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https://www.readbyqxmd.com/read/28225826/assessing-mycoplasma-contamination-of-cell-cultures-by-qpcr-using-a-set-of-universal-primer-pairs-targeting-a-1-5-kb-fragment-of-16s-rrna-genes
#1
Audrey Jean, Florence Tardy, Omran Allatif, Isabelle Grosjean, Bariza Blanquier, Denis Gerlier
Mycoplasmas (a generic name for Mollicutes) are a predominant bacterial contaminant of cell culture and cell derived products including viruses. This prokaryote class is characterized by very small size and lack of a cell wall. Consequently, mycoplasmas escape ultrafiltration and visualization under routine microscopic examination, hence the ease with which cells in culture can be contaminated, with routinely more than 10% of cell lines being contaminated. Mycoplasma are a formidable threat both in fundamental research by perverting a whole range of cell properties and functions and in the pharmacological use of cells and cell derived products...
2017: PloS One
https://www.readbyqxmd.com/read/28225823/a-novel-approach-to-eliminate-detection-of-contaminating-staphylococcal-species-introduced-during-clinical-testing
#2
Wanyuan Ao, Adrianne Clifford, Maylene Corpuz, Robert Jenison
We describe here a strategy that can distinguish between Staphylococcus species truly present in a clinical sample from contaminating Staphylococcus species introduced during the testing process. Contaminating Staphylococcus species are present at low levels in PCR reagents and colonize lab personnel. To eliminate detection of contaminants, we describe an approach that utilizes addition of sufficient quantities of either non-target Staphylococcal cells (Staphylococcus succinus or Staphylococcus muscae) or synthetic oligonucleotide templates to helicase dependent isothermal amplification reactions to consume Staphylococcus-specific tuf and mecA gene primers such that contaminating Staphylococcus amplification is suppressed to below assay limits of detection...
2017: PloS One
https://www.readbyqxmd.com/read/28224863/respiratory-care-gibson-vanessa-and-waters-david-eds-respiratory-care-282pp-%C3%A2-25-99-crc-press-9781482248708-1482248700-formula-see-text
#3
(no author information available yet)
The editors have compiled this book as a student primer on respiratory care. It covers the subject in 21 chapters and will be useful as a single introductory textbook.
February 22, 2017: Nursing Standard
https://www.readbyqxmd.com/read/28224782/erratum-detection-of-first-line-anti-tuberculosis-drug-resistance-mutations-by-allele-specific-primer-extension-on-a-microsphere-based-platform
#4
(no author information available yet)
This corrects the article on p. 487 in vol. 35, PMID: 26206684.
May 2017: Annals of Laboratory Medicine
https://www.readbyqxmd.com/read/28224264/how-people-think-about-the-chemicals-in-cigarette-smoke-a-systematic-review
#5
REVIEW
Jennifer C Morgan, M Justin Byron, Sabeeh A Baig, Irina Stepanov, Noel T Brewer
Laws and treaties compel countries to inform the public about harmful chemicals (constituents) in cigarette smoke. To encourage relevant research by behavioral scientists, we provide a primer on cigarette smoke toxicology and summarize research on how the public thinks about cigarette smoke chemicals. We systematically searched PubMed in July 2016 and reviewed citations from included articles. Four central findings emerged across 46 articles that met inclusion criteria. First, people were familiar with very few chemicals in cigarette smoke...
February 21, 2017: Journal of Behavioral Medicine
https://www.readbyqxmd.com/read/28224058/characterization-of-microsatellite-markers-in-two-exploited-african-trees-entandrophragma-candollei-and-e-utile-meliaceae
#6
Franck S Monthe, Jérôme Duminil, Félicien Tosso, Jérémy Migliore, Olivier J Hardy
PREMISE OF THE STUDY: Multiplexes of nuclear microsatellite primers were developed to investigate population genetic structure and diversity in two exploited African rainforest trees: Entandrophragma candollei and E. utile (Meliaceae). METHODS AND RESULTS: Microsatellite isolation was performed simultaneously on two nonenriched genomic libraries after next-generation sequencing. We developed 16 and 22 polymorphic markers for E. candollei and E. utile in three and four multiplexes, respectively...
February 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28224057/identification-and-characterization-of-microsatellite-markers-in-pinus-kesiya-var-langbianensis-pinaceae
#7
Nian-Hui Cai, Yu-Lan Xu, Da-Wei Wang, Shi Chen, Gen-Qian Li
PREMISE OF THE STUDY: Microsatellite primers were developed in Pinus kesiya var. langbianensis (Pinaceae), a species native to southwestern China, to investigate its genetic diversity and population structure in order to provide information for the conservation and management of this species. METHODS AND RESULTS: Using next-generation sequencing, a total of 2349 putative simple sequence repeat primer pairs were designed. Eighteen polymorphic markers in 60 individuals belonging to four populations of P...
February 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28224032/prevalence-of-intestinal-parasites-in-referred-individuals-to-the-medical-centers-of-tonekabon-city-mazandaran-province
#8
Samira Shahdoust, Maryam Niyyati, Ali Haghighi, Eznoallah Azargashb, Mohammad Reza Khataminejad
AIM: The aim of the present study was to determine the prevalence of intestinal parasites and their relation with socio-demographic data in referred individuals to the medical centers in Tonekabon, Mazandaran province, 2015. BACKGROUND: Due to the climatic and ecological conditions in Mazandaran province, determination of the status of intestinal parasites among referred individuals to the medical centers of Tonekabon city can help researchers and healthcare services to prevent and/or control of parasitic infection in this region...
December 2016: Gastroenterology and Hepatology From Bed to Bench
https://www.readbyqxmd.com/read/28222945/nad9-nad7-mitochondrial-nicotinamide-adenine-dinucleotide-dehydrogenase-gene-a-new-holy-grail-phylogenetic-and-dna-barcoding-marker-for-arcellinida-amoebozoa
#9
Quentin Blandenier, Enrique Lara, Edward A D Mitchell, Daniel M C Alcantara, Ferry J Siemensma, Milcho Todorov, Daniel J G Lahr
Molecular phylogeny is an indispensable tool for assessing evolutionary relationships among protists. The most commonly used marker is the small subunit ribosomal RNA gene, a conserved gene present in many copies in the nuclear genomes. However, this marker is not variable enough at a fine-level taxonomic scale, and intra-genomic polymorphism has already been reported. Finding a marker that could be useful at both deep and fine taxonomic resolution levels seemed like a utopic dream. We designed Amoebozoa-specific primers to amplify a region including partial sequences of two subunits of the mitochondrial nicotinamide adenine dinucleotide dehydrogenase gene (NAD9/NAD7)...
December 23, 2016: European Journal of Protistology
https://www.readbyqxmd.com/read/28222808/detection-and-genome-characterization-of-four-novel-bat-hepadnaviruses-and-a-hepevirus-in-china
#10
Bo Wang, Xing-Lou Yang, Wen Li, Yan Zhu, Xing-Yi Ge, Li-Biao Zhang, Yun-Zhi Zhang, Claus-Thomas Bock, Zheng-Li Shi
BACKGROUND: In recent years, novel hepadnaviruses, hepeviruses, hepatoviruses, and hepaciviruses have been discovered in various species of bat around the world, indicating that bats may act as natural reservoirs for these hepatitis viruses. In order to further assess the distribution of hepatitis viruses in bat populations in China, we tested the presence of these hepatitis viruses in our archived bat liver samples that originated from several bat species and various geographical regions in China...
February 22, 2017: Virology Journal
https://www.readbyqxmd.com/read/28222192/blastocystis-subtyping-and-its-association-with-intestinal-parasites-in-children-from-different-geographical-regions-of-colombia
#11
Juan David Ramírez, Carolina Flórez, Mario Olivera, María Consuelo Bernal, Julio Cesar Giraldo
Blastocystis is a common enteric protist colonizing probably more than 1 billion people with a large variety of non-human hosts. Remarkable genetic diversity has been observed, leading to the subdivision of the genus into multiple subtypes (ST), some of which are exclusively found in non-human hosts. The aim of this study was to determine the distribution of Blastocystis STs/18S alleles in symptomatic (abdominal pain, anal pruritus, diarrhea, headache, nauseas and/or vomit) and asymptomatic children from nine geographical regions of Colombia...
2017: PloS One
https://www.readbyqxmd.com/read/28222154/a-non-synonymous-snp-with-the-allele-frequency-correlated-with-the-altitude-may-contribute-to-the-hypoxia-adaptation-of-tibetan-chicken
#12
Sichen Li, Diyan Li, Xiaoling Zhao, Yan Wang, Huadong Yin, Lanyun Zhou, Chengling Zhong, Qing Zhu
The hypoxia adaptation to high altitudes is of considerable interest in the biological sciences. As a breed with adaptability to highland environments, the Tibetan chicken (Gallus gallus domestics), provides a biological model to search for genetic differences between high and lowland chickens. To address mechanisms of hypoxia adaptability at high altitudes for the Tibetan chicken, we focused on the Endothelial PAS domain protein 1 (EPAS1), a key regulatory factor in hypoxia responses. Detected were polymorphisms of EPAS1 exons in 157 Tibetan chickens from 8 populations and 139 lowland chickens from 7 breeds...
2017: PloS One
https://www.readbyqxmd.com/read/28222096/metacoder-an-r-package-for-visualization-and-manipulation-of-community-taxonomic-diversity-data
#13
Zachary S L Foster, Thomas J Sharpton, Niklaus J Grünwald
Community-level data, the type generated by an increasing number of metabarcoding studies, is often graphed as stacked bar charts or pie graphs that use color to represent taxa. These graph types do not convey the hierarchical structure of taxonomic classifications and are limited by the use of color for categories. As an alternative, we developed metacoder, an R package for easily parsing, manipulating, and graphing publication-ready plots of hierarchical data. Metacoder includes a dynamic and flexible function that can parse most text-based formats that contain taxonomic classifications, taxon names, taxon identifiers, or sequence identifiers...
February 21, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28221877/duplex-real-time-pcr-method-for-the-differentiation-of-cronobacter-sakazakii-and-cronobacter-malonaticus
#14
Xiaofang Li, Jinghua Cui, Xiaoli DU, Zhigang Cui, Yibing Huang, Biao Kan
Cronobacter sakazakii and Cronobacter malonaticus are the most common species of Cronobacter , so it is necessary to detect the two species as soon as possible in surveillance programs. We developed a real-time PCR method for identifying C. sakazakii and C. malonaticus from the genus Cronobacter . In this study, the two pairs of primers and probes were designed, targeting 16S rRNA and fusA, respectively. The specificity of the real-time PCR assay was validated with 112 strains of Cronobacter , including 56 C...
January 2017: Journal of Food Protection
https://www.readbyqxmd.com/read/28220326/simultaneous-detection-of-severe-acute-respiratory-syndrome-middle-east-respiratory-syndrome-and-related-bat-coronaviruses-by-real-time-reverse-transcription-pcr
#15
Ji Yeong Noh, Sun-Woo Yoon, Doo-Jin Kim, Moo-Seung Lee, Ji-Hyung Kim, Woonsung Na, Daesub Song, Dae Gwin Jeong, Hye Kwon Kim
Since severe acute respiratory syndrome (SARS) and Middle East respiratory syndrome (MERS) coronaviruses (CoVs) share similar characteristics with respect to clinical signs, etiology, and transmission, methods for a rapid and accurate differential diagnosis are important. Therefore, the aim of this study was to develop a duplex real-time reverse transcription (RT)-PCR method for the simultaneous detection of these viruses. Primers and probes that target the conserved spike S2 region of human SARS-CoV, MERS-CoV, and their related bat CoVs were designed...
February 20, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28220132/identification-of-marker-trait-associations-for-lint-traits-in-cotton
#16
Muhammad A Iqbal, Mehboob-Ur- Rahman
Harvesting high quality lint, a long-awaited breeding goal-accomplished partly, can be achieved by identifying DNA markers which could be used for diagnosing cotton plants containing the desired traits. In the present studies, a total of 185 cotton genotypes exhibiting diversity for lint traits were selected from a set of 546 genotypes evaluated for fiber traits in 2009. These genotypes were extensively studied for three consecutive years (2011-2013) at three different locations. Significant genetic variations were found for average boll weight, ginning out turn (GOT), micronaire value, staple length, fiber bundle strength, and uniformity index...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28218791/development-and-validation-of-the-first-ssr-markers-for-mimosa-scabrella-benth
#17
F A Saiki, A P Bernardi, M S Reis, H Faoro, E M Souza, F O Pedrosa, A Mantovani, A F Guidolin
Mimosa scabrella Benth., popularly known as ''bracatinga'', is a pioneer and endemic species of Brazil, occurring in Mixed Ombrophilous Forest associated with Brazilian Atlantic Rainforest biomes. It is a fast-growing tree of the Fabaceae family that facilitates the dynamics of ecological succession. SSR development, when there is no genome sequence, is time and labor intensive and there are no molecular markers for M. scabrella. We developed and validated the first microsatellite markers for this tetraploid species, evaluating mother trees and progenies...
February 16, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28216881/specific-pcr-identification-between-peucedanum-praeruptorum-and-angelica-decursiva-and-identification-between-them-and-adulterant-using-dna-barcode
#18
Bang-Xing Han, Yuan Yuan, Lu-Qi Huang, Qun Zhao, Ling-Ling Tan, Xiang-Wen Song, Xiao-Mei He, Tao Xu, Feng Liu, Jian Wang
BACKGROUND: The traditional Chinese medicine (TCM) Qianhu and Zihuaqianhu are the dried roots of Peucedanum praeruptorum and Angelica decursiva, respectively. Since the plant sources of Qianhu and Zihuaqianhu are more complex, the chemical compositions of P. praeruptorum and A. decursiva are significantly different, and many adulterants exist because of the differences in traditional understanding and medication habits. Therefore, the rapid and accurate identification methods are required...
January 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28216667/a-novel-hrm-assay-for-the-simultaneous-detection-and-differentiation-of-eight-poxviruses-of-medical-and-veterinary-importance
#19
Esayas Gelaye, Lukas Mach, Jolanta Kolodziejek, Reingard Grabherr, Angelika Loitsch, Jenna E Achenbach, Norbert Nowotny, Adama Diallo, Charles Euloge Lamien
Poxviruses belonging to the Orthopoxvirus, Capripoxvirus and Parapoxvirus genera share common host species and create a challenge for diagnosis. Here, we developed a novel multiplex PCR method for the simultaneous detection and differentiation of eight poxviruses, belonging to three genera: cowpox virus (CPXV) and camelpox virus (CMLV) [genus Orthopoxvirus]; goatpox virus (GTPV), sheeppox virus (SPPV) and lumpy skin disease virus (LSDV) [genus Capripoxvirus]; orf virus (ORFV), pseudocowpox virus (PCPV) and bovine papular stomatitis virus (BPSV) [genus Parapoxvirus]...
February 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28216509/development-of-microsatellite-markers-for-partially-and-putative-fully-mycoheterotrophic-varieties-of-pyrola-japonica-sensu-lato-ericaceae
#20
Kohtaroh Shutoh, Ayako Izuno, Yuji Isagi, Takahide Kurosawa, Shingo Kaneko
We developed microsatellite markers to compare the genetic variation and reproductive biology between the partially mycoheterotrophic Pyrola japonica var. japonica and the putative fully mycoheterotrophic P. japonica var. subaphylla. Fifteen primer pairs were developed for P. japonica sensu lato and they were tested on 77 ramets from three populations of the two varieties. Thirteen loci were polymorphic in at least one of the two var. japonica populations, whereas only four loci were polymorphic in the var...
February 20, 2017: Genes & Genetic Systems
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