Research Focus

 Third Cohort 

Alejandro Hernandez  

Mentor: Dr. Alejandro Calderon-Urrea

Identification of the DNA Sequence Responsible for Chalcone Resistance inC. elegans Using EMS-Based Deep Sequencing Mapping. 

The project will be focused on identifying the DNA sequence responsible for causing resistance to the organic chalcones 17, 25, and 30. These organic chalcones kill C. elegans at very low concentrations and therefore are excellent nematicidal prospects. This project will help us elucidate the molecular and biochemical mechanisms of action for these chalcones.

Alejandro Hernandez Identification of the DNA Sequence

Bianca Hinojosa 

Mentor: Dr. Paul Price

How people respond to their implicit racial bias that is inconsistent with their explicit bias.

People exhibit a sample size bias when judging the average of groups. The larger the group, the greater the judged average—even when the actual average is held constant. Sample size bias has been demonstrated for a variety of stimuli and stimulus dimensions. For example, the judged average of a group of numbers increases as the number of numbers increases (Smith & Price, 2010). Similarly, the judged average size of a group of squares increases as the number of squares increases (Price et al., 2014). Recently, Halliday et al. (2016) found the judged average attractiveness of a group of people increases as the number of people in the group increases. In the previous research on attractiveness, however, the stimulus people were at least moderately attractive.  But we do not know what will happen when the stimulus people are unattractive. For this reason, we are conducting a study to see whether sample affects judgments of the average attractiveness of groups of unattractive individuals. College student participants will judge the average attractiveness of groups of three, six, and nine people—including groups of men and groups of women—who are either very attractive, moderately attractive, or unattractive. For groups of very and moderately attractive individuals, we expect to see a sample size bias with larger groups being judged to be more attractive on average. For groups of unattractive individuals, larger groups may also be judged to be more attractive on average, which would be consistent with all our previous research on the sample size bias. However, larger groups of unattractive people may instead be judged to be less attractive on average. This result would have interesting implications for understanding why the sample size bias occurs. For example, it would imply that it does not involve a simple “translation” of larger samples to judgments that are higher on the response scale. 

Christian Monteil

Mentor: Dr. Hwan Youn

Comparative analysis of CRP and Clp in DNA binding and transcriptional activation 

The CRP/FNR superfamily of transcription factors typically function as transcriptional activators. CRP is a transcription factor, in which the ligand cAMP binds, inducing an a conformational shift of the protein. This change in structure allows for the binding of CRP to the specific DNA binding site. Clp is a CRP homolog, binding to the same DNA binding site.However, Clp does not require the binding of a ligand to assume an active conformation, instead, it sustains an active conformation alone. As to why this occurrence takes place is a current topic of research.

 cm_res comp

Kevin Muthima

Mentor: Dr. Qiao-Hong Chen

Chemical modifications for anti-prostate cancer agents.

The American Cancer Society estimates over 161,000 new cases of prostate cancer and about 26,730 deaths from this disease will occur in 2017. There are successful treatments for early-stage prostate cancer, but not for advanced, metastatic castration-resistant prostate cancer. There is a huge difference in the incidence of prostate cancer between Western (120 per 100,000 in Northern America) and East countries (less than 10 per 100,000 in Asia). The significantly increased risk of prostate cancer in the first generation of Asian men relocating to the United States suggests a chemopreventive effect of Asian traditional food. Several dietary natural products have been demonstrated to have potential in treating prostate cancer. However, their moderate potency and poor bioavailability have limited their clinical use.  My research aims to optimize two dietary natural products, Fisetin and Luteolin, through chemical modifications as anti-prostate cancer agents. The specific aim is to define the in vitro potency of the nitrogen-containing derivatives of fisetin and luteolin.

 Kevin Muthima Chemical modifications

Second Cohort

Anthony Waterston

Mentor: Dr. Laurent Dejean

A Method to Assess Reactive Oxygen Species Production in Alveolar Macrophages Exposed to Particulate Matter

There is a well-established link between atmospheric particulate matter with a diameter smaller than 2.5 nm (PM2.5) and adverse health effects. PM2.5 exposure has been associated with reactive oxygen species (ROS)-linked oxidative stress. For the investigation of PM-associated ROS generation, the dichlorofluorescein-diacetate (DCFH-DA) fluorescent probe is applied in a 96-well microplate format to measure relative ROS levels induced in alveolar macrophages. The objective of this study is to establish a method for the detection of ROS production induced in alveolar macrophages in response to PM2.5 samples collected in the areas of Fresno and Claremont, California.

The macrophage-based ROS detection assay standardized in this study is a part of an integrated approach, which involves the chemical characterization of a unique set of PM2.5 samples and the analysis of these PM2.5 samples in both cell-based and cell-free models. The goal of this project is to analyze a collection of 15 PM2.5 samples with the bioassay and to compare the ROS measurements obtained to the chemical composition of the samples. 

Catalina Olea

Mentor: Dr. Laurent Dejean, Chemistry

The Warburg Effect

There is an imbalance of cell death observed in cancer such as in lymphomas. In other words, there is variation in the anti-apoptotic and pro-apoptotic expression levels. The B-cell lymphoma 2 (Bcl-2) family proteins that regulate cell death, it can have a pro-apoptotic or an anti-apoptotic effect. Current studies show that Bcl-2 is overexpressed in cancer patients. Patients that have high levels of Bcl-2 tend to have a resistance to chemotherapy.  Monitoring the expression levels of Bcl-2 in cancer patients is important to provide the most optimal treatment for the patient. The Bcl-2 family protein is localized to the outer membrane of mitochondria. They can be identified by their four domains: BH1, BH2, BH3, and BH4. Members of the Bcl-2 that have an anti-apoptotic response include Bcl-2, Bcl-xL, and Bcl-w. Cancer cells need the energy to survive, their metabolism can be explained by the Warburg effect.

The Warburg effect shows that there is an increase in anaerobic glycolysis vs mitochondrial oxidative phosphorylation. In the 1920s, Otto Warburg observed that cancer cells tend to uptake glucose at high rates compared to normal cells. The consumed glucose is then secreted as lactate instead of being oxidized completely. Tracking the metabolic pathway using the stable isotope Carbon-13 (C-13) will provide a better understanding of cell metabolism. The in vivo labeling of cancer cells (Bcl-2, Bcl-xL) with C-13 glucose will help keep track of the glucose consumption and lactate production. Gas Chromatography-Mass Spectrometry will be used to study changes in the cell metabolic pathway.

Fatima Hidalgo

Mentor: Dr. Ulrike Muller, Biology

On Biomechanics of Suction Feeding

My research project is about the suction feeding of small organisms.  I will build a robotic model of a bladderwort which will aid in studying the suction feeding off that organism.  This model will allow us to see the feeding event at a more reasonable time frame, and also how small the gap can get and still have a successful feeding event.  To better understand the actual feeding event, I have done high-speed filming of a few feeding events of Utricularia praelonga.  Plants in the genus Utricularia are carnivorous plants.

Reo Maynard

Mentor: Dr. David Lent, Biology

On Short-range and Long-range Visual Navigation of Insects

Wood ants (Formica rufa L.) are minuscule creatures, yet navigate in a very large world.  They are among the many ant species that rely chiefly on their sense of vision for navigation in their environment.  Studies have shown that wood ants use the skyline panorama to obtain long-range navigation cues for both returning to a previously-identified location, such as a food source, and for returning to their nest upon completion of the trip.  For short-range navigation, the chief visual cues to the ant come from images that present a relatively unstable image on its retina.  These objects generally are closer to the ant.  As such, as the ant travels past such objects, their orientation changes with respect to the ant’s position.

Reo Maynard On Visual Navigation

First Cohort

Maria Mendoza

Mentor: Dr. Jason Bush, Biology

Neural Stem Cells and Irradiation

Cranial radiotherapy is often used to treat brain tumors; however, cognitive decline has been observed as a consequence of this therapy and there are currently no preventative measures that can be taken to avoid this side effect. Much attention has been centered on functions that are dependent on the hippocampus since multipotent stem cells are concentrated here (Gage 2000). Recent studies show a reduction in the number of neurogenic cells (Monje ML. et al. 2007) and mature neuronal loss in the dentate gyrus portion of the hippocampus (Raber J. et al. 2004; Fan & Weinstein 2007). It has been demonstrated that MNPs that received varying levels of irradiation exert acute and chronic levels of oxidative stress (Limoli CL et al. 2004;2004;2006;2006;2007; Giedzinski E. et al. 2005). I propose to differentiate neural stem cells (NSCs) into neurons, astrocytes, and oligodendrocytes. I will then irradiate the 3 differentiated cell types in addition to the undifferentiated cells at varying levels of irradiation. I will then proceed to evaluate the damage with NMR and various fluorescence microscopy assays. 
The purpose of my project is to address a current gap in scientific knowledge pertaining to how multipotent neural precursor (MNPs) cells are affected after receiving varying levels of irradiation. I believe that the use of mitochondrial protectants might help reduce the damage to both NSCs and differentiated cells after irradiation. The objectives are (a) Grow and differentiate NSCs into neurons, oligodendrocytes and astrocytes, (b) Irradiate the 4 cell types without neuroprotectants and evaluate the damage with a variety of fluorescence microscopy assays and NMR and (c)  Administer neuroprotectants to the 4 cell types and irradiate them and evaluate the damage in the same way as objective 2.

Leslie Dominguez

Mentor: Dr. Mamta Rqwat

On the Biofilm Formation

We are investigating how DTT a reductant and Diamide an oxidation affects biofilm formation on three species of interest, Mycobacterium smegmatis, Candida albicans and Staphylococcus aureus. This study will allow for further understanding of different biofilms and the effects of environmental stresses and provide potential drug targets.

Leslie Dominguez On the Biofilm Formation

Pedro Diaz-Parga

Mentor: Dr. Joy Goto

On the Mechanism of BMAA and its Carbomate Adducts

The environmental neurotoxin beta-Methylamino-L-alanine (BMAA) is considered an etiologic factor in the development of amyotrophic lateral sclerosis (ALS) and ALS-parkinsonism-dementia complex (ALS/PD).  The structural moiety of the non-protein BMAA alone is not able to decisively produce neurotoxicity within the neuronal environment. However, in the presence of bicarbonate (HCO3) BMAA undergoes structural alterations to give two different compounds known as the α-carbamate adduct and the β -carbamate adduct. Of the two adducts formed, the β-carbamate adduct contains the greatest structural similarity to the primary excitatory neurotransmitter, glutamate. Both compounds are elongated chains with an acidic carboxyl group at the opposite end. Based on the similarities of both structures and the ability of the glutamate to bind to the ionotropic receptors (iGluRs) it is highly likely that BMAA and its adducts are also able to affect the iGluR as either partial, full, or biased agonist. Considering the onset of ALS/PD does not occur acutely, but rather, over an extended period, the mechanism by which BMAA exhibits its excitotoxicity effects must be through continual neuronal stress in the neuronal milieu. The lack of acute neurotoxicity suggests the dynamic equilibria between BMAA and its respective adducts are variable during periods of metabolic and neuronal stress. Identification of the primary adduct formed, as well as, how it is affected by various conditions such as pH, metals, and regulatory compounds are important in order to identify a possible mode of action for BMAA in the neuronal environment.

Pedro Diaz-Parga On the Mechanism of BMAA

Randy Espinoza

Mentor: Dr. Jai-pil Choi

Colorimetric Detection of Alkali and Heavy Metals by Crown Ether Functionalized Au25 Clusters

Gold nanoparticles have been well studied over the past century garnering attention within many disciplines finding wide use in applications such as drug delivery, catalysis, and as chemicals sensors. Gold nanoparticles <3 nm like Au25 is a whole new class of nanoparticles which possess rich optical and electrical properties different from their larger cousins. Since their discovery been under constant investigation. Our work focuses on studying fundamental electronic and optical properties of Au25 functionalized with crown ethers and doped with heavy metals. Crown ethers are well known to chelate cations in solution potentially serving as interactive extensions of Au25. Recent findings have led to an unexpected reaction between Au25 and Hg2+. When mercury is introduced to a solution of Au25, a change in its electronic features are observed, which might suggest alterations within the gold core. Our focus is to study the electrical, optical, and physical properties of crown ether functionalized Au25 and AuxHgy clusters by cyclic voltammetry, UV-Vis spectroscopy, and fluorescence.

Randy Espinoza Colorimetric Detection