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https://www.readbyqxmd.com/read/28092385/visual-detection-of-multiple-genetically-modified-organisms-in-a-capillary-array
#1
Ning Shao, Jianwei Chen, Jiaying Hu, Rong Li, Dabing Zhang, Shujuan Guo, Junhou Hui, Peng Liu, Litao Yang, Sheng-Ce Tao
There is an urgent need for rapid, low-cost multiplex methodologies for the monitoring of genetically modified organisms (GMOs). Here, we report a C[combining low line]apillary A[combining low line]rray-based L[combining low line]oop-mediated isothermal amplification for M[combining low line]ultiplex visual detection of nucleic acids (CALM) platform for the simple and rapid monitoring of GMOs. In CALM, loop-mediated isothermal amplification (LAMP) primer sets are pre-fixed to the inner surface of capillaries...
January 16, 2017: Lab on a Chip
https://www.readbyqxmd.com/read/28091388/blood-meal-identification-of-the-mosquito-diptera-culicidae-specimens-belong-to-culex-pipiens-complex-that-were-collected-from-kayseri-province
#2
Seval Korkmaz, Alparslan Yıldırım, Önder Düzlü, Arif Çiloğlu, Zuhal Önder, Abdullah İnci
OBJECTIVE: This study aimed to determine the host preferences in blood meal of specimens belonging to Culex pipiens complex. METHODS: A total of 1284 female mosquitos were morphologically examined, and genomic DNA isolations were individually performed on 376 (28.4%) specimens that were determined to be Cx. pipiens complex. PCR was performed with primers to specifically amplify the avian and mammalian mitochondrial cytochrome b (mt-cytb) gene region. Amplicons were cloned, and the obtained plasmids were sequenced to determine host species...
December 2016: Türkiye Parazitolojii Dergisi
https://www.readbyqxmd.com/read/28090413/development-of-microsatellite-markers-in-garcinia-paucinervis-clusiaceae-an-endangered-species-of-karst-habitats
#3
Gang Hu, Zhong-Hua Zhang, Ping Yang, Qi-Wei Zhang, Chang-An Yuan
PREMISE OF THE STUDY: Microsatellite markers were developed for Garcinia paucinervis (Clusiaceae), an endangered and endemic tree species of karst habitats, to analyze its genetic diversity and genetic structure. METHODS AND RESULTS: Using shotgun sequencing on an Illumina MiSeq platform, a total of 22 microsatellite primer sets were characterized, of which 17 were identified as polymorphic. For these polymorphic loci, the total number of alleles per locus ranged from two to 12 across 54 individuals from three populations...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090411/development-of-ssr-markers-by-454-sequencing-in-the-endemic-species-gentianella-praecox-subsp-bohemica-gentianaceae
#4
Mária Šurinová, Jiří Brabec, Zuzana Münzbergová
PREMISE OF THE STUDY: Polymorphic microsatellite loci were developed and used to genotype individuals of Gentianella praecox subsp. bohemica (Gentianaceae), a highly protected taxon in Europe, to study the genetic structure of the remaining populations. METHODS AND RESULTS: Thirty-eight primer pairs were successfully amplified; of these, 12 polymorphic microsatellite loci were developed using a 454 sequencing approach and used to genotype 180 individuals of G. praecox subsp...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090409/development-and-characterization-of-23-microsatellite-loci-for-rhododendron-ovatum-ericaceae
#5
De-Chen Liu, Yang Zhang, Si-Si Wang, Meng-Yu Liao, Xin-Yu Fan, Yuan-Yuan Li, Rong Wang
PREMISE OF THE STUDY: To estimate the genetic variation of Rhododendron ovatum (Ericaceae), a monoecious evergreen shrub, 23 microsatellite markers were identified from its nuclear genome. METHODS AND RESULTS: We developed 16 polymorphic and seven monomorphic microsatellite primers using the biotin-streptavidin capture method. The 16 polymorphic loci were investigated further using 89 individuals sampled from three populations in China. The number of alleles per locus ranged from four to 30, indicating a high level of polymorphism...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090408/development-of-microsatellite-markers-for-viscum-coloratum-santalaceae-and-their-application-to-wild-populations
#6
Bo-Yun Kim, Han-Sol Park, Soonok Kim, Young-Dong Kim
PREMISE OF THE STUDY: Microsatellite primers were developed for Viscum coloratum (Santalaceae), a semiparasitic medicinal plant that is known for its anticancer properties. Due to excessive human harvesting and loss of suitable habitat of its populations, it has become a potentially threatened species requiring immediate conservation efforts. METHODS AND RESULTS: Based on transcriptome data for V. coloratum, 124 primer pairs were randomly selected for initial validation, of which 19 yielded polymorphic microsatellite loci, with two to six alleles per locus...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090265/identification-and-monitoring-of-korean-medicines-derived-from-cinnamomum-spp-by-using-its-and-dna-marker
#7
Eui Jeong Doh, Jung-Hoon Kim, Seung Eun Oh, Guemsan Lee
In this study, we identified and evaluated the genetic relationships among Cinnamomum plants, which are used in traditional medicine. We also attempted to monitor the distribution of traditional medicines derived from Cinnamomum cassia by using DNA barcoding and a species-specific DNA marker. Plants of the genus Cinnamomum, and in particular C. cassia, are commonly used as medicinal herbs in the form of Cinnamomi Ramulus, Cinnamomi Cortex, and Cassiae Cortex Interior. However, it is difficult to distinguish among different Cinnamomum species based on morphological features, and so to overcome this limitation, nucleotide sequences of the internal transcribed spacer (ITS) region of Cinnamomum DNA were determined and compared...
2017: Genes & Genomics
https://www.readbyqxmd.com/read/28090034/evaluation-of-sub-surface-penetration-and-bonding-durability-of-self-etching-primer-systems-to-er-yag-laser-treated-cervical-dentin
#8
Zhengdi He, Lingling Chen, Yasushi Shimada, Junji Tagami, Shuangchen Ruan
This study aimed to investigate self-etching bonding systems penetrating in sub-surface dentin layer after Er:YAG laser irradiation and micro-shear bonding durability over a period of 1 year. Dentin slices obtained from extracted human third molars were prepared. Two self-etching adhesive systems were evaluated: Clearfil SE Bond and Clearfil Tri-S Bond. Specimens were tested for micro-shear bond strength with one of the following treatments: Er:YAG laser irradiation and 600-grit silicon paper polishing at 24 h, 7 days, 6 months and 1 year...
January 13, 2017: Dental Materials Journal
https://www.readbyqxmd.com/read/28089755/biodistribution-and-retention-of-locally-administered-human-mesenchymal-stromal-cells-quantitative-polymerase-chain-reaction-based-detection-of-human-dna-in-murine-organs
#9
Michael Creane, Linda Howard, Timothy O'Brien, Cynthia M Coleman
BACKGROUND: Determining the distributive fate and retention of a cell therapy product after administration is an essential part of characterizing it's biosafety profile. Therefore, regulatory guidelines stipulate that biodistribution assays are a requirement prior to advancing a cell therapy to the clinic. Here the development of a highly sensitive quantitative polymerase chain reaction (qPCR)-based method of tracking the biodistribution and retention of human mesenchymal stromal cells (hMSCs) in mice, rats or rabbits is described...
January 12, 2017: Cytotherapy
https://www.readbyqxmd.com/read/28089700/new-synthetic-route-to-ethynyl-dutp-a-means-to-avoid-formation-of-acetyl-and-chloro-vinyl-base-modified-triphosphates-that-could-poison-selex-experiments
#10
Pascal Röthlisberger, Fabienne Levi-Acobas, Marcel Hollenstein
5-Ethynyl-2'-deoxyuridine is a common base-modified nucleoside analogue that has served in various applications including selection experiments for potent aptamers and in biosensing. The synthesis of the corresponding triphosphates involves a mild acidic deprotection step. Herein, we show that this deprotection leads to the formation of other nucleoside analogs which are easily converted to triphosphates. The modified nucleoside triphosphates are excellent substrates for numerous DNA polymerases under both primer extension and PCR conditions and could thus poison selection experiments by blocking sites that need to be further modified...
January 6, 2017: Bioorganic & Medicinal Chemistry Letters
https://www.readbyqxmd.com/read/28089613/high-frequency-of-hepatitis-e-virus-infection-in-swine-from-south-brazil-and-close-similarity-to-human-hev-isolates
#11
Ana Maria Passos-Castilho, Celso Francisco Hernandes Granato
Hepatitis E virus is responsible for acute and chronic liver infections worldwide. Swine hepatitis E virus has been isolated in Brazil, and a probable zoonotic transmission has been described, although data are still scarce. The aim of this study was to investigate the frequency of hepatitis E virus infection in pigs from a small-scale farm in the rural area of Paraná State, South Brazil. Fecal samples were collected from 170 pigs and screened for hepatitis E virus RNA using a duplex real-time RT-PCR targeting a highly conserved 70nt long sequence within overlapping parts of ORF2 and ORF3 as well as a 113nt sequence of ORF2...
January 3, 2017: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/28088897/multiplex-pcr-as-a-rapid-and-sensitive-method-for-identification-of-meat-species-in-halal-meat-products
#12
Mahsa Alikord, Javad Keramat, Mahdi Kadivar, Hassan Momtaz, Mohammad Naghi Eshtiaghi, Aziz Homayouni Rad
BACKGROUND: Species identification and authentication in meat products are important subjects for ensuring the health of consumers. The multiplex-PCR amplification and species-specific primer set were used for identification of horse, donkey, pig and other ruminants in raw and processed meat products. METHODS: Oligonucleotid primers were designed for amplification of species-specific mitochondrial DNA sequences of each species and samples were prepared from binary meat mixtures...
January 13, 2017: Recent Patents on Food, Nutrition & Agriculture
https://www.readbyqxmd.com/read/28088709/characterization-of-smokeless-powders-using-multiplexed-collision-induced-dissociation-mass-spectrometry-and-chemometric-procedures
#13
Kristen L Reese, A Daniel Jones, Ruth Waddell Smith
This work demonstrates a non-targeted mass spectrometry approach for identification of organic compounds in smokeless powders. Unburned powders were removed from various commercial ammunitions of different brand, primer composition, caliber, and age. The unburned powders and corresponding fired residues were analyzed by liquid chromatography-atmospheric pressure chemical ionization-time-of-flight mass spectrometry (LC-APCI-TOFMS). Multiplexed collision-induced dissociation was performed at increasing collision potentials resulting in successive fragmentation that provided structural information for compound identification in a non-targeted manner...
December 21, 2016: Forensic Science International
https://www.readbyqxmd.com/read/28088415/qualitative-and-quantitative-adulteration-identification-of-milk-powder-using-the-dna-with-novel-extraction-method
#14
J Liao, Y F Liu, T Ku, M H Liu, Y Huang
The extraction of high-quality DNA from processed dairy products can often represent the crucial step in an authentication process by PCR-based methods. In this study, we optimized a novel DNA extraction method for milk powder and used the extracted DNA for identification of milk powder based on PCR analysis. The DNA quality was assessed by amplifying target sequences from mitochondrial genes, as well as by monitoring the yield, purity, and integrity of the extracted DNA. In addition, a laboratory adulteration model of milk powder was detected by PCR-based methods (PCR and real-time PCR) using primers targeting the mitochondrial 12S rRNA gene...
January 11, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28088362/molecular-characterization-of-a-novel-orthomyxovirus-from-rainbow-and-steelhead-trout-oncorhynchus-mykiss
#15
William N Batts, Scott E LaPatra, Ryan Katona, Eric Leis, Terry Fei Fan Ng, Marine S O Brieuc, Rachel B Breyta, Maureen K Purcell, Carla M Conway, Thomas B Waltzek, Eric Delwart, James R Winton
A novel virus, rainbow trout orthomyxovirus (RbtOV), was isolated in 1997 and again in 2000 from commercially-reared rainbow trout (Oncorhynchus mykiss) in Idaho, USA. The virus grew optimally in the CHSE-214 cell line at 15°C producing a diffuse cytopathic effect; however, juvenile rainbow trout exposed to cell culture-grown virus showed no mortality or gross pathology. Electron microscopy of preparations from infected cell cultures revealed the presence of typical orthomyxovirus particles. The complete genome of RbtOV is comprised of eight linear segments of single-stranded, negative-sense RNA having highly conserved 5' and 3'-terminal nucleotide sequences...
January 11, 2017: Virus Research
https://www.readbyqxmd.com/read/28087959/a-study-on-hla-dr-dq-typing-in-adult-malay-patients-with-acute-amoebic-liver-abscess
#16
Z Nazli, N M S Azira, M Zeehaida, Z Nik Zairi, Y Nurul Khaiza, Y Maya Mazuwin
INTRODUCTION: Amoebiasis is a parasitic disease caused by Entamoeba histolytica that may lead to death in developing countries. Few important risk factors have been identified in the development of amoebic liver abscess (ALA). There are limited reports that suggest an association between antigens of the major histocompatibility complex (MHC) particularly class II antigens and ALA development. This present work aimed at studying the possible association of HLA antigens with ALA and disease severity...
December 2016: Medical Journal of Malaysia
https://www.readbyqxmd.com/read/28087803/epiphytic-planctomycetes-communities-associated-with-three-main-groups-of-macroalgae
#17
Joana Bondoso, Filipa Godoy-Vitorino, Vanessa Balagué, Josep M Gasol, Jens Harder, Olga Maria Lage
Planctomycetes, a unique group of widespread and understudied bacteria, are known to be associated with macroalgae. The temporal dynamics and the host-specific association of planctomycetal communities on Fucus spiralis, Ulva sp. and Chondrus crispus from two locations in the North Coast of Portugal were assessed both by denaturing gradient gel electrophoresis (DGGE) with group-specific primers and 16S rDNA amplicon libraries. The epiphytic planctomycetal communities showed a significant association with the host macroalgal species independently of the geographical location and the season...
January 12, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28087616/pathways-to-false-positive-diagnoses-using-molecular-genetic-detection-methods-phytophthora-cinnamomi-a-case-study
#18
Manisha Kunadiya, Diane White, William A Dunstan, Giles E St, J Hardy, Vera Andjic, Treena I Burgess
Phytophthora cinnamomi is one of the world's most invasive plant pathogens affecting ornamental plants, horticultural crops and natural ecosystems. Accurate diagnosis is very important to determine the presence or absence of this pathogen in diseased and asymptomatic plants. In previous studies, P. cinnamomi species-specific primers were designed and tested using various polymerase chain reaction (PCR) techniques including conventional PCR, nested PCR, and quantitative real time PCR (qPCR). In all cases, the primers were stated to be highly specific and sensitive to P...
January 12, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/28087539/quantitative-stability-of-hematopoietic-stem-and-progenitor-cell-clonal-output-in-transplanted-rhesus-macaques
#19
Samson J Koelle, Diego A Espinoza, Chuanfeng Wu, Jason Xu, Rong Lu, Brian Li, Robert E Donahue, Cynthia E Dunbar
Autologous transplantation of hematopoietic stem and progenitor cells lentivirally labeled with unique oligonucleotide barcodes flanked by sequencing primer targets enables quantitative assessment of the self-renewal and differentiation patterns of these cells in a myeloablative rhesus macaque model. Compared with other approaches to clonal tracking, this approach is highly quantitative and reproducible. We documented very stable multipotent long-term hematopoietic clonal output of monocytes, granulocytes, B cells and T cells from a polyclonal pool of hematopoietic stem and progenitor cells in four macaques followed for up to 49 months post-transplantation...
January 13, 2017: Blood
https://www.readbyqxmd.com/read/28087532/establishment-and-validation-of-rna-based-predictive-models-for-understanding-survival-of-vibrio-parahaemolyticus-in-oysters-stored-at-low-temperatures
#20
Chao Liao, Yong Zhao, Luxin Wang
: This study developed RNA-based predictive models describing the survival of Vibrio parahaemolyticus in Eastern oysters (Crassostrea virginica) during storage at 0, 4, and 10°C. Post-harvested oysters were inoculated with a cocktail of five V. parahaemolyticus strains and were then stored at 0, 4, and 10°C for 21 or 11 days. A real-time RT-PCR assay targeting expression of tlh gene was used to evaluate the number of surviving V. parahaemolyticus, which was then used to establish primary molecular models (MMs)...
January 13, 2017: Applied and Environmental Microbiology
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