanding how populations are connected through dispersal is vital to address a variety of contemporary questions in marine ecology, evolution, coastal management and conservation, and will play a crucial role in predicting how organisms might respond to ongoing anthropogenic stressors such as climate change. Students could be involved in any aspect of this research, which includes species discrimination through genetic analysis, trace-element fingerprinting using laser ablation mass-spectrometry, laboratory algal culturing, bivalve rearing and field experiments. REU students will have an opportunity to explore a variety of ecological questions at different geographic scales in both laboratory and field settings.
Bacterial cell cycle and signal transduction: Katherine Gibson’s lab studies regulation of the bacterial cell cycle. The model organism is a nitrogen-fixing symbiont, Sinorhizobium meliloti, which is able to infect plant roots. It carries out a different cell cycle program once it has invaded its eukaryotic host compared to when it is free-living. The lab group seeks to understand why the cell cycle is different inside the host: How does it help symbiosis happen? And how does the bacteria know how to change its cell cycle once it is inside the host? The lab uses the tools of microbiology, molecular genetics, cell biology and biochemistry to understand a signal transduction pathway that regulates the cell cycle. REU students will create cell cycle mutants using molecular genetics tools such as PCR, DNA cloning, and conjugation; or characterize mutants using bacterial motility assays, RT-PCR, Western blots, microscopy, and fluorescence flow cytometry.
Control of cellular organization: The internal architecture of a cell reflects the specific properties of the cell type. Linda Huang's group explores how signal transduction processes are used for spatial and temporally regulation of cellular organization. The lab studies spore morphogenesis in the model organism Saccharomyces (budding yeast), to examine how membrane shape and size are regulated, and to determine how the events that happen during meiosis are coordinated. REU students are involved in ongoing projects, which typically exposes students to various molecular biological, biochemical, genetic, and/or microbiological techniques.
Genome Organization and Molecular Evolution: Rick Kesseli’s lab combines field and greenhouse experiments with molecular biology and genetics to investigate rapid evolutionary changes, aka “genetic revolutions” and epigenetic alterations that influence the adaptation and fitness of species. Comparative genomic approaches identify the genes and the footprint of natural selection or epigenetic patterns within genomes, adaptive traits, the underlying genetic and molecular bases of phenotypic changes, and the drivers of these changes. Analysis of recent shifts in breeding systems, host-microbe (both pathogenic and commensal) interactions, and biological invasions are examples of REU student projects in this lab.
Mesenchymal cell plasticity: Jill Macoska's lab studies how cells of mesenchymal lineage demonstrate plasticity in response to environmental stimuli. In particular, the laboratory studies how fibroblastic cells can assume either progenitor-like phenotypes or more differentiated phenotypes in response to the tissue microenvironment, a phenomenon knows as myofibroblast phenoconversion. Using human cells in culture and mouse models, REU students will employ molecular and cellular biology techniques to examine these cellular changes.
Organ regeneration in amphibians: Catherine McCusker's group studies limb regeneration in the amphibian model, the Mexican axolotl. The lab uses molecular and classical embryological methods to study changes that occur in adult amphibian cells as they contribute to the regenerating limb structure, and how cells communicate information about the "blueprint" of the missing structure. REU students will characterize changes in chromatin structure in cells that contribute to the regenerating limb in order to uncover the genetic regulation pathways that drive the regenerative process.
DNA Damage Repair and Mutagenesis: DNA is routinely damaged by multiple sources including sunlight, free radicals and natural metabolites. However, multiple DNA repair processes in the cells ensure that DNA damage is corrected. Shailja Pathania's lab studies these intricate pathways with special focus on proteins that are required for efficient repair of stalled replication forks. During DNA replication, if the replication fork encounters a DNA adduct (a form of "road block"), it stalls. Unrepaired stalled forks tend to break DNA- a kind of genomic insult that is a precursor to mutagenesis and genomic instability. Students joining the lab will use molecular and cell biology techniques including immunofluorescence microscopy to study different kinds of DNA damage repair pathways and analyze the role of specific proteins in repairing such damage in human cells. They will also join projects which aim to study the effect of DNA damaging agents in mouse models.
Computational biology and functional genomics: Todd Riley's research group uses bioinformatics tools to study mechanisms of transcriptional and translational gene regulation. The lab also studies how those mechanisms can go awry in the presence of epigenetic and genetic changes. Another focus is on building biophysical sequence-to-affinity models of protein-DNA and protein-RNA interactions. These affinity models are used in a systems biology approach to find markers of gene regulatory phenotypes. Projects that REU students will participate in include analysis of single nucleotide ploymorphisms (SNPs) to find functional binding sites, and analysis of RNA-seq data to identify differentially expresses genes.
Neurobiology of color vision: Color vision is an excellent model system to elucidate how organisms detect environmental stimuli and transform them into neuronal signals that are interpreted by the brain. Jens Rister's group studies the development of color-sensing photoreceptors in the fly Drosophila melanogaster in order to understand how the variety of sensory neuron types is generated in the nervous system. Similar to cone photoreceptors in the human retina, flies have distinct photoreceptor types that contain different color-sensing pigments. REU students will visualize the expression of color-sensing pigments in the retina and will participate in a genetic screen for novel regulators that control their expression.
Molecular microbial ecology: Michael Shiaris’ lab group studies genetic diversity and the roles of bacteria and yeast in the environment. REU fellows will conduct research in one of two areas: 1) the microbiome of the Eastern oyster, Crassostrea virginica, or, 2) the ecology of natural CRISPR-Cas systems of Enterococcus bacteria in the environment. Enterococci are normal residents of the healthy human gut, but they can also thrive outside the intestines in nature. Because of their ability to readily exchange genes with other bacteria, they can also cause serious diseases by adding functions such as virulence and multiple antibiotic resistance to their repertoire of activities. CRISPR-Cas, an acquired immune system of bacteria, can block such gene exchange but protect them from bacteriophage. Students will design experiments for the laboratory or field to answer questions about the dynamics of their CRISPR systems. They will learn and use microbiological, molecular, next generation sequencing, and bioinformatics methods to address these questions.
Developmental Genetics in Zebrafish: Kellee Siegfried’s lab uses the zebrafish to uncover genes and signaling networks important for germ cell development and function. To identify such genes, the lab studies mutant zebrafish that lack germ cells. By characterizing how these mutations lead to loss of germ cells, they are dissecting the genetic regulation underlying germ cell development. A second project focuses on sex determination. The group studies genes that guide development of either ovary or testis, thereby controlling the sexual fate of the animal. They are working towards understanding how these genes regulate this critical fate choice. Projects that REU students will participate in will include techniques such as PCR, molecular cloning, analysis of next generation sequence data, histology and zebrafish husbandry.
Biodiversity and Ecoinformatics: Biodiversity studies are inherently important in ecology and play a central role in conservation biology for issues such as climate change and invasive species. Rob Stevenson’s lab works on a variety of organism groups including plants, turtles, alewives, ants, butterflies, and other invertebrates. In addition to the basic observational and survey data, students are developing information technologies to enable scientists and naturalists to make their own digital field guide (Electronic Field Guide project) and archive their data for education and citizen science applications. Students this year will become involved in a drone mapping project.
Cell signaling in Drosophila: Alexey Veraksa's lab uses Drosophila melanogaster as a model to investigate mechanisms of cell signaling during development. The group utilizes genetic, biochemical, and cell biological approaches, as well as proteomics, to characterize the functions of protein complexes participating in signaling events. REU students will participate in current studies that focus on how the Hippo and receptor tyrosine kinase signaling pathways control organ growth and tissue patterning, and how G protein–coupled receptor signaling guides tissue folding and other morphogenetic events.
Probiotics and amphibian disease ecology: Emerging infectious diseases of amphibians are causing extinction and population declines of amphibians on a global scale. Research in the lab of Doug Woodhams' focuses on probiotic therapy, or beneficial bacteria, as a method to counteract skin infections by the chytrid fungus. REU projects in this laboratory explore the interactions between amphibian host immunity, symbiotic bacteria, and pathogens with a combination of field sampling and laboratory experiments.