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https://www.readbyqxmd.com/read/28918548/tumor-and-serum-dna-methylation-in-women-receiving-preoperative-chemotherapy-with-or-without-vorinostat-in-tbcrc008
#1
Roisin M Connolly, Mary Jo Fackler, Zhe Zhang, Xian C Zhou, Matthew P Goetz, Judy C Boughey, Bridget Walsh, John T Carpenter, Anna Maria Storniolo, Stanley P Watkins, Edward W Gabrielson, Vered Stearns, Saraswati Sukumar
BACKGROUND: Methylated gene markers have shown promise in predicting breast cancer outcomes and treatment response. We evaluated whether baseline and changes in tissue and serum methylation levels would predict pathological complete response (pCR) in patients with HER2-negative early breast cancer undergoing preoperative chemotherapy. METHODS: The TBCRC008 trial investigated pCR following 12 weeks of preoperative carboplatin and albumin-bound paclitaxel + vorinostat/placebo (n = 62)...
September 16, 2017: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/28918434/improved-dna-purification-with-quality-assurance-for-evaluation-of-the-microbial-genetic-content-of-constructed-wetlands
#2
Wenda Huang, Jingjing Guo, Ran Tao, Ying Man, Yunv Dai, Yang Yang
Efficient isolation of target DNA is a crucial first step of DNA-based metagenomic analyses of environmental samples. Insufficient quantity and purity of DNA isolated using commercial kits result in missing genetic information, especially for large-diameter substrates in constructed wetlands (CWs). Here, we addressed this problem by devising a cost-effective calcium chloride lysozyme-sodium dodecyl sulfate (SDS) method (CCLS), with key improvements in the steps of humic acid removal and cell lysis. The buffer comprising Tris, EDTA, Na2O2P7 and PVPP (TENP), and skim milk, could reduce adsorption between microorganisms and substrates, and calcium chloride precipitated and removed over 94% of humic acid...
September 16, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28918068/a-simple-and-rapid-dna-extraction-method-for-chlamydia-trachomatis-detection-from-urogenital-swabs
#3
Matthew A Butzler, Jennifer L Reed, Sally M McFall
A highly sensitive and specific Chlamydia trachomatis (CT) diagnostic test was developed by combining filtration isolation of nucleic acid (FINA) extraction with quantitative polymerase chain reaction including an internal control to identify test inhibition. A pilot study of 40 clinical specimens yielded 100% sensitivity and specificity.
August 17, 2017: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/28917803/atp-mediated-rolling-circle-amplification-and-opening-dna-gate-for-drug-delivery-to-cell
#4
Yujie Wang, Xinxin Shang, Jia Liu, Yingshu Guo
Here, we have developed a facile fluorometric system for the detection of adenosine triphosphate (ATP) by a rolling circle amplification (RCA) based on proximity ligation mediated amplification, and simultaneously achieved the release of the anticancer drug doxorubicin (DOX) through the mesoporous silicon system. Once the ATP molecule is present, the linker DNA will be released from the graphene oxide (GO) surface and hybridized to the template DNA of the GO surface joining with ligation enzyme. RCA reaction is followed by the addition of the phi29 DNA polymerase...
January 1, 2018: Talanta
https://www.readbyqxmd.com/read/28917710/molecular-identification-of-vermamoeba-vermiformis-from-freshwater-fish-in-lake-taal-philippines
#5
Giovanni D Milanez, Frederick R Masangkay, Rey C Thomas, Ma Olive Grace O Ordona, Gabriel Q Bernales, Vyanna Camille M Corpuz, Hannah Selina V Fortes, Charezze Margarette S Garcia, Larra Camille Nicolas, Veeranoot Nissapatorn
Free Living Amoebae (FLA) are considered ubiquitous. FLAs may infect various biological organisms which act as reservoir hosts. Infected freshwater fishes can pose a public health concern due to possible human consumption. This study aims to identify possible pathogenic FLAs present in freshwater fishes. Seventy five (75) Oreochromis niloticus were studied for the presence of FLAs. Fish organs were suspended in physiologic saline pelleted and cultured in non-nutrient agar (NNA) lawned with Escherichia coli and were incubated in 33 °C for 14 days...
September 13, 2017: Experimental Parasitology
https://www.readbyqxmd.com/read/28916777/the-catalytic-subunit-of-dna-polymerase-%C3%AE-inhibits-%C3%AE-turc-activity-and-regulates-golgi-derived-microtubules
#6
Yuehong Shen, Pengfei Liu, Taolue Jiang, Yu Hu, Franco K C Au, Robert Z Qi
γ-Tubulin ring complexes (γTuRCs) initiate microtubule growth and mediate microtubule attachment at microtubule-organizing centers, such as centrosomes and the Golgi complex. However, the mechanisms that control γTuRC-mediated microtubule nucleation have remained mostly unknown. Here, we show that the DNA polymerase δ catalytic subunit (PolD1) binds directly to γTuRCs and potently inhibits γTuRC-mediated microtubule nucleation. Whereas PolD1 depletion through RNA interference does not influence centrosome-based microtubule growth, the depletion augments microtubule nucleation at the Golgi complex...
September 15, 2017: Nature Communications
https://www.readbyqxmd.com/read/28916726/the-nqo1-bioactivatable-drug-%C3%AE-lapachone-alters-the-redox-state-of-nqo1-pancreatic-cancer-cells-causing-perturbation-in-central-carbon-metabolism
#7
Molly A Silvers, Stanislaw Deja, Naveen Singh, Robert A Egnatchik, Jessica Sudderth, Xiuquan Luo, Muhammad S Beg, Shawn C Burgess, Ralph J DeBerardinis, David A Boothman, Matthew E Merritt
Many cancer treatments, such as those for managing recalcitrant tumors like pancreatic ductal adenocarcinoma, cause off-target toxicities in normal, healthy tissue, highlighting the need for more tumor-selective chemotherapies. β-Lapachone is bioactivated by NAD(P)H:quinone oxidoreductase 1 (NQO1). This enzyme exhibits elevated expression in most solid cancers and therefore is a potential cancer-specific target. β-Lapachone's therapeutic efficacy partially stems from the drug's induction of a futile NQO1-mediated redox cycle that causes high levels of superoxide, then peroxide formation, which damages DNA and causes hyperactivation of poly (ADP-ribose) polymerase (PARP), resulting in extensive NAD+/ATP depletion...
September 15, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28916355/grouper-stat1a-is-involved-in-antiviral-immune-response-against-iridovirus-and-nodavirus-infection
#8
Jingcheng Zhang, Xiaohong Huang, Songwei Ni, Jiaxin Liu, Yin Hu, Ying Yang, Yepin Yu, Linli Zhou, Qiwei Qin, Youhua Huang
Signal Transducer and Activator of Transcription 1 (STAT1) has been demonstrated to function as a critical mediator in multiple cell processes, such as cell proliferation, cell death, and innate immune response. Interestingly, two orthologues of human STAT1, including STAT1a and STAT1b genes have been identified in different fish. However, the detailed roles of fish STAT1a in virus replication still remained largely uncertain. Here, we cloned a STAT1a from orange-spotted grouper Epinephelus coioides (EcSTAT1a) and characterized its roles during fish virus infection...
September 12, 2017: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/28916034/colorimetric-biosensor-based-on-a-dnazyme-primer-and-its-application-in-logic-gate-operations-for-dna-screening
#9
Chenguang Wang, Nan Cheng, Longjiao Zhu, Yuancong Xu, Kunlun Huang, Pengyu Zhu, Shuifang Zhu, Wei Fu, Wentao Xu
A colorimetric biosensor for DNA screening was designed based on the conformational changes of the horseradish peroxidase (HRP)-mimicking DNAzyme. The scheme of DNA biosensing was designed based on the base pairing of DNAzyme sequence to inhibit the formation of HRP-mimicking hemin/G-quadruplex structures in the process of amplification. DNA could be amplified via the universal primer multiplex polymerase chain reaction (UP-M-PCR) and innovatively detected as color disappear in the reaction visible to the naked eye...
September 22, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28915003/the-evolution-of-dna-templated-synthesis-as-a-tool-for-materials-discovery
#10
Rachel K O'Reilly, Andrew J Turberfield, Thomas R Wilks
Precise control over reactivity and molecular structure is a fundamental goal of the chemical sciences. Billions of years of evolution by natural selection have resulted in chemical systems capable of information storage, self-replication, catalysis, capture and production of light, and even cognition. In all these cases, control over molecular structure is required to achieve a particular function: without structural control, function may be impaired, unpredictable, or impossible. The search for molecules with a desired function is often achieved by synthesizing a combinatorial library, which contains many or all possible combinations of a set of chemical building blocks (BBs), and then screening this library to identify "successful" structures...
September 15, 2017: Accounts of Chemical Research
https://www.readbyqxmd.com/read/28914996/enzymatic-synthesis-amplification-and-application-of-dna-with-a-functionalized-backbone
#11
Tingjian Chen, Floyd Eric Romesberg
The ability to amplify DNA along with its unprecedented sequence control has led to its use for different applications, but all are limited by the properties available to natural nucleotides. We previously reported the evolution of polymerase SFM4-3, which better tolerates 2'-modified substrates. To explore the utility of SFM4-3, we now report the characterization of its recognition of substrates with 2'-azido, 2'-chloro, 2'-amino, or arabinose sugars. We find that SFM4-3 can efficiently synthesize polymers composed of these nucleotides, and most interestingly, that SFM4-3 can also PCR amplify these modified oligonucleotides...
September 15, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28914802/phylogenetic-analysis-and-antimicrobial-profiles-of-cultured-emerging-opportunistic-pathogens-phyla-actinobacteria-and-proteobacteria-identified-in-hot-springs
#12
Jocelyn Leonie Jardine, Akebe Luther King Abia, Vuyo Mavumengwana, Eunice Ubomba-Jaswa
Hot spring water may harbour emerging waterborne opportunistic pathogens that can cause infections in humans. We have investigated the diversity and antimicrobial resistance of culturable emerging and opportunistic bacterial pathogens, in water and sediment of hot springs located in Limpopo, South Africa. Aerobic bacteria were cultured and identified using 16S ribosomal DNA (rDNA) gene sequencing. The presence of Legionella spp. was investigated using real-time polymerase chain reaction. Isolates were tested for resistance to ten antibiotics representing six different classes: β-lactam (carbenicillin), aminoglycosides (gentamycin, kanamycin, streptomycin), tetracycline, amphenicols (chloramphenicol, ceftriaxone), sulphonamides (co-trimoxazole) and quinolones (nalidixic acid, norfloxacin)...
September 15, 2017: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/28914467/cloning-expression-pattern-analysis-and-subcellular-localization-of-capra-hircus-scd1-gene-with-production-of-transgenic-mice
#13
Qisheng Zuo, Kai Jin, Jiuzhou Song, Yani Zhang, Bichun Li
This study aimed to clone the Stearoyl-CoA desaturase 1 (SCD1) gene derived from Xuhuai goat (Capra hircus), and analyze the sub-cellular localization in cells and tissues. The cDNA was cloned by reverse transcription polymerase chain reaction (RT-PCR). pEGFP-SCD1 vector was constructed to detect sub-cellular localization and tissue distribution. pEGFP-SCD1 was transfected into NIH-3T3 cells using polyethylene imine (PEI) and observed under fluorescence inversion microscope system 48 h after transfection. The expression level of SCD1 was detected by RT-PCR...
September 15, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28914367/no-association-of-single-nucleotide-polymorphisms-within-h19-and-hox-transcript-antisense-rna-hotair-with-genetic-susceptibility-to-systemic-lupus-erythematosus-rheumatoid-arthritis-and-primary-sj%C3%A3-gren-s-syndrome-in-a-chinese-han-population
#14
An-Fang Huang, Lin-Chong Su, Hong Jia, Yi Liu, Wang-Dong Xu
The H19 (rs2839698, rs3741219) and HOTAIR (rs920778) polymorphisms were related to many kinds of cancers. However, these polymorphisms have been scarcely explored in different autoimmune diseases. Here, we aimed to examine the association of the polymorphisms with susceptibility to or protection against systemic lupus erythematosus (SLE), rheumatoid arthritis (RA), and primary Sjögren's syndrome (pSS) among Chinese Han patients. We conducted a case-control study including 800 patients (300 with SLE, 350 with RA, and 150 with pSS) and 350 healthy control individuals...
September 15, 2017: Clinical Rheumatology
https://www.readbyqxmd.com/read/28914079/co-infection-of-human-herpesvirus-type-2-hhv-2-and-human-immunodeficiency-virus-hiv-among-pregnant-women-in-rio-de-janeiro-brazil
#15
Lyana Rodrigues Pinto Lima, Luis Eduardo Barros Costa Fernandes, Daniel A M Villela, Mariza Gonçalves Morgado, José Henrique Pilotto, Vanessa Salete de Paula
Pregnant women who are infected with the Human Immunodeficiency Virus (HIV) are particularly vulnerable to severe and recurrent infections with Human Herpesvirus 2 (HHV-2). Neonatal transmission of HHV-2 has been associated with malformations and neurological sequelae in infants, which makes it very important to perform antenatal monitoring for genital herpes. In the study, 134 pregnant women infected with HIV were tested for HHV-2 IgM and IgG using an enzyme-linked immunosorbent assay (ELISA) and had HHV-2 DNA analyzed by Real Time Polymerase Chain Reaction (qPCR)...
September 15, 2017: AIDS Care
https://www.readbyqxmd.com/read/28914066/-herpes-simplex-virus-infection-an-overview-of-the-problem-pharmacologic-therapy-and-dietary-measures
#16
Sherif T S Hassan, Miroslava Šudomová, Radka Masarčíková
Treatment of infectious diseases remains one of the principal research target for many researchers and healthcare providers worldwide. Herpes simplex virus 1 (HSV-1) and herpes simplex virus 2 (HSV-2) are common human pathogens with an estimated 60-95% of the adult population infected by at least one of them. The worldwide disease burden of HSV is substantial, and acyclovir and related nucleoside analogues (viral DNA polymerase inhibitors) as therapies have led to significantly increased treatment efficacy of HSV infections...
2017: Ceská a Slovenská Farmacie
https://www.readbyqxmd.com/read/28913522/single-tube-gene-synthesis-by-phosphoramidate-chemical-ligation
#17
Afaf H El-Sagheer, Tom Brown
Templated chemical ligation of 5'-amino and 3'-phosphate oligonucleotides was used to synthesise a 762 base pair gene for green fluorescent protein. The phosphoramidate linkage can be read by DNA polymerase and transcribed to make RNA. We also show that phosphoramidate ligation and orthogonal CuAAC-mediated DNA ligation can be used simultaneously.
September 15, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/28912873/phospholemman-a-major-regulator-of-skeletal-muscle-na-k-atpase-is-not-mutated-in-probands-with-hypokalemic-periodic-paralysis
#18
Ying-Ying Chen, Xiao-Ying Wang, Qiu-Xia Fu, Yi Kang, He-Bin Yao
The pathogenesis of hypokalemic periodic paralysis (HypoPP) remains unclear. Though some mutations in skeletal muscle ion channels were revealed previously, the exact mechanism remains to be fully elucidated. Increased Na(+)/K(+)-ATPase activity in skeletal muscle is postulated to contribute to attacks of HypoPP. Before the link between Na(+)/K(+)-ATPase dysfunction and these ion channel mutations is established, mutations in Na(+)/K(+)-ATPase and their regulators are the first to be excluded. Phospholemman, which is a protein encoded by the FXYD domain-containing ion transport regulator 1 (FXYD1) gene, is predominantly expressed in skeletal muscle and is the major regulator of Na(+)/K(+)-ATPase...
October 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/28912864/evaluation-of-the-chondroprotective-action-of-n-acetylglucosamine-in-a-rat-experimental-osteoarthritis-model
#19
Daiki Kubomura, Tomoya Ueno, Masanori Yamada, Isao Nagaoka
It has been demonstrated that oral administration of N-acetylglucosamine (GlcNAc) alleviates the symptoms of osteoarthritis (OA). The aim of the present study was to elucidate the molecular mechanisms for the chondroprotective action of GlcNAc in OA. Biomarkers for type II collagen degradation and synthesis were evaluated, as were histopathological changes, using a rat anterior cruciate ligament transection (ACLT)-induced OA model. Changes in the expression of genes in the cartilage were assessed via DNA microarray and reverse transcription-quantitative polymerase chain reaction (RT-qPCR)...
October 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/28912861/phascolarctobacterium-faecium-abundant-colonization-in-human-gastrointestinal-tract
#20
Feifan Wu, Xianfeng Guo, Jiachun Zhang, Min Zhang, Zihao Ou, Yongzheng Peng
Phascolarctobacterium can produce short-chain fatty acids, including acetate and propionate, and can be associated with the metabolic state and mood of the host. The present study investigated the colonization characteristics of Phascolarctobacterium faecium in healthy individuals <1-80 years old in Southern China. A total of 150 fresh fecal samples were collected, and bacterial DNA was isolated from these samples for quantitative polymerase chain reaction analysis. Phascolarctobacterium faecium demonstrated a high colonization rate and abundant colonization in the human gastrointestinal tract...
October 2017: Experimental and Therapeutic Medicine
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