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https://www.readbyqxmd.com/read/28542435/development-and-evaluation-of-a-bioinformatics-approach-for-designing-molecular-assays-for-viral-detection
#1
Pierre H H Schneeberger, Joël F Pothier, Andreas Bühlmann, Brion Duffy, Christian Beuret, Jürg Utzinger, Jürg E Frey
BACKGROUND: Viruses belonging to the Flaviviridae and Bunyaviridae families show considerable genetic diversity. However, this diversity is not necessarily taken into account when developing diagnostic assays, which are often based on the pairwise alignment of a limited number of sequences. Our objective was to develop and evaluate a bioinformatics workflow addressing two recurrent issues of molecular assay design: (i) the high intraspecies genetic diversity in viruses and (ii) the potential for cross-reactivity with close relatives...
2017: PloS One
https://www.readbyqxmd.com/read/28537542/malonate-degradation-in-acinetobacter-baylyi-adp1-operon-organization-and-regulation-by-mdcr
#2
Julie L Stoudenmire, Alicia L Schmidt, Melissa P Tumen-Velasquez, Kathryn T Elliott, Nicole S Laniohan, S Walker Whitley, Nickolaus R Galloway, Melesse Nune, Michael West, Cory Momany, Ellen L Neidle, Anna C Karls
Transcriptional regulators in the LysR or GntR families are typically encoded in the genomic neighbourhood of bacterial genes for malonate degradation. While these arrangements have been evaluated using bioinformatics methods, experimental studies demonstrating co-transcription of predicted operons were lacking. Here, transcriptional regulation was characterized for a cluster of mdc genes that enable a soil bacterium, Acinetobacter baylyi ADP1, to use malonate as a carbon source. Despite previous assumptions that the mdc-gene set forms one operon, our studies revealed distinct promoters in two different regions of a nine-gene cluster...
May 25, 2017: Microbiology
https://www.readbyqxmd.com/read/28536483/development-and-evaluation-of-an-immunochromatographic-assay-to-detect-serum-anti-leptospiral-lipopolysaccharide-igm-in-acute-leptospirosis
#3
Galayanee Doungchawee, Direk Sutdan, Kannika Niwatayakul, Tasanee Inwisai, Athisri Sitthipunya, Naphatsawan Boonsathorn, Titipatima Sakulterdkiat, Worachart Sirawaraporn, Visith Thongboonkerd
Leptospirosis is a common life-threatening disease worldwide. However, its diagnosis is frequently ineffective because the gold standard bacterial culture and microscopic agglutination test (MAT) are usually positive 1-2 weeks after the disease onset. We thus developed an immunochromatographic assay (LEPkit) to detect serum anti-leptospiral lipopolysaccharide (LPS) IgM for rapid diagnosis of acute leptospirosis. Using referenced sera of 77 leptospirosis and 91 non-leptospirosis cases, LEPkit yielded 97.4% sensitivity, 94...
May 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28531883/conventional-versus-ultrasound-guided-transbronchial-needle-aspiration-for-the-diagnosis-of-hilar-mediastinal-lymph-adenopathies-a-randomized-controlled-trial
#4
Martina Bonifazi, Irene Tramacere, Lina Zuccatosta, Federico Mei, Michele Sediari, Maria Cristina Paonessa, Stefano Gasparini
BACKGROUND: Conventional transbronchial needle aspiration (c-TBNA) and endobronchial ultrasound-guided transbronchial needle aspiration (EBUS-TBNA) are both valuable diagnostic techniques for the diagnosis of hilar/mediastinal lesions. Although a superiority of EBUS-TBNA over c-TBNA may be expected, evidence-based data on a direct comparison between these 2 procedures are still lacking. OBJECTIVES: We aimed to test the superiority of EBUS-TBNA over c-TBNA in a randomized trial and to evaluate the cost-effectiveness profile of a staged strategy, including c-TBNA as initial test followed by EBUS-TBNA, in case of inconclusive results at rapid on-site evaluation...
May 23, 2017: Respiration; International Review of Thoracic Diseases
https://www.readbyqxmd.com/read/28523302/the-use-of-ebus-tbna-and-rose-in-the-diagnosis-of-lung-cancer
#5
Mărioara Şimon, Bogdan Pop, Iuliana Lăcrămioara Toma, Aletta Kinga Vallasek, Ioan Şimon
Endobronchial ultrasound-guided transbronchial needle aspiration (EBUS-TBNA) is a minimally invasive method for diagnosing and staging of lung cancer. EBUS-TBNA obtained small specimens. Rapid on-site examination (ROSE) is a rapid, real-time examination method. The aim of our study is to evaluate the impact of ROSE on adequate specimen sampling, rapid results and high diagnostic rate. We present the experience of the Department of Bronchology, "Leon Daniello" Clinic of Pulmonology, Cluj-Napoca, Romania, with EBUS-TBNA as a tool for diagnostic of adenopathies of unknown etiology...
2017: Romanian Journal of Morphology and Embryology, Revue Roumaine de Morphologie et Embryologie
https://www.readbyqxmd.com/read/28521114/msc-ecm-cellular-complexes-induce-periodontal-tissue-regeneration
#6
M Takewaki, M Kajiya, K Takeda, S Sasaki, S Motoike, N Komatsu, S Matsuda, K Ouhara, N Mizuno, T Fujita, H Kurihara
Transplantation of mesenchymal stem cells (MSCs), which possess self-renewing properties and multipotency, into a periodontal defect is thought to be a useful option for periodontal tissue regeneration. However, developing more reliable and predictable implantation techniques is still needed. Recently, we generated clumps of an MSC/extracellular matrix (ECM) complex (C-MSC), which consisted of cells and self-produced ECM. C-MSCs can regulate their cellular functions in vitro and can be grafted into a defect site, without any artificial scaffold, to induce bone regeneration...
May 1, 2017: Journal of Dental Research
https://www.readbyqxmd.com/read/28512998/implementation-of-treat-to-target-in-rheumatoid-arthritis-through-a-learning-collaborative-results-of-the-traction-randomized-controlled-trial
#7
Daniel H Solomon, Elena Losina, Bing Lu, Agnes Zak, Cassandra Corrigan, Sara B Lee, Jenifer Agosti, Asaf Bitton, Leslie R Harrold, Ted Pincus, Helga Radner, Zhi Yu, Josef S Smolen, Liana Fraenkel, Jeffrey N Katz
BACKGROUND: Treat to target (TTT) is an accepted paradigm for management of rheumatoid arthritis (RA), but some evidence suggests poor adherence. We tested the effects of a group-based multi-site improvement Learning Collaborative (LC) on adherence to TTT. METHODS: We conducted a cluster-randomized quality improvement trial with wait-list control across 11 rheumatology sites in the US. The intervention entailed a 9-month group-based LC that incorporated rapid-cycle improvement methods...
May 17, 2017: Arthritis & Rheumatology
https://www.readbyqxmd.com/read/28508214/efficient-reverse-genetic-systems-for-rapid-genetic-manipulation-of-emergent-and-preemergent-infectious-coronaviruses
#8
Adam S Cockrell, Anne Beall, Boyd Yount, Ralph Baric
Emergent and preemergent coronaviruses (CoVs) pose a global threat that requires immediate intervention. Rapid intervention necessitates the capacity to generate, grow, and genetically manipulate infectious CoVs in order to rapidly evaluate pathogenic mechanisms, host and tissue permissibility, and candidate antiviral therapeutic efficacy. CoVs encode the largest viral RNA genomes at about 28-32,000 nucleotides in length, and thereby complicate efficient engineering of the genome. Deconstructing the genome into manageable fragments affords the plasticity necessary to rapidly introduce targeted genetic changes in parallel and assort mutated fragments while maximizing genome stability over time...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28507934/the-challenges-of-recombinant-endostatin-in-clinical-application-focus-on-the-different-expression-systems-and-molecular-bioengineering
#9
REVIEW
Abbas Mohajeri, Sarvin Sanaei, Farhad Kiafar, Amir Fattahi, Majid Khalili, Nosratollah Zarghami
Angiogenesis plays an essential role in rapid growing and metastasis of the tumors. Inhibition of angiogenesis is a putative strategy for cancer therapy. Endostatin (Es) is an attractive anti-angiogenesis protein with some clinical application challenges including; short half-life, instability in serum and requirement to high dosage. Therefore, production of recombinant endostatin (rEs) is necessary in large scale. The production of rEs is difficult because of its structural properties and is high-cost. Therefore, this review focused on the different expression systems that involved in rEs production including; mammalian, baculovirus, yeast, and Escherichia coli (E...
April 2017: Advanced Pharmaceutical Bulletin
https://www.readbyqxmd.com/read/28501174/polyhydric-polymer-functionalized-fluorescent-probe-with-enhanced-aqueous-solubility-and-specific-ion-recognition-a-test-strips-based-fluorimetric-strategy-for-the-rapid-and-visual-detection-of-fe-3-ions
#10
Zhiqiang Duan, Chunxian Zhang, Yuchun Qiao, Fengjuan Liu, Deyan Wang, Mengfan Wu, Ke Wang, Xiaoxia Lv, Xiangmu Kong, Hua Wang
A polyhydric polymer-functionalized probe with enhanced aqueous solubility was designed initially by coupling 1-pyrenecarboxyaldehyde (Pyr) onto poly(vinyl alcohol) (PVA) via the one-step condensation reaction. Polyhydric PVA polymer chains could facilitate the Pyr fluorophore with largely improved aqueous solubility and especially strong cyan fluorescence. Importantly, the fluorescence of the PVA-Pyr probes could thereby be quenched specifically by Fe(3+) ions through the strong PVA-Fe(3+) interaction triggering the polymeric probe aggregation...
August 1, 2017: Talanta
https://www.readbyqxmd.com/read/28496988/randomised-controlled-field-study-to-evaluate-the-efficacy-and-clinical-safety-of-a-single-8%C3%A2-mg-kg-injectable-dose-of-marbofloxacin-compared-with-one-or-two-doses-of-7-5%C3%A2-mg-kg-injectable-enrofloxacin-for-the-treatment-of-actinobacillus-pleuropneumoniae-infections
#11
Erik Grandemange, Pierre-Alexandre Perrin, Dejean Cvejic, Miriam Haas, Tim Rowan, Klaus Hellmann
BACKGROUND: Acute outbreaks of Actinobacillus pleuropneumoniae (APP) require rapid, effective, parenteral antimicrobial treatment. The efficacy and safety of a single, short-acting, high dose of marbofloxacin (Forcyl® swine 160 mg/mL) compared with 1 or 2 doses of 7.5 mg/kg enrofloxacin in APP outbreaks in European farms was studied. METHODS: A controlled, randomised block, blinded, multicentre, field study was conducted on four farms with acute respiratory disease associated with APP...
2017: Porcine Health Management
https://www.readbyqxmd.com/read/28487466/the-national-cancer-institute-community-cancer-centers-program-ncccp-sustaining-quality-and-reducing-disparities-in-guideline-concordant-breast-and-colon-cancer-care
#12
Pamela Spain, Stephanie Teixeira-Poit, Michael T Halpern, Kathleen Castro, Irene Prabhu Das, Brenda Adjei, Rebecca Lewis, Steven B Clauser
BACKGROUND: The National Cancer Institute Community Cancer Centers Program (NCCCP) pilot was designed to improve quality of cancer care and reduce disparities at community hospitals. The NCCCP's primary intervention was the implementation of the Commission on Cancer Rapid Quality Reporting System (RQRS). The RQRS is a hospital-based data collection and evaluation system allowing near real-time assessment of selected breast and colon cancer quality of care measures. Building on previous NCCCP analyses, this study examined whether improvements in quality cancer care within NCCCP hospitals early in the program were sustained and whether improvements were notable for minority or underserved populations...
May 9, 2017: Oncologist
https://www.readbyqxmd.com/read/28482282/effects-of-ambient-exposure-refrigeration-and-icing-on-vibrio-vulnificus-and-vibrio-parahaemolyticus-abundances-in-oysters
#13
J L Jones, K A Lydon, T P Kinsey, B Friedman, M Curtis, R Schuster, J C Bowers
Vibrio vulnificus (Vv) and V. parahaemolyticus (Vp) illnesses are typically acquired through the consumption of raw molluscan shellfish, particularly oysters. As Vibrio spp. are naturally-occurring bacteria, one means of mitigation of illness is achieved by limiting post-harvest growth. In this study, effects of ambient air storage, refrigeration, and icing of oysters on Vibrio spp. abundances were examined at two sites in Alabama (AL) [Dog River (DR) and Cedar Point (CP)] and one site in Delaware Bay, New Jersey (NJ)...
April 27, 2017: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/28472430/evaluation-of-secondary-dose-and-cancer-risk-for-out-of-field-organ-in-esophageal-cancer-imrt-in-a-chinese-hospital-using-atom-phantom-measurements
#14
Yaping Qi, Lijuan He, Zhi Wang, Yuanyuan Liu, Hongdong Liu, Wanli Huo, X George Xu, Zhi Chen
There have been few studies on the secondary cancer after radiation treatment in Chinese hospitals. This study has measured out-of-field absorbed organ doses from intensity-modulated radiation therapy (IMRT) radiotherapy for esophageal cancer in a Chinese hospital and evaluated the risks of secondary cancer. The dose measurements were based on the thermo-luminescence dosemeter (TLD) and the ATOM® phantom, which represents an adult male. Over 100 TLD chips were placed in 35 different organ sites and one group of the same TLDs was set as background contrast...
May 3, 2017: Radiation Protection Dosimetry
https://www.readbyqxmd.com/read/28472330/dynomics-dynamics-of-structural-proteome-and-beyond
#15
Hongchun Li, Yuan-Yu Chang, Ji Young Lee, Ivet Bahar, Lee-Wei Yang
DynOmics (dynomics.pitt.edu) is a portal developed to leverage rapidly growing structural proteomics data by efficiently and accurately evaluating the dynamics of structurally resolved systems, from individual molecules to large complexes and assemblies, in the context of their physiological environment. At the core of the portal is a newly developed server, ENM 1.0, which permits users to efficiently generate information on the collective dynamics of any structure in PDB format, user-uploaded or database-retrieved...
May 3, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28471839/impact-of-early-antiretroviral-therapy-on-the-performance-of-hiv-rapid-tests-and-hiv-incidence-assays
#16
Jessica M Fogel, Estelle Piwowar-Manning, Barbara Debevec, Tamara Walsky, Katherine Schlusser, Oliver Laeyendecker, Ethan A Wilson, Marybeth McCauley, Theresa Gamble, Gerald Tegha, MTech Biomed, Dean Soko, Johnstone Kumwenda, Mina C Hosseinipour, Ying Q Chen, Myron S Cohen, Susan H Eshleman
BACKGROUND: Antiretroviral therapy (ART) can down-regulate antibody responses to HIV infection. We evaluated the impact of early vs. delayed ART on the performance of HIV diagnostic and incidence assays. METHODS: Samples were obtained from 207 participants in the HPTN 052 trial who were stably suppressed on ART for ≥4 years (Malawi sites; pre-ART CD4 cell count 350-550 cells/mm [early ART arm, N=180] or <250 cells/mm or an AIDS-defining illness [delayed ART arm, N=27])...
April 26, 2017: Journal of Acquired Immune Deficiency Syndromes: JAIDS
https://www.readbyqxmd.com/read/28470965/diagnostic-utility-of-fine-needle-aspiration-cytology-of-lesions-involving-bone
#17
Gordon H Yu, Julia Maisel, Renee Frank, Bryan A Pukenas, Ronnie Sebro, Kristy Weber
BACKGROUND: Fine-needle aspiration (FNA) is utilized in the diagnostic work-up of bone lesions in a number of institutions, either in isolation or in conjunction with core biopsy. We report our experience with FNA of bone-based lesions, including comparison of this approach with concurrent core biopsy specimens. METHODS: Retrospective review over a 5-year period (2011-2015) revealed 233 cases of bone FNAs. RESULTS: The most commonly encountered diagnosis was malignant neoplasm (160 cases, 68...
May 3, 2017: Diagnostic Cytopathology
https://www.readbyqxmd.com/read/28457746/comparing-the-palliative-care-needs-of-those-with-cancer-to-those-with-common-non-cancer-serious-illness
#18
Doran Bostwick, Steven Wolf, Greg Samsa, Janet Bull, Donald H Taylor, Kimberly S Johnson, Arif Kamal
BACKGROUND: Historically, palliative care has been focused on those with cancer. While these ties persist, palliative care is rapidly integrating into the care of patients with common, non-cancer serious illnesses. Despite this, the bulk of literature informing palliative care practices stems from the care of cancer patients. OBJECTIVES: We compared functionality, advanced care planning, hospital admissions, prognosis, quality of life, pain, dyspnea, fatigue, and depression between patients with cancer and three non-cancer diagnoses--end stage renal disease (ESRD), heart failure (HF), and chronic obstructive pulmonary disease (COPD)...
April 27, 2017: Journal of Pain and Symptom Management
https://www.readbyqxmd.com/read/28454557/longitudinal-genomic-surveillance-of-plasmodium-falciparum-malaria-parasites-reveals-complex-genomic-architecture-of-emerging-artemisinin-resistance
#19
Gustavo C Cerqueira, Ian H Cheeseman, Steve F Schaffner, Shalini Nair, Marina McDew-White, Aung Pyae Phyo, Elizabeth A Ashley, Alexandre Melnikov, Peter Rogov, Bruce W Birren, François Nosten, Timothy J C Anderson, Daniel E Neafsey
BACKGROUND: Artemisinin-based combination therapies are the first line of treatment for Plasmodium falciparum infections worldwide, but artemisinin resistance has risen rapidly in Southeast Asia over the past decade. Mutations in the kelch13 gene have been implicated in this resistance. We used longitudinal genomic surveillance to detect signals in kelch13 and other loci that contribute to artemisinin or partner drug resistance. We retrospectively sequenced the genomes of 194 P. falciparum isolates from five sites in Northwest Thailand, over the period of a rapid increase in the emergence of artemisinin resistance (2001-2014)...
April 28, 2017: Genome Biology
https://www.readbyqxmd.com/read/28454453/targeting-assay-of-a-fusion-protein-applied-in-enzyme-prodrug-therapy
#20
Hao Wang, Jin-Jian Liu, Xiao-Liang Zhou
Tumor growth and metastasis are dependent on angiogenesis. The overexpression of integrin αvβ3 on angiogenic vessels and on numerous malignant human tumor cells suggests that these labeled ligands of integrin are potentially suitable for molecular imaging and in targeted therapy of tumors. In previous studies, we added a β-lactamase variant with reduced immunogenicity to the cyclic peptide RGD4C, resulting in the fusion protein RGD4CβL, which is suitable for use in targeted enzyme prodrug therapy (TEPT), a promising treatment for tumors...
April 2017: Oncology Letters
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