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2007

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Regulation Of Fungal Morphogenesis, Qiao Zhang Dec 2007

Regulation Of Fungal Morphogenesis, Qiao Zhang

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

Candida albicans is an opportunistic fungal pathogen in humans. It typically lives as a harmless commensal as part of the human gut and skin flora, but under some conditions it causes mucosal infections. In immunocompromised patients it can also cause lifethreatening systemic infections. C. albicans is a multimorphic organism, and the ability to undergo morphological transition from budding to hyphal growth is associated with its virulence. This morphological switch was reported to be regulated by different signaling pathways. One key pathway is cAMP-PKA signaling pathway. The single adenylyl cyclase in C. albicans is CaCdc35, which was reported to interact with …

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Sequence To Topography Relationship In Membrane-Inserted Hydrophobic Helics, Shyam S. Krishnakumar Dec 2007

Sequence To Topography Relationship In Membrane-Inserted Hydrophobic Helics, Shyam S. Krishnakumar

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

Hydrophobic α-helices have been widely used to study membrane protein sequencestructure relationships in model membranes. Our lab has developed fluorescence methods to determine the topography of membrane-inserted hydrophobic helices, and to understand the equilibria describing their topographic stability. Using this model membrane system, the minimum hydrophobic length necessary to form a transmembrane (TM) helix in membranes was investigated. Sequences with 13 consecutive hydrophobic residues were found to be the minimum necessary to form a predominantly TM state in a bilayer with a biologically relevant width. The ability of these short hydrophobic sequences to form TM helices in the presence of …

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Regulation Of D-Xylose Metabolism In Caulobacter Crescentus By A Laci-Type Repressor, Craig Stephens, Beat Christen, Kelly Watanabe, Thomas Fuchs, Urs Jenal Dec 2007

Regulation Of D-Xylose Metabolism In Caulobacter Crescentus By A Laci-Type Repressor, Craig Stephens, Beat Christen, Kelly Watanabe, Thomas Fuchs, Urs Jenal

Biology

In the oligotrophic freshwater bacterium Caulobacter crescentus, D-xylose induces expression of over 50 genes,including the xyl operon, which encodes key enzymes for xylose metabolism. The promoter (PxylX) controllingexpression of the xyl operon is widely used as a tool for inducible heterologous gene expression in C. crescentus. We show here that PxylX and at least one other promoter in the xylose regulon (PxylE) are controlled by theCC3065 (xylR) gene product, a LacI-type repressor. Electrophoretic gel mobility shift assays showed that operator binding by XylR is greatly reduced in the presence of D-xylose. The data support the hypothesis that there is a …

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Quantitative Dissection Of Clone-Specific Growth Rates In Cultured Malaria Parasites, Heather B. Reilly Ayala, Hongjian Wang, John A. Steuter, Anastasia M. Marx, Michael T. Ferdig Dec 2007

Quantitative Dissection Of Clone-Specific Growth Rates In Cultured Malaria Parasites, Heather B. Reilly Ayala, Hongjian Wang, John A. Steuter, Anastasia M. Marx, Michael T. Ferdig

Faculty Publications - Department of Biological & Molecular Science

Measurement of parasite proliferation in cultured red blood cells underpins many facets of malaria research, from drug sensitivity assays to assessing the impact of experimentally altered genes on parasite growth, virulence, and fitness. Pioneering efforts to grow Plasmodium falciparum in cultured red blood cells revolutionized malaria research and spurred the development of semi-high throughput growth assays using radio-labeled hypoxanthine, an essential nucleic acid precursor, as a reporter of whole-cycle proliferation (Trager and Jensen, 1976; Desjardins et al., 1979). Use of hypoxanthine (Hx) and other surrogate readouts of whole-cycle proliferation remains the dominant choice in malaria research. While amenable to high-throughput …

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Cellular Targets Involved In Reovirus-Induced Oncolysis Of Ras-Transformed Cells, Jung Hwa Chung Dec 2007

Cellular Targets Involved In Reovirus-Induced Oncolysis Of Ras-Transformed Cells, Jung Hwa Chung

Biology Theses - Archive

Reovirus is a ubiquitous virus with demonstrated oncolytic properties. In this study, we investigate the pathways which reovirus produces a lytic infection in SV-40 transformed WI-38 cells and the noncytocidal infection of normal WI-38 cells using microarray technology. The analysis revealed that reovirus infection induced changes in 178 genes, of which 112 genes were up regulated and 66 genes down regulated. Of the 112 up regulated genes, 13 of the WI-38 2RA genes were shown to be involved in apoptosis or inhibition of cellular DNA synthesis. Of the 66 genes down regulated, seven of the WI-38 genes displayed effects involved …

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Rcd-1 Related:A Positively Selected Retrogene With Spermatogenesis Function In Drosophila, Taniya Muliyil Dec 2007

Rcd-1 Related:A Positively Selected Retrogene With Spermatogenesis Function In Drosophila, Taniya Muliyil

Biology Theses - Archive

Gene duplication is one of the major forces in driving genome evolution. Our study focuses on a particular retrogene Rcd-1 related (Rcd-1r) that originated through retroposition of the parental gene Required for cell differentiation 1 (Rcd-1) about 5-13 million years ago. Rcd-1r is present in D. melanogaster, D. simulans, D. sechellia and D. mauritiana whereas the parental gene is present in all the Drosophila species. Rcd-1r is inserted in the 3' UTR of the gene CG13102 and it is encoded in the complementary strand. Previous studies by Castrillion et al. showed that a P element inserted in the 5' UTR …

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The Role Of The Olfactory System In Mate Recognition And Sexual Discrimination Of Drosophila Melanogaster, Erika Crespo Dec 2007

The Role Of The Olfactory System In Mate Recognition And Sexual Discrimination Of Drosophila Melanogaster, Erika Crespo

McNair Scholars Research Journal

No abstract provided.

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R2bm Retrotransposon: Dna-Protein Interactions, Arturo Menchaca Dec 2007

R2bm Retrotransposon: Dna-Protein Interactions, Arturo Menchaca

McNair Scholars Research Journal

No abstract provided.

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Horizontal Transfer Of Genetic Material: The Transposable Element Content Of Viruses, Omid Zare-Mehrjerdi Dec 2007

Horizontal Transfer Of Genetic Material: The Transposable Element Content Of Viruses, Omid Zare-Mehrjerdi

McNair Scholars Research Journal

No abstract provided.

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Histopathological Assessment And Comparison Sedimentation And Phosphate Stress On The Staghorn Coral, Acropora Cervicornis, Erin Christine Hodel Dec 2007

Histopathological Assessment And Comparison Sedimentation And Phosphate Stress On The Staghorn Coral, Acropora Cervicornis, Erin Christine Hodel

HCNSO Student Theses and Dissertations

Traditional coral reef monitoring efforts lack assessment of coral health at tissue and cellular levels. This thesis investigated tissue, cellular, and gross morphological responses of the Caribbean staghorn coral, Acropora cervicornis, to elevated sedimentation and phosphate using state-of-the-art histological techniques. Branch fragments of A. cervicornis were collected offshore Broward County, FL, acclimated for 12 weeks, subjected to a 4-week experimental period, and given a 1-week recovery period in laboratory aquaria. Treatments consisted of high doses (200 mg cm-2 day-1) of sedimentation (S), phosphate (4 μM) (P), and a combination of these two (S + P), in …

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Circumventing Daubert In The Gene Pool, Erica Beecher-Monas Dec 2007

Circumventing Daubert In The Gene Pool, Erica Beecher-Monas

Tulsa Law Review

No abstract provided.

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Meeting The Challenges Of The Daubert Trilogy: Refining And Redefining The Reliability Of Forensic Evidence, Mara L. Merlino, Victoria Springer, Jan Seaman Kelly, Derek Hammond Dec 2007

Meeting The Challenges Of The Daubert Trilogy: Refining And Redefining The Reliability Of Forensic Evidence, Mara L. Merlino, Victoria Springer, Jan Seaman Kelly, Derek Hammond

Tulsa Law Review

No abstract provided.

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Full Issue, The Mcnair Team Dec 2007

Full Issue, The Mcnair Team

McNair Scholars Research Journal

No abstract provided.

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The Juncaceae-Cyperaceae Interface: A Combined Plastid Sequence Analysis, Eleanor Jones, David A. Simpson, Trevor R. Hodkinson, Mark W. Chase, John A. N. Parnell Dec 2007

The Juncaceae-Cyperaceae Interface: A Combined Plastid Sequence Analysis, Eleanor Jones, David A. Simpson, Trevor R. Hodkinson, Mark W. Chase, John A. N. Parnell

Aliso: A Journal of Systematic and Floristic Botany

Phylogenetic relationships of Juncaceae and related families of Cyperales were investigated using DNA sequence data from the plastid rps16 intron, trnL intron, and trnL–F intergenic spacer. Results using parsimony analysis of the aligned matrices find Juncaceae and Cyperaceae to be monophyletic families, which form a clade sister to a monophyletic Thurniaceae that includes Prionium (Prioniaceae), all three clades with 100% bootstrap support. Within Juncaceae, the genus Luzula is monophyletic with 100% bootstrap support and sister to the rest of Juncaceae. Further groupings within the family indicate that the genus Juncus may be monophyletic only with the inclusion …

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The Schoenus Spikelet: A Rhipidium? A Floral Ontogenetic Answer, Alexander Vrijdaghs, Paul Goetghebeur, Erik Smets, Pieter Caris Dec 2007

The Schoenus Spikelet: A Rhipidium? A Floral Ontogenetic Answer, Alexander Vrijdaghs, Paul Goetghebeur, Erik Smets, Pieter Caris

Aliso: A Journal of Systematic and Floristic Botany

The inflorescence unit of Schoenus nigricans and S. ferrugineus consists of a zigzag axis and distichously arranged bracts, each of which may or may not subtend a bisexual flower. Each flower seems to terminate a lateral axis. These features have led to a controversy about the nature of the inflorescence unit, particularly whether it is monopodial or sympodial. It was often seen as a pseudospikelet composed of a succession of lateral axes, each subtended by the prophyll of the previous axis, as in a rhipidium. Many authors, however, consider the inflorescence units of all Cyperaceae to be indeterminate, racemose, actual …

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Grass Phylogeny And Classification: Conflict Of Morphology And Molecules, Bryan K. Simon Dec 2007

Grass Phylogeny And Classification: Conflict Of Morphology And Molecules, Bryan K. Simon

Aliso: A Journal of Systematic and Floristic Botany

The grass family (Poaceae) has been recognized as a unique lineage for more than 200 years, based initially on characters of inflorescence and spikelet morphology and corroborated by anatomical and other features in the latter half of the twentieth century. There have been a number of attempts to derive a phylogeny of sections of the family from structural (morphological and anatomical) characters. However, more recently the Grass Phylogeny Working Group (2001) applied cladistic principles to the whole family using molecular and structural characters. This study produced a single most-parsimonious tree from six molecular sequence data sets, chloroplast restriction site data, …

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Phenotypic Plasticity Of Reproduction In Schizachyrium Scoparium (Poaceae) Populations In Relation To Ecological History, Elizabeth M. Obee, James A. Quinn Dec 2007

Phenotypic Plasticity Of Reproduction In Schizachyrium Scoparium (Poaceae) Populations In Relation To Ecological History, Elizabeth M. Obee, James A. Quinn

Aliso: A Journal of Systematic and Floristic Botany

Genetic differentiation in reproduction in the wide-ranging Schizachyrium scoparium (Poaceae) has been demonstrated in uniform gardens. However, the fine-tuning of flowering phenology and biomass allocation in relation to spatial and temporal fluctuations in the local environment is best accomplished by plastic responses to local variability. An earlier central New Jersey study suggested that S. scoparium populations in old fields of 2 to 40 years differed in plasticity. To test this apparent effect of ecological history on the development of different levels of plasticity, genotypes were collected from high- and low-fertility sites in New Jersey (forest biome) and in Oklahoma (grassland …

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Phylogeny Of Triticeae (Poaceae) Based On Three Organelle Genes, Two Single-Copy Nuclear Genes, And Morphology, Ole Seberg, Gitte Petersen Dec 2007

Phylogeny Of Triticeae (Poaceae) Based On Three Organelle Genes, Two Single-Copy Nuclear Genes, And Morphology, Ole Seberg, Gitte Petersen

Aliso: A Journal of Systematic and Floristic Botany

Triticeae are renowned for their complicated taxonomy, but their phylogeny is equally intricate and perplexing, and remains largely unresolved. Based on morphology and nucleotide sequences from two plastid genes (rbcL, rpoA), one mitochondrial gene (coxII), and two single-copy nuclear genes (DMC1, EF-G), the most comprehensive hypothesis (both with respect to taxa and data points) of the phylogeny of diploid Triticeae to date is presented. The incongruence length difference tests clearly indicate that the four logical data partitions (morphology and the three genome compartments) are mutually incongruent, except the mitochondrial and nuclear sequences. …

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Preliminary Isozyme Evidence On The Hybrid Origin And Diploid Progenitors Of Bromus Pectinatus (Poaceae), Tatjana Oja Dec 2007

Preliminary Isozyme Evidence On The Hybrid Origin And Diploid Progenitors Of Bromus Pectinatus (Poaceae), Tatjana Oja

Aliso: A Journal of Systematic and Floristic Botany

Isozyme electrophoresis was used to study the origin of Bromus pectinatus (Poaceae, Pooideae). The morphological characteristics of B. pectinatus are intermediate between B. japonicus of sect. Bromus and B. tectorum of sect. Genea. Previous authors have suggested that sects. Bromus and Genea may be linked through B. pectinatus, a species that has been classified in sect. Bromus, though this placement has been questioned. Isozyme data support the allotetraploid nature of B. pectinatus and its position between sects. Bromus and Genea. Several heterozymes are consistent with the view that B. pectinatus may have arisen through polyploidization of …

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Eragrostis (Poaceae): Monophyly And Infrageneric Classification, Amanda L. Ingram, Jeff J. Doyle Dec 2007

Eragrostis (Poaceae): Monophyly And Infrageneric Classification, Amanda L. Ingram, Jeff J. Doyle

Aliso: A Journal of Systematic and Floristic Botany

Eragrostis is a large genus in subfamily Chloridoideae of Poaceae. Recent phylogenetic analyses have suggested that the genus may not be monophyletic, that some of its segregate genera may be better placed within Eragrostis, and that current infrageneric classifications may not represent monophyletic groups. We have used molecular sequence data from the plastid locus rps16 and the nuclear gene waxy from a broad sample of Eragrostis species and representatives of six of the seven segregate genera to address these issues. We found that Eragrostis is monophyletic with the inclusion of several of the segregates, including Acamptoclados, Diandrochloa …

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Que Ondee Sola - December 2007, Xavier Luis Burgos Dec 2007

Que Ondee Sola - December 2007, Xavier Luis Burgos

Que Ondee Sola

Student publication founded in 1972, articles include: State Senator William Delgado Visits NEIU, Faculty Profile: Teresita Diaz, Faculty Speak Out, Latina/o Students Speak Out, The Poor State of Latina/o Status at NEIU, Where is NEIU's Latina/o Cultural & Resource Center, The 15th Housing Congress of Puerto Rico, World AIDS Day on Paseo Boricua, Over 200 Proclaim 'Humboldt Park No Se Vende!'

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Teaching Time Savers: The Exam Practically Wrote Itself!, Michael E. Orrison Jr. Dec 2007

Teaching Time Savers: The Exam Practically Wrote Itself!, Michael E. Orrison Jr.

All HMC Faculty Publications and Research

When I first started teaching, creating an exam for my upper division courses was a genuinely exciting process. The material felt fresh and relatively unexplored (at least by me), and I remember often feeling pleasantly overwhelmed with what seemed like a vast supply of intriguing and engrossing exam-ready problems. Crafting the perfect exam, one that was noticeably inviting, exceedingly fair, and unavoidably illuminating, was a real joy.

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Studies On Biological Evolution And Biological Networks: A Statistical Physics Approach, Koon-Kiu Yan Dec 2007

Studies On Biological Evolution And Biological Networks: A Statistical Physics Approach, Koon-Kiu Yan

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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Global Reinforcement Training Of Crossnets, Xiaolong Ma Dec 2007

Global Reinforcement Training Of Crossnets, Xiaolong Ma

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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Detection Of Polychlorinated Biphenyls In The Rio Grande Basin Above Cochiti Dam: Sources & Significance, Anthony D. Edwards Dec 2007

Detection Of Polychlorinated Biphenyls In The Rio Grande Basin Above Cochiti Dam: Sources & Significance, Anthony D. Edwards

Water Resources Professional Project Reports

Polychlorinated biphenyls (PCBs) have been detected with increasing frequency in water and fish tissue samples in the Rio Grande Basin above Cochiti Dam (RGBACD), which correlates with the use of improved analytical methods for quantifying PCBs. Levels of PCBs identified in some fish have exceeded levels considered safe for human consumption, resulting in a Fish Consumption Advisory' for Abiquiu and Cochiti Reservoirs and the Rio Grande from Pojoaque Creek to Frijoles Canyon (Bandelier National Monument). In June of 2007, the New Mexico Environment Department (NMED) listed seven water bodies in the RGBACD as impaired due to elevated concentrations of PCBs …

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Concerted Elimination Of Cl+₂ From Ccl₄ And Of I+₂From Ch₂I₂ Driven By Intense Ultrafast Laser Pulses, Dominik Peter Michael Geissler Dec 2007

Concerted Elimination Of Cl+₂ From Ccl₄ And Of I+₂From Ch₂I₂ Driven By Intense Ultrafast Laser Pulses, Dominik Peter Michael Geissler

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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Spherical Indentation To Probe Atelectasis In The Mammalian Lung, Maricris Resurreccion Silva Dec 2007

Spherical Indentation To Probe Atelectasis In The Mammalian Lung, Maricris Resurreccion Silva

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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Biomarker Sensing Using Nanostructured Metal Oxide Sensors, Krithika Kalyanasundaram Dec 2007

Biomarker Sensing Using Nanostructured Metal Oxide Sensors, Krithika Kalyanasundaram

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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Studies Of Decoherence In Rf Squid Qubits, Douglas A. Bennett Dec 2007

Studies Of Decoherence In Rf Squid Qubits, Douglas A. Bennett

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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Mimicking Marine-Based Natural Systems: A Study Of Sediment-Hydrate Interactions Under In Situ Conditions, Michael Waldram Eaton Dec 2007

Mimicking Marine-Based Natural Systems: A Study Of Sediment-Hydrate Interactions Under In Situ Conditions, Michael Waldram Eaton

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]

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