(Cancer Biology, Signal Transduction, Therapeutics) Deregulation of phosphatases during pancreatic and lung cancer progression; Therapeutic activation of phosphatases as a strategy to suppress oncogenesis; In vivo mouse models of cancer
Detection of viable foodborne pathogens using bateriophage; automated
extraction of nucleic acids from various matrices; enumeration of
microorganisms (i.e. pathogens and other organisms) using quantitative
PCR; the use of bioreporters in bioelectronics; metabolic engineering;
detection of problematic microorganisms in industrial environments;
construction of recombinant bacterial strains to rapidly evaluate
antimicrobial products; microbial ecology.
“In our research group, our interests lie at the interface between behavior, evolution and ecology. We focus on understanding two related, but different ecological topics: i) how natural enemies shape animal communication systems, and ii) how novel, anthropogenic enemies affect those communication systems and, more generally, the distribution and abundance of species. We investigate anurans (frogs and toads) that provide ideal opportunities to understand these phenomena. Due to their highly vocal behavior, and their central role in trophic networks, they are at the core of many communication networks where eavesdropping predators are common. Frogs and the enemies that exploit their signals thus provide a robust, tractable system to address questions about signal function and evolution. In addition, anurans are the taxonomic group with the highest proportion of species threatened with extinction. We thus aim to understand their responses to novel, anthropogenic challenges such as traffic noise, habitat fragmentation and introduction to new locations. Learn more about our current work at our lab’s website: https://bernal-lab.weebly.com/.
We are also committed to broadening participation in science. We are involved in developing and supporting efforts to increased participation of scientists from historically marginalized groups. We actively support undergraduate and graduate education efforts to promote inclusion and equity. Our lab is an inclusive, diverse environment where we are all appreciated and given a chance to fully participate as our authentic selves.”
I am a molecular ecologist and evolutionary biologist. Much of my research focuses on conservation genetics, kinship and parentage analyses, gene expression, and population genetics. Whenever possible, I enjoy developing or adapting theoretical approaches to address applied questions.
Janice"s vigorous research program investigates the underlying molecular mechanisms that insure correct mammalian development with special attention given to understanding how the mammalian embryo inherits the appropriate amount of DNA through sperm-egg interactions and throughout the oocyte"s progression through meiosis.
1) Revealing and improving student competence with the analysis and graphing of biological data, 2) Characterizing and improving student mechanistic reasoning about biological phenomena, 3) Evaluating the influence of differential scaffolding on student evidentiary reasoning, and 4) Evaluating the long-term impact that research-based introductory biology lab experiences have on biology students
(Computational Genomics & Systems Biology; Bioinformatics) Computational analysis of biological systems and the macromolecular components that they comprise. My interests range from the evolution, structure and function of macromolecules, to the biological networks that control and integrate the development and function of cells. Active research projects as of 2021 include structure and function of long non-coding RNA, application of machine learning approaches to understanding non-coding RNA structure and function, and genomic/transcriptomic/metagenomics study of diverse systems. Some specific recent projects include g include investigation of Cd resistance in soil fungi and Cacao, gene expression during fruit maturation in Avocado, differential expression of genes and microRNAs in several tumor types, and development of new methods for predicting micropeptide coding frames and internal ribosome entry sites.
My primary teaching responsibilities are the Fundamentals of Biology I and II series for non-biology majors. I was trained as a cell/molecular biologist and my research focus was the molecular biology of cancer. During the summer semester I teach Biology I: Diversity, Ecology, and Behavior, and BIOL III: Cell Structure & Function.
(Cryo-EM, structural biology, biophysics, and computational biology) Structures of viruses, protein complexes, nano-particles; Structure based drug discovery; D
evelopment of cryo-EM methods
including stablization of protein conformations, affinity grids, TEM alignment, data collection automation, and image processing/3D reconstruction algorithms
(Bioinformatics, computational biology) protein tertiary structure prediction/comparison, protein-protein docking, protein-ligand docking, protein function prediction, protein sequence analysis, metabolic/regulatory pathway analysis.
Dr. Lindemann leads the Diet-Microbiome Interactions Laboratory, which studies the underlying ecological principles by which microbial communities consume complex substrates (i.e. polysaccharides). Specifically, the D-MIL seeks to uncover how distinct dietary fibers shape gut microbiome community structure and metabolism, identify mechanisms by which gut microbiota influence human metabolism and inflammation, elucidate ecological principles governing microbial interactions in competition for oligosaccharides and polysaccharides, and identify control points by fiber structures can be used to shape microbiota towards health. In addition, the laboratory also aims to examine division of microbial labor in consumption of polysaccharides in the gut and the environment.
Cardiovascular disease is a growing problem worldwide and the leading cause of death in the United States. Phospholipase C (PLC) enzymes, in particular PLCβ and PLCε, are essential for normal cardiovascular function. These proteins generate second messengers that regulate the concentration of intracellular calcium and the activation of protein kinase C (PKC). Dysregulation of calcium levels and PKC activity can result in cardiovascular diseases and heart failure. PLCβ is regulated principally via interactions with the heterotrimeric G protein subunits Gαq and Gβγ. Much less is known about the regulation and activation of PLCε. PLCε integrates and amplifies signals generated by tyrosine kinase receptors and G protein-coupled receptors via small GTPases such as Ras, Rho, and Rap.
My lab uses an innovative combination of X-ray crystallography and cryo-electron microscopy to gain structural insights into PLC regulation and activation. Structure-based hypotheses are validated through functional assays, and ultimately cell-based and whole animal studies. A long-term interest is the development of small molecule modulators to regulate PLCε function. These studies will aid in the identification and development of novel chemical probes that could be used to study and potentially treat cardiovascular disease.
(Biochemistry, Signal Transduction, and Microbiology) Investigation of Fic domain containing proteins in Cellular Signaling.
Post-translational modification of proteins is a common theme in signal transduction.
The immune system is comprised of a variety of cell types that work in a highly organized fashion to protect the body from infection and minimize tumor formation. This organizational process is largely carried out by the adaptive immune system with CD4
T helper (Th) cells acting to trigger inflammation during infection and also suppress unwanted immune responses to non-harmful stimuli (i.e. allergens, food or normal body microflora). The dual nature (i.e. activator and suppressor) of Th cells is possible due to their unique ability to sense the environment and change their function based on these environmental cues.
Autoimmune disease occurs when the balance between the inflammatory and regulatory functions of Th cells is disrupted, resulting in excess inflammation that alters physiological processes. Inflammatory bowel disease (IBD) and graft-versus-host disease (GVHD) are two forms of intestinal autoimmune disease and are characterized by the accumulation of highly reactive inflammatory T cells in the intestines. However, the exact mechanisms by which inflammatory Th cells arise during inflammation and cause disease are unclear.
In the Olson lab, our goal is to better understand how CD4
T helper cells drive intestinal inflammation by addressing these key questions:
1) What signals drive the generation of pathogenic/inflammatory Th cells in the intestines?
2) How do pathogenic/inflammatory T helper cells contribute to disease?
3) Can we therapeutically target factors that drive the generation of pathogenic T helper cells or their functional byproducts to eliminate or reduce disease?
My laboratory uses a combination of cell and molecular biology approaches to examine signaling pathways associated with T helper cell differentiation. We also utilize pre-clinical models of disease, and high throughput culturing and RNA/protein profiling techniques to identify disease mechanisms and novel mediators of inflammation.
My research focuses on elucidating biogeographic and evolutionary mechanisms of biodiversity patterns in the context of global change, notably biological invasions and climate change. Using interdisciplinary approaches across the fields of biogeography, ecology, evolution, and data science, my work explores multiple facets of past, present, and future biodiversity to address the grand challenge of mitigating anthropogenic influence on the world"s ecosystems.
Research in my lab focuses on elucidating the neural mechanisms underlying sensory perception, sensory-guided behavior, and sensorimotor loops. We use cutting-edge optogenetic, neurophysiological, viral tracing and behavioral tools to probe the functional connectivity of neural circuits underlying sensation and action.
(Structural biology; computational chemistry and biology) Signal transduction; viral protein structure and function; molecular recognition; enzymatic catalysis; protein dynamics; NMR structure determination.
Our lab works on functional morphology and biomechanics using a combination of approaches such as 3D imaging, biomechanical performance testing, and comparative studies across species. To that end, we tend to work on bony fishes to better understand connections between form, function, and evolution. Our group values diverse opinions, cultures, and backgrounds and believes that inclusive and diverse groups create more supportive and effective work environments. If you have any interest in our lab or work, please reach out!
My interests are focused on instructional/learning design models and the use of technology to facilitate immersive authentic science learning experiences. My research centers on applied instructional/learning design theories within K-12 STEM classrooms and the role technology plays in collaborate scientific investigations.