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https://www.readbyqxmd.com/read/28334803/statistical-analysis-of-genetic-interactions-in-tn-seq-data
#1
Michael A DeJesus, Subhalaxmi Nambi, Clare M Smith, Richard E Baker, Christopher M Sassetti, Thomas R Ioerger
Tn-Seq is an experimental method for probing the functions of genes through construction of complex random transposon insertion libraries and quantification of each mutant's abundance using next-generation sequencing. An important emerging application of Tn-Seq is for identifying genetic interactions, which involves comparing Tn mutant libraries generated in different genetic backgrounds (e.g. wild-type strain versus knockout strain). Several analytical methods have been proposed for analyzing Tn-Seq data to identify genetic interactions, including estimating relative fitness ratios and fitting a generalized linear model...
February 22, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334194/swga-a-primer-design-toolkit-for-selective-whole-genome-amplification
#2
Erik L Clarke, Sesh A Sundararaman, Stephanie N Seifert, Frederic D Bushman, Beatrice H Hahn, Dustin Brisson
Motivation: Population genomic analyses are often hindered by difficulties in obtaining sufficient numbers of genomes for analysis by DNA sequencing. Selective whole-genome amplification (SWGA) provides an efficient approach to amplify microbial genomes from complex backgrounds for sequence acquisition. However, the process of designing sets of primers for this method has many degrees of freedom and would benefit from an automated process to evaluate the vast number of potential primer sets...
February 27, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334088/relapse-re-infection-and-mixed-infections-in-tuberculosis-disease
#3
Amanda McIvor, Hendrik Koornhof, Bavesh Davandra Kana
Tuberculosis (TB) disease can be characterized by genotypic and phenotypic complexity in Mycobacterium tuberculosis bacilli within a single patient. This microbiological heterogeneity has become an area of intense study due its perceived importance in drug tolerance, drug resistance and as a surrogate measure of transmission rates. This review presents a descriptive analysis of research describing the prevalence of mixed strain TB infections in geographically distinct locations. Despite significant variation in disease burden and a rampant HIV-TB co-epidemic, there was no difference in the prevalence range of mixed infections reported in African countries when compared to the rest of the world...
February 18, 2017: Pathogens and Disease
https://www.readbyqxmd.com/read/28333978/association-between-genotype-and-drug-resistance-profiles-of-mycobacterium-tuberculosis-strains-circulating-in-china-in-a-national-drug-resistance-survey
#4
Yang Zhou, Susan van den Hof, Shengfen Wang, Yu Pang, Bing Zhao, Hui Xia, Richard Anthony, Xichao Ou, Qiang Li, Yang Zheng, Yuanyuan Song, Yanlin Zhao, Dick van Soolingen
We describe the population structure of a representative collection of 3,133 Mycobacterium tuberculosis isolates, collected within the framework of a national resistance survey from 2007 in China. Genotyping data indicate that the epidemic strains in China can be divided into seven major complexes, of which 92% belonged to the East Asian (mainly Beijing strains) or the Euro-American lineage. The epidemic Beijing strains in China are closely related to the Beijing B0/W148 strain earlier described in Russia and a large cluster of these strains has spread national wide...
2017: PloS One
https://www.readbyqxmd.com/read/28331837/public-health-relevance-of-non-tuberculous-mycobacteria-among-afb-positive-sputa
#5
Prabha Desikan, Karuna Tiwari, Nikita Panwalkar, Saima Khaliq, Manju Chourey, Reeta Varathe, Shaina Beg Mirza, Arun Sharma, Sridhar Anand, Manoj Pandey
BACKGROUND: Sputum smear microscopy for acid fast bacilli (AFB) is used by most public health programmes to detect tuberculosis. While most AFB in countries endemic for tuberculosis are Mycobacterium tuberculosis (MTB), some may also be non-tuberculous mycobacteria (NTM). The inability to differentiate NTM from MTB by sputum smear microscopy may lead to erroneous diagnoses of tuberculosis, leading in turn to inappropriate therapy. METHODS: This was a retrospective study of consecutive sputum samples received from November 2013 to March 2015 in the Department of Microbiology, Bhopal Memorial Hospital & Research Centre, Bhopal, India...
March 2017: Germs
https://www.readbyqxmd.com/read/28331796/an-unexpected-finding-in-a-man-with-multiple-pulmonary-nodules-a-pleural-effusion-and-respiratory-failure
#6
Yik Lam Pang, Quentin Jones
We report the case of a 47-year old Caucasian man with a history of depression and high alcohol intake who presented with a one-month history of weight loss, dry cough and abdominal pain. He had no smoking history of note. The patient was treated for a suspected chest infection, however developed respiratory failure and was intubated. A CT showed multiple pulmonary nodules, left pleural thickening extending to the mediastinum and bilateral pleural effusions-larger on the left, suggestive of disseminated malignancy...
2017: Respiratory Medicine Case Reports
https://www.readbyqxmd.com/read/28331211/association-between-the-mif-173g-c-polymorphism-and-serum-mif-levels-with-pulmonary-tuberculosis-a-meta-analysis
#7
Xiang Tong, Zhipeng Yan, Qilong Zhou, Sitong Liu, Jing Han, Yao Ma, Xue Yang, Hong Fan
Many studies have indicated that Macrophage migration inhibitory factor (MIF)-173G/C gene polymorphisms are associated with susceptibility to pulmonary tuberculosis (PTB). Additionally, some studies have suggested that there are higher levels of serum MIF in patients with PTB than the controls. However, the results of these studies were underpowered. The current study aimed to precisely evaluate the association between the MIF-173G/C polymorphism and serum MIF concentrations with PTB. Therefore, a systematic literature search was preformed to identify studies involving the indicated association...
March 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28330178/emergence-of-mixed-infection-of-beijing-non-beijing-strains-among-multi-drug-resistant-mycobacterium-tuberculosis-in-pakistan
#8
Samar Mustafa, Hasnain Javed, Jawairia Hashmi, Nazia Jamil, Zarfishan Tahir, Abdul Majeed Akhtar
Tuberculosis (TB) remains as one of the deadliest diseases after HIV globally with 95 % of deaths confined to low-and-middle income countries. Pakistan is fifth among the 22 high-burden TB countries with the incidence rate of 230/100,000 persons, however, studies related to prevalent Mycobacterium tuberculosis strains and their spread, drug resistance pattern and evolutionary genetics are inadequate. The present study was undertaken to highlight the circulation of M. tuberculosis strains causing drug resistant TB in our community by targeting the molecular marker IS6110 and then characterization of these strains as Beijing and Non-Beijing genotypes...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28329590/concomitant-metastatic-cutaneous-tuberculous-abscesses-and-pott-disease-in-an-immunocompetent-patient
#9
Ana Marcos-Pinto, Tiago Marques, António Pedro Machado, Luís Soares-de-Almeida, Paulo Filipe
Tuberculosis affects one-third of the world's population. The incidence of extrapulmonary tuberculosis including cutaneous and skeletal manifestations has increased in the last decades. The authors report a clinical case of concomitant metastatic cutaneous abscesses and Pott disease in an immunocompetent patient, a rare presentation of tuberculosis.
October 15, 2016: Dermatology Online Journal
https://www.readbyqxmd.com/read/28329197/systematic-review-meta-analysis-and-cost-effectiveness-of-treatment-of-latent-tuberculosis-infection-to-reduce-progression-to-multidrug-resistant-tuberculosis
#10
Suzanne M Marks, Sundari R Mase, Sapna Bamrah Morris
Background: Evidence-based recommendations for treating persons having presumed latent tuberculosis infection (LTBI) after contact to infectious multidrug-resistant tuberculosis (MDR TB) are lacking because published data consist of small observational studies. TB incidence in persons treated for latent multidrug-resistant-TB infection (MDR LTBI) is unknown. Methods: We conducted a systematic review of studies published (1/1/1994-12/31/2014) to analyze TB incidence, treatment completion and discontinuation, and cost effectiveness...
March 14, 2017: Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America
https://www.readbyqxmd.com/read/28327495/risk-factors-for-latent-tuberculosis-infection-ltbi-in-health-profession-s-students-of-the-university-of-parma
#11
Silvia Bonini, Maria Grazia Riccelli, Matteo Goldoni, Luisella Selis, Massimo Corradi
BACKGROUND AND AIM OF THE WORK: Nowadays Tuberculosis (TB) is one of the major Public Health problems for several professional categories. According to Italian law, University students are compared to workers: the main risk for them is represented by biological risk, in particular by blood-transmitted or by air-transmitted agents. As for TB, many scientific studies demonstrated that prevalence of latent tuberculosis infection (LTBI) in Medicine and Surgery students was lower than those in health workers and in general population...
March 14, 2017: Acta Bio-medica: Atenei Parmensis
https://www.readbyqxmd.com/read/28327423/characterization-of-an-extracellular-protein-rv1076-from-m-tuberculosis-with-a-potential-role-in-humoral-response
#12
Gurkamaljit Kaur, Bandana Kumari, Jagdeep Kaur
Many mycobacterial proteins involved in lipid metabolism are reported to be essential for survival and pathogenesis of M. tuberculosis. Rv1076 of M. tuberculosis has been annotated as a putative esterase/lipase based on the consensus sequence 'GXSXG'. It is conserved in all the mycobacterial species. Therefore, in the present study we have characterized Rv1076 gene product in detail. The gene rv1076 was expressed in E. coli and purified from inclusion bodies with approx. 40% yield. The protein showed high specific activity with pNP- butyrate as preferred substrate...
March 19, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/28323168/production-and-characterization-of-a-highly-pure-rna-polymerase-holoenzyme-from-mycobacterium-tuberculosis
#13
Omar Herrera-Asmat, Lucyna Lubkowska, Mikhail Kashlev, Carlos J Bustamante, Daniel G Guerra, Maria L Kireeva
Recent publications have shown that active RNA polymerase (RNAP) from Mycobacterium tuberculosis (MtbRNAP) can be produced by expressing all four subunits in a single recombinant Escherichia coli strain [1-3]. By reducing the number of plasmids and changing the codon usage of the Mtb genes in the co-expression system published by Banerjee et al. [1], we present a simplified, detailed and reproducible protocol for the purification of recombinant MtbRNAP containing the ω subunit. Moreover, we describe the formation of ternary elongation complexes (TECs) with a short fluorescence-labeled RNA primer and DNA oligonucleotides, suitable for transcription elongation studies...
March 17, 2017: Protein Expression and Purification
https://www.readbyqxmd.com/read/28321284/gynaecomastia-in-two-men-on-stable-antiretroviral-therapy-who-commenced-treatment-for-tuberculosis
#14
Jeremy D Kratz, Ahmad Y El-Shazly, Santos G Mambuque, Elpidio Demetria, Peter Veldkamp, Timothy S Anderson
Gynaecomastia is a common clinical presentation that varies from benign presentations in stages of human development to hormonal pathology, mainly due to hepatic dysfunction, malignancy, and adverse pharmacologic effects. We describe the development of significant bilateral gynaecomastia after starting treatment for pulmonary tuberculosis (TB) in two males with WHO stage III Human Immunodeficiency Virus (HIV) infection on stable antiretroviral regimens. Emerging reports suggest that distinct hepatic impairment in efavirenz metabolism modulates oestrogenic activity, which may be potentiated by anti-tuberculosis therapy...
December 2016: Malawi Medical Journal: the Journal of Medical Association of Malawi
https://www.readbyqxmd.com/read/28320401/prevalence-of-tuberculous-lesion-in-cattle-slaughtered-in-mubende-district-uganda
#15
Daniel Pakasi Nalapa, Adrian Muwonge, Clovice Kankya, Francisco Olea-Popelka
BACKGROUND: The aim of this study was to estimate the prevalence of gross pathology suggestive of bovine tuberculosis (TB-like lesions) and evaluate animal's characteristics associated with the risk of having bovine TB-like lesions among cattle slaughtered in Mubende district in the Uganda cattle corridor. METHOD: We conducted a cross sectional study in which 1,576 slaughtered cattle in Mubende district municipal abattoir underwent post-mortem inspection between August 2013 and January 2014...
March 21, 2017: BMC Veterinary Research
https://www.readbyqxmd.com/read/28320384/diagnostic-accuracy-incremental-yield-and-prognostic-value-of-determine-tb-lam-for-routine-diagnostic-testing-for-tuberculosis-in-hiv-infected-patients-requiring-acute-hospital-admission-in-south-africa-a-prospective-cohort
#16
Stephen D Lawn, Andrew D Kerkhoff, Rosie Burton, Charlotte Schutz, Andrew Boulle, Monica Vogt, Ankur Gupta-Wright, Mark P Nicol, Graeme Meintjes
BACKGROUND: We previously reported that one-third of HIV-positive adults requiring medical admission to a South African district hospital had laboratory-confirmed tuberculosis (TB) and that almost two-thirds of cases could be rapidly diagnosed using Xpert MTB/RIF-testing of concentrated urine samples obtained on the first day of admission. Implementation of urine-based, routine, point-of-care TB screening is an attractive intervention that might be facilitated by use of a simple, low-cost diagnostic tool, such as the Determine TB-LAM lateral-flow rapid test for HIV-associated TB...
March 21, 2017: BMC Medicine
https://www.readbyqxmd.com/read/28319425/overcoming-challenges-in-the-diagnosis-prevention-and-treatment-of-pediatric-drug-resistant-tuberculosis
#17
Sylvie Jonckheree, Jennifer Furin
Drug-resistant tuberculosis (DR-TB) is a growing global health threat and children are especially vulnerable to becoming infected and sick with DR-TB. There is a growing body of evidence on the optimal diagnosis, treatment and prevention of DR-TB in this vulnerable population. Areas covered: A comprehensive review of the literature on DR-TB in children was done using PubMed and Ovid databases up to December 31, 2016. Topic areas covered included diagnosis of DR-TB, treatment of DR-TB-including novel medications and regimens, prevention of DR-TB, community-based care, and stigma/discrimination...
March 20, 2017: Expert Review of Respiratory Medicine
https://www.readbyqxmd.com/read/28318770/expression-of-cathepsin-s-in-bcg-converts-it-into-a-pro-apoptotic-and-highly-immunogenic-strain
#18
Alice Lau, Vijender Singh, Hafid Soualhine, Zakaria Hmama
BACKGROUND: BCG vaccine, introduced almost 100years ago, is the only option to prevent TB disease. It effectively protects newborns from meningeal TB but fails to prevent adult pulmonary TB. TB kills 1.3million people annually in areas where BCG vaccination is widely practiced. Thus, more effective TB vaccines are urgently needed. Others and we have shown that BCG mimics features of virulent M. tuberculosis, in particular attenuation of essential macrophage functions such as phagosome maturation and antigen presentation...
March 16, 2017: Vaccine
https://www.readbyqxmd.com/read/28318350/clinical-course-and-outcomes-of-pediatric-tubercular-uveitis-in-north-india
#19
Savleen Kaur, Kanika Aggarwal, Aniruddha Agarwal, Deepti Suri, Anju Gupta, Ramandeep Singh, Reema Bansal, Surjit Singh, Nirbhai Singh, Amod Gupta, Vishali Gupta
PURPOSE: To analyze the clinical features, course, management, and outcomes of tubercular (TB) uveitis in the pediatric population and assess the response to anti-tubercular therapy (ATT). METHODS: Hospital records of children (≤16 years) from a large tertiary-care institute between January 2001 and December 2015 were reviewed. RESULTS: A total of 32 children (mean age: 10.7 ± 4.27 years; range 2-16) were diagnosed with TB-associated uveitis...
March 20, 2017: Ocular Immunology and Inflammation
https://www.readbyqxmd.com/read/28318196/-paradoxical-reaction-to-antituberculosis-treatment-in-an-immunocompetent-girl-with-pulmonary-tuberculosis
#20
Ignacio Ruiz Del Olmo Izuzquiza, Claudia Orden Rueda, Laura Ochoa Gómez, Nuria Clavero Montañés, Enrique Berdún Chéliz, Carmelo Guerrero Laleona
Paradoxical reaction to antituberculosis treatment is rare in paediatric population. We report a 9-year-old girl with high fever and productive cough for the last three weeks. Tuberculine test and Quantiferon were positive, erythrocyte sedimentation rate was 64 mm/h, culture and polymerase chain reaction for M. tuberculosis negative, and chest X ray showed a widened right mediastinum. Tuberculosis was diagnosed, therefore treatment with standard doses of rifampicin, isoniazid, pyrazinamide and ethambutol was started...
April 1, 2017: Archivos Argentinos de Pediatría
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