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Investigating The Role Of Wolbachia Endosymbionts In The Expansion Of The F Element In Drosophila Ananassae, Elizabeth J. Chen 2015 Washington University in St Louis

Investigating The Role Of Wolbachia Endosymbionts In The Expansion Of The F Element In Drosophila Ananassae, Elizabeth J. Chen

Undergraduate Theses—Unrestricted

At 4.2 Mb overall, the Drosophila melanogaster Muller F element (dot chromosome) is an unusual autosome; it is broadly heterochromatic, but the distal 1.3 Mb has a gene density and expression pattern similar to other autosomes. More intriguing is the large expansion of the D. ananassae F element (~20 Mb). Elucidating the factors that contribute to this expansion could improve our understanding of how heterochromatic domains are maintained and amplified.

Previous analyses show that the lateral gene transfer (LGT) of Wolbachia (the most widespread intracellular bacteria in the Rickettsiales order) into the D. ananassae genome is an important ...


Deciphering The Functional Collaboration Of Mid And Bric-A-Brac 2 As Potential Regulators Of Cellular Proliferation Within Adult Drosophila Ovaries, Petra Visic 2015 University of Southern Mississippi

Deciphering The Functional Collaboration Of Mid And Bric-A-Brac 2 As Potential Regulators Of Cellular Proliferation Within Adult Drosophila Ovaries, Petra Visic

Master's Theses

Stem cell niches are highly organized and specialized microenvironments located within specific tissues of both vertebrate and invertebrate organisms [1]. In Drosophila melanogaster, three distinct stem cell niches have been identified within the ovary including the germline stem cell (GSC), follicle stem cell (FSC), and escort stem cell (ESC) niche. Recently, Fregoso-Lomas et al. [2] reported that Gurken/Epidermal Growth Factor Receptor (EGFR) signaling is modulated within posterior ovarian follicle cells by Midline (Mid). The mid gene encodes a T-box transcription factor protein that specifies cell fates in the developing heart [3][4], central nervous system [5][6], epidermis [7 ...


Repsa-Directed Identification Of Dna-Binding Specificity For Orphan Transcription Factors, Kamir Hiam 2015 Kennesaw State University

Repsa-Directed Identification Of Dna-Binding Specificity For Orphan Transcription Factors, Kamir Hiam

Symposium of Student Scholars

The function of many genes and the biological roles of their encoded products are still not well characterized. Given the sequence-specific DNA-binding properties of transcription factor proteins, it is possible to purify them, identify the responsible polypeptide(s), determine their consensus binding sequences, and identify their genomic binding sites. Thus, one can go from cellular extract to proposed biological regulatory roles in relatively short order. Our goal is to identify and characterize orphan DNA-binding proteins in the model organism E. coli K12 using the novel combinatorial technique, REPSA (Restriction Endonuclease Protection Selection Amplification), as well as further develop the REPSA ...


Mapping And Analysis Of Caenorhabditis Elegans Transcription Factor Sequence Specificities, Kamesh Narasimhan, Samuel A. Lambert, Ally Yang, Jeremy Riddell, Sanie Mnaimneh, Hong Zheng, Mihai Albu, Hamed S. Najafabadi, John S. Reece-Hoyes, Juan Fuxman Bass, Albertha J. M. Walhout, Matthew T. Weirauch, Timothy R. Hughes 2015 University of Toronto

Mapping And Analysis Of Caenorhabditis Elegans Transcription Factor Sequence Specificities, Kamesh Narasimhan, Samuel A. Lambert, Ally Yang, Jeremy Riddell, Sanie Mnaimneh, Hong Zheng, Mihai Albu, Hamed S. Najafabadi, John S. Reece-Hoyes, Juan Fuxman Bass, Albertha J. M. Walhout, Matthew T. Weirauch, Timothy R. Hughes

Program in Systems Biology Publications and Presentations

Caenorhabditis elegans is a powerful model for studying gene regulation, as it has a compact genome and a wealth of genomic tools. However, identification of regulatory elements has been limited, as DNA-binding motifs are known for only 71 of the estimated 763 sequence-specific transcription factors (TFs). To address this problem, we performed protein binding microarray experiments on representatives of canonical TF families in C. elegans, obtaining motifs for 129 TFs. Additionally, we predict motifs for many TFs that have DNA-binding domains similar to those already characterized, increasing coverage of binding specificities to 292 C. elegans TFs (~40%). These data highlight ...


Resolution Of Telomere Fragility In Mammalian Celss, Mai R. Nguyen 2015 Washington University in St Louis

Resolution Of Telomere Fragility In Mammalian Celss, Mai R. Nguyen

Undergraduate Research Symposium Posters & Abstracts

Genomic stability is vital for the survival of cells and organisms. Telomeres, the nucleoprotein complexes capping the ends of linear chromosomes, prevent loss of genetic information and play an important role in the regulation of cell division. Due to their repetitive sequence and ability to form secondary structures, telomeres are especially sensitive to mutations or deletions of DNA replication and repair proteins. Telomere fragility, a phenotype in which multiple telomere signals or aberrant signals are observed on metaphase chromosomes stained by fluorescent in situ hybridization, is induced when cells experience replication stress. Although telomere fragility has been observed in many ...


Complex Eukaryotic Protein Expression Using A Prokaryotic Chassis (Escherichia Coli), Derrica Burke, Julia Dave, Jasmine Padalla, Tre Landry 2015 Georgia State University

Complex Eukaryotic Protein Expression Using A Prokaryotic Chassis (Escherichia Coli), Derrica Burke, Julia Dave, Jasmine Padalla, Tre Landry

Georgia State Undergraduate Research Conference

No abstract provided.


Preliminary Report On The Production Of A Shiga-Like Toxoid Fusion Protein As Associated With Novel Flic Vaccine, Michael Maulin 2015 Georgia State University

Preliminary Report On The Production Of A Shiga-Like Toxoid Fusion Protein As Associated With Novel Flic Vaccine, Michael Maulin

Georgia State Undergraduate Research Conference

No abstract provided.


The Role Of Calcium Signaling Genes In Schizophrenia Development, Nisha Bhatia 2015 Georgia State University

The Role Of Calcium Signaling Genes In Schizophrenia Development, Nisha Bhatia

Georgia State Undergraduate Research Conference

No abstract provided.


From Shelf To Shelf: Assessing Historical And Contemporary Genetic Differentiation And Connectivity Across The Gulf Of Mexico In Gag, Mycteroperca Microlepis, Nathaniel Kenneth Jue, Thierry Brule, Felicia C. Coleman, Christopher C. Koenig 2015 Florida State University

From Shelf To Shelf: Assessing Historical And Contemporary Genetic Differentiation And Connectivity Across The Gulf Of Mexico In Gag, Mycteroperca Microlepis, Nathaniel Kenneth Jue, Thierry Brule, Felicia C. Coleman, Christopher C. Koenig

FSU Coastal and Marine Laboratory Publications

Describing patterns of connectivity among populations of species with widespread distributions is particularly important in understanding the ecology and evolution of marine species. In this study, we examined patterns of population differentiation, migration, and historical population dynamics using microsatellite and mitochondrial loci to test whether populations of the epinephelid fish, Gag, Mycteroperca microlepis, an important fishery species, are genetically connected across the Gulf of Mexico and if so, whether that connectivity is attributable to either contemporary or historical processes. Populations of Gag on the Campeche Bank and the West Florida Shelf show significant, but low magnitude, differentiation. Time since divergence ...


From The Field To The Lab: Best Practices For Field Preservation Of Bat Specimens For Molecular Analyses, Angelique Corthals, Alynn Martin, Omar M. Warsi, Megan Woller-Skar, Winston Lancaster, Amy L. Russell, Liliana M. Dávalos 2015 John Jay College of Criminal Justice

From The Field To The Lab: Best Practices For Field Preservation Of Bat Specimens For Molecular Analyses, Angelique Corthals, Alynn Martin, Omar M. Warsi, Megan Woller-Skar, Winston Lancaster, Amy L. Russell, Liliana M. Dávalos

Amy L. Russell

Studies in molecular ecology depend on field-collected samples for genetic information, and the tissue sampled and preservation conditions strongly affect the quality of the DNA obtained. DNA yields from different tissue types have seldom been compared, even though these media may influence DNA degradation under field conditions. We analyzed DNA yield from buccal swabs and wing punches harvested from live bats using nucleic acid quantification as well as quantitative PCR for a single-copy nuclear locus. We also compared DNA yields from wing tissue preserved in three media: ethanol, NaCl-saturated dimethyl sulfoxide (DMSO), and silica desiccant. Wing punches yielded more total ...


Dalla Traccia Di Sangue All'identikit Facciale, Charles E. MacLean 2015 Indiana Tech Law School

Dalla Traccia Di Sangue All'identikit Facciale, Charles E. Maclean

Charles E. MacLean

Assessment of dilemmas inherent in using DNA phenotyping methods to generate a physical likeness of a crime suspect based only on DNA shed at the crime scene.


The Pollution Of River Ibër With Heavy Metals From Landfill Of Kelmend, Innovative Research Publications IRP India, Rafet Zeqiri, Izet Zeqiri, Sadija Nikshiq -Kadriu, Mehush Aliu 2015 Innovative Research Publications

The Pollution Of River Ibër With Heavy Metals From Landfill Of Kelmend, Innovative Research Publications Irp India, Rafet Zeqiri, Izet Zeqiri, Sadija Nikshiq -Kadriu, Mehush Aliu

Innovative Research Publications IRP India

In this paper treated the degree of water pollution that emerges from mining and mixed with industrial wastes and as such in the form of pulp thrown in landfills. From the landfill through drainage and water flows in the river Ibër, penetrate the different pollutants that affect in water quality of this river. The degree of contamination of the river Ibër is monitored at several points, on which it is made water sampling of landfill and where we have reached the conclusion on the possibilities of prevention of water pollution of the river Ibër


Building Resilience Into Quaking Aspen Management, Paul C. Rogers 2015 Utah State University

Building Resilience Into Quaking Aspen Management, Paul C. Rogers

Aspen Bibliography

Throughout the 20th century, forest scientists and land managers were guided by principles of succession with regard to aspen forests. The historical model depicted aspen as a "pioneer species" that colonizes a site following disturbance and is eventually overtopped by conifers. Aspen systems are more diverse, however, than previously described. Not only are there distinctive seral and stable aspen, but variations within these types require appropriate management considerations (Rogers et al. 2014). We recommend a strategic approach to aspen resilience that builds upon traditional aspen ecology and incorporates knowledge of varying aspen functional types, effective monitoring, historical disturbance ecology ...


Managing Ungulate Browsing For Sustainable Aspen, Samuel B. St. Clair, Paul C. Rogers, Michael R. Kuhns 2015 Brigham Young University - Provo

Managing Ungulate Browsing For Sustainable Aspen, Samuel B. St. Clair, Paul C. Rogers, Michael R. Kuhns

Aspen Bibliography

In montane forests of the Intermountain West composition and function are often defined by what happens with quaking aspen. Aspen is a pioneer species that regenerates quickly following disturbance and then establishes ecological conditions under which the rest of the biological community develops. Quaking aspen forests have high biodiversity and provide ideal habitat for many animals. Aspen regeneration from root sprouts is highly palatable to wildlife and livestock. When browsing becomes chronic it leads to regeneration failure and eventual loss of aspen forests and associated species. Ironically, this can result in habitat and forage loss for wildlife and livestock. Here ...


Introduction To Gene Enrichment Analysis Tools, Rolando Garcia-Milian 2015 Yale University

Introduction To Gene Enrichment Analysis Tools, Rolando Garcia-Milian

Rolando Garcia-Milian

Bioinformatics enrichment tools play an important role in identifying, annotating, and functionally analyzing large list of genes generated by high-throughput technologies (e.g. microarrary, RNA-seq, ChIP-chip). This workshop will provide an overview of the principle, type of enrichments, and the infrastructure of enrichment tools. By using concrete examples, it will also introduce some of the most popular tools for gene enrichment analysis such as DAVID, GSEA, and WebGestalt.


Quentin Welch Papers, Brantley Palmer 2015 Keene State College

Quentin Welch Papers, Brantley Palmer

Finding Guides

A collection of the work of Quentin Welch who worked in Malaysia from late 1970-August, 1973 on genetic variants among the people there. Included are photographs, notebooks, dermatological prints, and blood slides.


Childhood-Onset Schizophrenia Case With 2.2 Mb Deletion At Chromosome 3p12.2-P12.1 And Two Large Chromosomal Abnormalities At 16q22.3-Q24.3 And Xq23-Q28, Danielle Rudd, Michael Axelsen, Eric A. Epping, Nancy Andreasen, Thomas Wassink 2015 University of Iowa

Childhood-Onset Schizophrenia Case With 2.2 Mb Deletion At Chromosome 3p12.2-P12.1 And Two Large Chromosomal Abnormalities At 16q22.3-Q24.3 And Xq23-Q28, Danielle Rudd, Michael Axelsen, Eric A. Epping, Nancy Andreasen, Thomas Wassink

Genetics Publications

Childhood-onset schizophrenia is rare, comprising 1% of known schizophrenia cases. Here, we report a patient with childhood-onset schizophrenia who has three large chromosomal abnormalities: an inherited 2.2 Mb deletion of chromosome 3p12.2–p12.1, a de novo 16.7 Mb duplication of 16q22.3–24.3, and a de novo 43 Mb deletion of Xq23–q28.


Loss Of Vascular Endothelial Growth Factor A (Vegfa) Isoforms In Granulosa Cells Using Pdmrt-1-Cre Or Amhr2-Cre Reduces Fertility By Arresting Follicular Development And By Reducing Litter Size In Female Mice, Kevin M. Sargent, Ningxia Lu, Debra T. Clopton, William E. Pohlmeier, Vanessa Brauer, Napoleone Ferrara, David W. Silversides, Andrea S. Cupp 2015 University of Nebraska-Lincoln

Loss Of Vascular Endothelial Growth Factor A (Vegfa) Isoforms In Granulosa Cells Using Pdmrt-1-Cre Or Amhr2-Cre Reduces Fertility By Arresting Follicular Development And By Reducing Litter Size In Female Mice, Kevin M. Sargent, Ningxia Lu, Debra T. Clopton, William E. Pohlmeier, Vanessa Brauer, Napoleone Ferrara, David W. Silversides, Andrea S. Cupp

Faculty Papers and Publications in Animal Science

Because VEGFA has been implicated in follicle development, the objective of this study was to determine the effects of granulosa- and germ cell-specific VEGFA loss on ovarian morphogenesis, function, and female fertility. pDmrt1-Cre mice were mated to floxed VEGFA mice to develop granulosa-/germ cell-specific knockouts (pDmrt1-Cre;Vegfa-/-). The time from mating to first parturition was increased when pDmrt1-Cre;Vegfa-/- females were mated to control males (P = 0.0008) and tended to be longer for heterozygous females (P < 0.07). Litter size was reduced for pDmrt1-Cre;Vegfa-/- females (P < 0.007). The time between the first and second parturitions was also increased for heterozygous females (P < 0.04) and tended to be increased for pDmrt1-Cre;Vegfa-/- females (P < 0.07). pDmrt1-Cre;Vegfa-/- females had smaller ovaries (P < 0.04), reduced plasma estradiol (P < 0.007), fewer developing follicles (P < 0.008) and tended to have fewer corpora lutea (P < 0.08). Expression of Igf1r was reduced ...


Coexpression Network Analysis Of Mirna-142 Overexpression In Neuronal Cells, Ishwor Thapa, Howard S. Fox, Dhundy Raj Bastola 2015 University of Nebraska at Omaha

Coexpression Network Analysis Of Mirna-142 Overexpression In Neuronal Cells, Ishwor Thapa, Howard S. Fox, Dhundy Raj Bastola

Interdisciplinary Informatics Faculty Publications

MicroRNAs are small noncoding RNA molecules, which are differentially expressed in diverse biological processes and are also involved in the regulation of multiple genes. A number of sites in the 3′ untranslated regions (UTRs) of different mRNAs allow complimentary binding for a microRNA, leading to their posttranscriptional regulation. The miRNA-142 is one of the microRNAs overexpressed in neurons that is found to regulate SIRT1 and MAOA genes. Differential analysis of gene expression data, which is focused on identifying up- or downregulated genes, ignores many relationships between genes affected by miRNA-142 overexpression in a cell. Thus, we applied a correlation network ...


Targeting Cell Cycle Proteins In Breast Cancer Cells With Sirna By Using Lipid-Substituted Polyethylenimines, Manoj Parmar, Hamidreza Montazeri Aliabadi, Parvin Mahdipoor, Cezary Kucharski, Robert Maranchuk, Judith C. Hugh, Hasan Uludag 2015 Chapman University

Targeting Cell Cycle Proteins In Breast Cancer Cells With Sirna By Using Lipid-Substituted Polyethylenimines, Manoj Parmar, Hamidreza Montazeri Aliabadi, Parvin Mahdipoor, Cezary Kucharski, Robert Maranchuk, Judith C. Hugh, Hasan Uludag

Pharmacy Faculty Articles and Research

The cell cycle proteins are key regulators of cell cycle progression whose de-regulation is one of the causes of breast cancer. RNA interference (RNAi) is an endogenous mechanism to regulate gene expression and it could serve as the basis of regulating aberrant proteins including cell cycle proteins. Since the delivery of small interfering RNA (siRNA) is a main barrier for implementation of RNAi therapy, we explored the potential of a non-viral delivery system, 2.0 kDa polyethylenimines substituted with linoleic acid and caprylic acid, for this purpose. Using a library of siRNAs against cell cycle proteins, we identified cell division ...


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