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The New Hampshire, Vol. 100 [101], No. 22 (Nov. 30, 2010), The New Hampshire

The New Hampshire Print Edition

An independent student produced newspaper from the University of New Hampshire. This volume was printed as 100, but it is the 101st volume in the series. This was corrected in pencil.

Excision Dynamics Of Vibrio Pathogenicity Island-2 From Vibrio Cholerae: Role Of A Recombination Directionality Factor Vefa, Salvador Almagro-Moreno, Michael G. Napolitano, E. Fidelma Boyd

Dartmouth Scholarship

Vibrio Pathogenicity Island-2 (VPI-2) is a 57 kb region present in choleragenic V. cholerae isolates that is required for growth on sialic acid as a sole carbon source. V. cholerae non-O1/O139 pathogenic strains also contain VPI-2, which in addition to sialic acid catabolism genes also encodes a type 3 secretion system in these strains. VPI-2 integrates into chromosome 1 at a tRNA-serine site and encodes an integrase intV2 (VC1758) that belongs to the tyrosine recombinase family. ntV2 is required for VPI-2 excision from chromosome 1, which occurs at very low levels, and formation of a non-replicative circular intermediate.

The Effect Of Mentholated Cigarette Use On Interleukin-6 Responses Across Different Hiv Positive Race/Ethnic Subgroups, María J. Míguez-Burbano, Rhonda Rosenberg, Robert Malow, Ximena Burbano, Jessy Devieux, Nair Madhavan

ETSU Faculty Works

In this report, we analyze trends in interleukin-6 (IL-6) production in people living with human immunodeficiency virus (PLWH), as a function of smoking behaviors and race, using a clinic-based case-control design. Peripheral blood mononuclear cells (PBMCs) were collected from a multiethnic cohort of 120 PLWH to measure IL-6 in culture supernatant. The data indicated that stimulated PBMC produced significantly higher levels of IL-6 in smokers than nonsmokers. However, as expected, this relationship was substantially modified by race. The distinctive production of IL-6 across different racial groups highlights the need for additional studies and suggests that African American smokers have enhanced …

Mustang Daily, November 30, 2010

Cal Poly Student Newspaper

Student newspaper of California Polytechnic State University, San Luis Obispo, CA.

Awaiting The Call: Historic Sites Monitoring And Preservation At Fort Charlotte (21ck7), Grand Portage National Monument, Minnesota, Andrew E. Labounty

Department of Anthropology: Theses and Student Research

Undisturbed archeological deposits at Fort Charlotte—a component of Grand Portage National Monument, Minnesota—reflect the daily activities and social dynamics of the Canadian fur trade. These remains are threatened by both natural and human factors, and the park has sought methods to monitor the site, protect its archeological resources from destruction, and maintain the potential for significant research into all aspects of the fur trade. This thesis explores the potential of Fort Charlotte as a significant archeological site, discusses trends and current attitudes toward historic preservation, and offers recommendations for the preservation of 21CK7. Specifically, this thesis introduces an archeological monitoring …

Mustang Daily, November 29, 2010

Cal Poly Student Newspaper

Student newspaper of California Polytechnic State University, San Luis Obispo, CA.

The Statesman, V. 54, I. 14, Stony Brook University

Stony Brook Statesman-Sucolian

v. 54, i. 14

Wcu Classes/Teams Using The Gordon Natural Area, 11/29/2010, Gerard Hertel

Gordon Natural Area-related Curricula Documents

No abstract provided.

The Collegian (2010-11-29), Christine Cavazos

UTB/TSC Archives - The Collegian [Newspaper]

Vol. 63, No. 14

Corticosterone Secretion In Young Florida Scrub-Jays: Correlates And Consequences, Michelle Annette Rensel

Electronic Theses and Dissertations Archive

While much is known about the relationship between stress and the steroid hormone, corticosterone (CORT) in adult animals, less is known about the dynamics of CORT secretion in developing animals. My research examined factors affecting levels of baseline and stress-induced CORT in a free-living, non-migratory passerine, the Florida scrub-jay (Aphelocoma coerulescens). I addressed the following questions: 1) Do baseline and stress-induced CORTsecretion change with age? 2) Are nestling baseline CORT levels correlated with conditions in the nest, such as hatching order and parental behavior? 3) Are baseline and stress-induced CORT levels repeatable wtihin individuals? 4) Do baseline and stress-induced CORTlevels …

Grand Valley Forum, Volume 035, Number 14, November 29, 2010, Grand Valley State University

2010-2011, Volume 35

Grand Valley Forum is Grand Valley State's faculty and staff newsletter, published from 1976 to the present.

Nuclear Magnetic Resonance Affinity Screening Methods For Functional Annotation Of Proteins And Drug Discovery, Matthew D. Shortridge

Department of Chemistry: Dissertations, Theses, and Student Research

With nearly 1,350 complete genome sequences available our understanding of biology at the molecular level has never been more complete. A consequence of these sequencing projects was the discovery of large functionally unannotated segments of each genome. The genes (and proteins they encode) found in these unannotated regions are considered “hypothetical proteins”. Current estimates suggest between 12%-50% of the known gene sequences are functionally unannotated. Incomplete functional annotation of the various genomes significantly limits our understanding of biology. Pragmatically, identifying the functions of these proteins could lead to new therapeutics; making functional annotation of paramount importance.

This dissertation describes the …

2010-11-29 Minutes Of The Executive Committee Of The Academic Senate, University Of Dayton. Academic Senate. Executive Committee

ECAS Minutes

Approved minutes of a meeting of the Executive Committee of the Academic Senate of the University of Dayton

2k09 And Thereafter: The Coming Era Of Integrative Bioinformatics, Systems Biology And Intelligent Computing For Functional Genomics And Personalized Medicine Research, Jack Y. Yang, Andrzej Niemierko, Ruzena Bajcsy, Dong Xu, Brian D. Athey, Aidong Zhang, Okan K. Ersoy, Guo-Zheng Li, Mark Borodovsky, Joe C. Zhang, Hamid R. Arabnia, Youping Deng, A. Keith Dunker, Yunlong Liu, Arif Ghafoor

Faculty Publications

Significant interest exists in establishing synergistic research in bioinformatics, systems biology and intelligent computing. Supported by the United States National Science Foundation (NSF), International Society of Intelligent Biological Medicine (http://www.ISIBM.org), International Journal of Computational Biology and Drug Design (IJCBDD) and International Journal of Functional Informatics and Personalized Medicine, the ISIBM International Joint Conferences on Bioinformatics, Systems Biology and Intelligent Computing (ISIBM IJCBS 2009) attracted more than 300 papers and 400 researchers and medical doctors world-wide. It was the only inter/multidisciplinary conference aimed to promote synergistic research and education in bioinformatics, systems biology and intelligent computing. The conference committee …

Humphry Davy: Science, Authorship, And The Changing Romantic, Marianne Lind Baker

Theses and Dissertations

In the mid to late 1700s, men of letters became more and more interested in the natural world. From studies in astronomy to biology, chemistry, and medicine, these "philosophers" pioneered what would become our current scientific categories. While the significance of their contributions to these fields has been widely appreciated historically, the interconnection between these men and their literary counterparts has not. A study of the "Romantic man of science" reveals how much that figure has in common with the traditional "Romantic" literary figure embodied by poets like William Wordsworth and Samuel Taylor Coleridge. This thesis interrogates connections between Romantic …

Medical School Watercooler Newsletter - November 28, 2010, Lindsey Lyle

Watercooler Newsletter

This is the November 28 edition of the Frederick P. Whiddon College of Medicine's newsletter - Watercooler.

Contents Include:

• Next Week's DSS - Dr. Peter J. McKinnon
• USA Cardiologist Talks About Emerging Data On Vitamin D
• Med School Café - "Early Detection of Cancer"
• Former Radiology Chair Honored through Conference Room Dedication
• USA Trauma Surgeon Shares First-Hand Experiences at Disaster Preparedness Meeting

Frequency Dependence In The Initiation Of Ultrafast Laser-Induced Damage, Jeremy R. Gulley

Faculty Articles

Numerous studies have investigated the role of photoionization in ultrafast laser-induced damage of bulk dielectrics. This study examines the role of spectral width and instantaneous laser frequency in laser-induced damage using a frequency dependent multiphoton ionization model and numerical simulation of an 800 nm laser pulse propagating through fused silica. When the individual photon wavelengths are greater than 827 nm, an additional photon is required for photoionization, reducing the probability of the event by many orders of magnitude. Simulation results suggest that this frequency dependence may significantly affect the processes of laser-induced damage and filamentation.

Adar2-Dependent Rna Editing Of Glur2 Is Involved In Thiamine Deficiency-Induced Alteration Of Calcium Dynamics, Shuchen Lee, Guang Yang, Yue Yong, Ying Liu, Liyun Zhao, Jing Xu, Xiaomin Zhang, Yanjie Wan, Chun Feng, Zhiqin Fan, Yong Liu, Jia Luo, Zun-Ji Ke

Internal Medicine Faculty Publications

BACKGROUND: Thiamine (vitamin B1) deficiency (TD) causes mild impairment of oxidative metabolism and region-selective neuronal loss in the central nervous system (CNS). TD in animals has been used to model aging-associated neurodegeneration in the brain. The mechanisms of TD-induced neuron death are complex, and it is likely multiple mechanisms interplay and contribute to the action of TD. In this study, we demonstrated that TD significantly increased intracellular calcium concentrations [Ca2+]i in cultured cortical neurons.

RESULTS: TD drastically potentiated AMPA-triggered calcium influx and inhibited pre-mRNA editing of GluR2, a Ca2+-permeable subtype of AMPA receptors. The Ca2+ permeability of GluR2 is regulated …

Evaluation Of Health Workforce Competence In Maternal And Neonatal Issues In Public Health Sector Of Pakistan: An Assessment Of Their Training Needs, Shabina Ariff, Sajid B. Soofi, Kamran Sadiq, Asher B. Feroze, Shuaib Khan, Sadiqua N. Jafarey, Nabeela Ali, Zulfiqar A. Bhutta

Department of Paediatrics and Child Health

Background: More than 450 newborns die every hour worldwide, before they reach the age of four weeks (neonatal period) and over 500,000 women die from complications related to childbirth. The major direct causes of neonatal death are infections (36%), Prematurity (28%) and Asphyxia (23%). Pakistan has one of the highest perinatal and neonatal mortality rates in the region and contributes significantly to global neonatal mortality. The high mortality rates are partially attributable to scarcity of trained skilled birth attendants and paucity of resources. Empowerment of health care providers with adequate knowledge and skills can serve as instrument of change. Methods: …

Substrates Of The Arabidopsis Thaliana Protein Isoaspartyl Methyltransferase 1 Identified Using Phage Display And Biopanning, Tingsu Chen, Nihar Nayak, Susmita Maitra Majee, Jonathan Lowenson, Kim R. Schäfermeyer, Alyssa C. Eliopoulos, Taylor D. Lloyd, Randy Dinkins, Sharyn E. Perry, Nancy R. Forsthoefel, Steven G. Clarke, Daniel M. Vernon, Zhaohui Sunny Zhou, Tomas Rejtar, A. Bruce Downie

Horticulture Faculty Publications

The role of protein isoaspartyl methyltransferase (PIMT) in repairing a wide assortment of damaged proteins in a host of organisms has been inferred from the affinity of the enzyme for isoaspartyl residues in a plethora of amino acid contexts. The identification of PIMT target proteins in plant seeds, where the enzyme is highly active and proteome long-lived, has been hindered by large amounts of isoaspartate-containing storage proteins. Mature seed phage display libraries circumvented this problem. Inclusion of the PIMT co-substrate, S-adenosylmethionine (AdoMet), during panning permitted PIMT to retain aged phage in greater numbers than controls lacking co-substrate or when …

In Polycistronic Qβ Rna, Single-Strandedness At One Ribosome Binding Site Directly Affects Translational Initiations At A Distal Upstream Cistron, Lalitha Jayant, Christine Priano, Donald R. Mills

Publications and Research

In Qβ RNA, sequestering the coat gene ribosome binding site in a putatively strong hairpin stem structure eliminated synthesis of coat protein and activated protein synthesis from the much weaker maturation gene initiation site, located 1300 nucleotides upstream. As the stability of a hairpin stem comprising the coat gene Shine–Dalgarno site was incrementally increased, there was a corresponding increase in translation of maturation protein. The effect of the downstream coat gene ribosome binding sequence on maturation gene expression appeared to have occurred only in cis and did not require an AUG start codon or initiation of coat protein synthesis. In …

Isolasi Fragmen Cdna Dari Gen Penyandi Aktin Dari Melastoma Malabathricum, Saleha Hannum, Kinya Akashi, Utut Widyastuti Suharsono, Alex Hartana

Makara Journal of Science

Isolation of cDNA Fragment of Gene Encoding for Actin from Melastoma malabthricum. M. malabathricum grows well in acidic soil with high Al solubility, thereby it can be used as a model plant for tolerance to aluminum and acid stresses. Actin is housekeeping gene used as an internal control for gene expression analysis. The objective of this research was to isolate and clone the cDNA fragments of MmACT encoding for actin of M. malabathricum. Total RNA was isolated and used as the template for cDNA synthesis by reverse transcription. Four cDNA fragments of MmACT, called MmACT1, MmACT2, MmACT3, and MmACT4, had …

Minimum Description Length And Empirical Bayes Methods Of Identifying Snps Associated With Disease, Ye Yang, David R. Bickel

COBRA Preprint Series

The goal of determining which of hundreds of thousands of SNPs are associated with disease poses one of the most challenging multiple testing problems. Using the empirical Bayes approach, the local false discovery rate (LFDR) estimated using popular semiparametric models has enjoyed success in simultaneous inference. However, the estimated LFDR can be biased because the semiparametric approach tends to overestimate the proportion of the non-associated single nucleotide polymorphisms (SNPs). One of the negative consequences is that, like conventional p-values, such LFDR estimates cannot quantify the amount of information in the data that favors the null hypothesis of no disease-association.

We …

Biological Rationale For The Use Of Dna Methyltransferase Inhibitors As New Strategy For Modulation Of Tumor Response To Chemotherapy And Radiation., Giovanni L Gravina, Claudio Festuccia, Francesco Marampon, Vladimir M Popov, Richard G Pestell, Bianca M Zani, Vincenzo Tombolini

Kimmel Cancer Center Faculty Papers

Epigenetic modifications play a key role in the patho-physiology of many tumors and the current use of agents targeting epigenetic changes has become a topic of intense interest in cancer research. DNA methyltransferase (DNMT) inhibitors represent a promising class of epigenetic modulators. Research performed yielded promising anti-tumorigenic activity for these agents in vitro and in vivo against a variety of hematologic and solid tumors. These epigenetic modulators cause cell cycle and growth arrest, differentiation and apoptosis. Rationale for combining these agents with cytotoxic therapy or radiation is straightforward since the use of DNMT inhibitor offers greatly improved access for cytotoxic …

Toksisitas Akut Daun Justicia Gendarussa Burm, Berna Elya, Juheini Amin, Emiyanah Emiyanah

Makara Journal of Science

Acute Toxicity of Justicia gendarussa Burm. Leaves. Preminelary experiment showed that ethanolic extract of gandarusa leaves (Justicia gendarussa Burm.) could decreased uric acid blood level on rats. The aim of this experiment was to determine of the value LD50 and liver function based on activities of aminotransferase. Animals test which were used in this experiment were 50 males and 50 females white mice. They were divided into 5 groups. Group 1 as control group was given aquadest. Group 2-5 were treated by ethanolic extract of gandarusa leaves with dosage 4, 8, 16, and 32 g/kg bw. The LD50 value was …

Peningkatan Unjuk Kerja Hidrolisis Enzimatik Jerami Padi Menggunakan Campuran Selulase Kasar Dari Trichoderma Reesei Dan Aspergillus Niger, Nadiem Anwar, Arief Widjaja, Sugeng Winardi

Makara Journal of Science

Increasing the Performance of Enzymatic Hydrolysis of Rice Straw Using Mixed Crude Cellulases from Trichoderma reesei and Aspergillus niger. The objective of this work is to compare the effectiveness of mixed crude enzyme cellulase from T. reesei and A. niger with commercial enzyme from A. niger, and to investigate effect of enzyme to substrate ratio to performance of enzymatic hydrolysis of rice straw. The commercial enzyme from Fluka Biochemica was used, and crude enzyme were prepared by solid fermentation with simple media. Before hydrolized, the rice straw was grinded and sieved and then heated at 85 o C with 2% …

Purifikasi Dan Pencirian Enzim Protease Fibrinolitik Dari Ekstrak Jamur Merang, Dondin Sajuthi, Irma Suparto, Yanti Yanti, Willy Praira

Makara Journal of Science

Purification and Characterization of Fibrinolytic Proteases from Mushroom Volvariela volvaceae Extract. Edible straw mushroom (V. volvaceae) has been known used for improvement of blood circulation due to its fibrinolytic content. The objective of the study is to purify and characterize fibrinolytic protease from straw mushroom extract. Purification were performed through several steps, i.e. precipitation using ammonium sulphate 75%, dialyzed membran (cut-off 10 kDa), and ion-exchange chromatography using DEAE Sepharose. The active fraction of DEAE-Sepharose contains two purified protein bands with molecular weight of 12.9 and 15.8 kDa. The active fraction has specific activity of 0.383 U/mg with 2.7 fold higher …

Deteksi Integritas Genomik Pisang Hasil Iradiasi In Vitro Berdasarkan Penanda Mikrosatelit, Rita Megia, Nina Ratna Ratna

Makara Journal of Science

Genomic Integrity Detection of In Vitro Irradiated Banana Using Microsatellite Marker. The research aims to detect genomic integrity of in vitro irradiated banana using microsatellite marker. These studies were done on banana cv. Pisang Mas irradiated by 15 Gy of gamma ray. The DNA was isolated from each accesion following Dixie. Amplification of DNA products were done by Perkin Elmer Gene Amp PCR 2400 using ten primers, and then electroforesis in agarose 1%. Finally a vertical polyacrylamide gel electroforesis was run and the products were visualized by silver staining. The result shown that among the primers tested, eight primers produced …

Keragaman Genetik Pandan Asal Jawa Barat Berdasarkan Penanda Inter Simple Sequence Repeat, Sri Endarti Rahayu, Sri Handayani

Makara Journal of Science

Genetic Diversity of Pandanus from West Java based on ISSR Markers. The genetic diversity of 10 species of Pandanus from West Java was examined using inter simple sequence repeat (ISSR) technique. Samples were collected from different localities in West Java. Two primers (ISSR2 and ISSR7) were selected as reliable amplifying ISSR markers. The two primers amplified 19 band position, with amplification size ranged from 200 to 1500 bp. Genetic distance for samples ranged from 0.267 to 0.957. Genetic distance was high (0.957) between P. pseudolais and P. spinistigmaticus, and between P. kurzii and P. pseudolais, where as genetic distance was …

Troubleshooting In Expression And Purification Of Recombinant Severe Acute Respiratory Syndrome-Associated Coronavirus Nucleocapsid Protein In Escherichia Coli Bl21, Andi Yasmon, Fera Ibrahim, Budiman Bela

Makara Journal of Science

No abstract provided.