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https://www.readbyqxmd.com/read/28650205/investigation-of-the-hepatoprotective-effect-of-prunus-mume-sieb-et-zucc-extract-in-a-mouse-model-of-alcoholic-liver-injury-through-high-resolution-metabolomics
#1
Adnan Khan, Jeong Hoon Pan, Seongha Cho, Sojung Lee, Young Jun Kim, Youngja H Park
This study aimed to identify the changes in the metabolomics profile of liver damage caused by alcohol consumption and verify beneficial effect of Prunus mume Sieb. et Zucc extract (PME) in protection of alcohol-induced injury by attenuating the level of identified metabolites. Mice were treated with PME and saline or untreated once daily for 5 days, followed by alcohol injection. The plasma samples were analyzed using liquid chromatography-mass spectrometry-based high-resolution metabolomics followed by a multivariate statistical analysis using MetaboAnalyst 3...
June 26, 2017: Journal of Medicinal Food
https://www.readbyqxmd.com/read/28649990/a-pan-cancer-genome-wide-analysis-reveals-tumour-dependencies-by-induction-of-nonsense-mediated-decay
#2
Zhiyuan Hu, Christopher Yau, Ahmed Ashour Ahmed
Nonsense-mediated decay (NMD) eliminates transcripts with premature termination codons. Although NMD-induced loss-of-function has been shown to contribute to the genesis of particular cancers, its global functional consequence in tumours has not been characterized. Here we develop an algorithm to predict NMD and apply it on somatic mutations reported in The Cancer Genome Atlas. We identify more than 73 K mutations that are predicted to elicit NMD (NMD-elicit). NMD-elicit mutations in tumour suppressor genes (TSGs) are associated with significant reduction in gene expression...
June 26, 2017: Nature Communications
https://www.readbyqxmd.com/read/28649657/dual-pi3k-and-wnt-pathway-inhibition-is-a-synergistic-combination-against-triple-negative-breast-cancer
#3
Jeffrey P Solzak, Rutuja V Atale, Bradley A Hancock, Anthony L Sinn, Karen E Pollok, David R Jones, Milan Radovich
Triple negative breast cancer accounts for 15-20% of all breast cancer cases, but despite its lower incidence, contributes to a disproportionately higher rate of mortality. As there are currently no Food and Drug Administration-approved targeted agents for triple negative breast cancer, we embarked on a genomic-guided effort to identify novel targeted modalities. Analyses by our group and The Cancer Genome Atlas have identified activation of the PI3K-pathway in the majority of triple negative breast cancers...
2017: NPJ Breast Cancer
https://www.readbyqxmd.com/read/28648850/complete-genome-analysis-of-dengue-virus-type-3-isolated-from-the-2013-dengue-outbreak-in-yunnan-china
#4
Xiaodan Wang, Dehong Ma, Xinwei Huang, Lihua Li, Duo Li, Yujiao Zhao, Lijuan Qiu, Yue Pan, Junying Chen, Juemin Xi, Xiyun Shan, Qiangming Sun
In the past few decades, dengue has spread rapidly and is an emerging disease in China. An unexpected dengue outbreak occurred in Xishuangbanna, Yunnan, China, resulting in 1331 patients in 2013. In order to obtain the complete genome information and perform mutation and evolutionary analysis of causative agent related to this largest outbreak of dengue fever. The viruses were isolated by cell culture and evaluated by genome sequence analysis. Phylogenetic trees were then constructed by Neighbor-Joining methods (MEGA6...
June 22, 2017: Virus Research
https://www.readbyqxmd.com/read/28646116/tonic-b-cell-receptor-signaling-in-diffuse-large-b-cell-lymphoma
#5
Ondrej Havranek, Jingda Xu, Stefan Köhrer, Zhiqiang Wang, Lisa Becker, Justin M Comer, Jared Henderson, Wencai Ma, John Man Chun Ma, Jason R Westin, Dipanjan Ghosh, Nicholas Shinners, Luhong Sun, Allen F Yi, Anusha R Karri, Jan A Burger, Tomasz Zal, R Eric Davis
We used CRISPR/Cas9-mediated genomic modification to investigate B-cell receptor (BCR) signaling in cell lines of diffuse large B-cell lymphoma (DLBCL). Three manipulations that altered BCR genes without affecting surface BCR levels showed that BCR signaling differs between the germinal center B-cell (GCB) subtype, which is insensitive to BTK inhibition by ibrutinib, and the activated B-cell (ABC) subtype. Replacing antigen-binding BCR regions had no effect on BCR signaling in GCB-DLBCL lines, reflecting this subtype's exclusive use of tonic BCR signaling...
June 23, 2017: Blood
https://www.readbyqxmd.com/read/28645941/a-first-time-in-human-study-of-gsk2636771-a-phosphoinositide-3-kinase-beta-selective-inhibitor-in-patients-with-advanced-solid-tumors
#6
Joaquin Mateo, Gopinath Ganji, Charlotte Lemech, Howard A Burris, Sae-Won Han, Karen E Swales, Shaun Decordova, Maurice P DeYoung, Deborah A Smith, Shanker Kalyana-Sundaram, Jiuhua Wu, Monica Motwani, Rakesh Kumar, Jerry M Tolson, Sun Young Rha, Hyun Cheol Chung, Joseph Paul Eder, Sunil Sharma, Yung-Jue Bang, Jeffrey R Infante, Li Yan, Johann S de Bono, Hendrik-Tobias Arkenau
The phosphoinositide 3 kinase (PI3K)/protein kinase B (AKT) pathway is commonly activated in several tumor types. Selective targeting of p110β could result in successful pathway inhibition while avoiding the on and off target effects of pan-PI3K inhibitors. GSK2636771 is a potent, orally bioavailable, adenosine triphosphate-competitive, selective inhibitor of PI3Kβ.<br /><br />Experimental Design: <p>We evaluated the safety, pharmacokinetics, pharmacodynamics and antitumor activity of GSK2636771 to define the recommended Phase II dose (RP2D)...
June 23, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28645159/genomic-characterization-of-two-novel-sar11-isolates-from-the-red-sea-including-the-first-strain-of-the-sar11-ib-clade
#7
Francy Jimenez-Infante, David Kamanda Ngugi, Manikandan Vinu, Jochen Blom, Intikhab Alam, Vladimir B Bajic, Ulrich Stingl
The SAR11 clade (Pelagibacterales) is a diverse group that forms a monophyletic clade within the Alphaproteobacteria, and constitutes up to one third of all prokaryotic cells in the photic zone of most oceans. Pelagibacterales are very abundant in the warm and highly saline surface waters of the Red Sea, raising the question of adaptive traits of SAR11 populations in this water body and warmer oceans through the world. In this study, two pure cultures were successfully obtained from surface waters on the Red Sea, one isolate of subgroup Ia and one of the previously uncultured SAR11 Ib lineage...
June 22, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28642609/microbial-signatures-associated-with-oropharyngeal-and-oral-squamous-cell-carcinomas
#8
Sagarika Banerjee, Tian Tian, Zhi Wei, Kristen N Peck, Natalie Shih, Ara A Chalian, Bert W O'Malley, Gregory S Weinstein, Michael D Feldman, James Alwine, Erle S Robertson
The microbiome is fundamentally one of the most unique organs in the human body. Dysbiosis can result in critical inflammatory responses and result in pathogenesis contributing to neoplastic events. We used a pan-pathogen array technology (PathoChip) coupled with next-generation sequencing to establish microbial signatures unique to human oral and oropharyngeal squamous cell carcinomas (OCSCC/OPSCC). Signatures for DNA and RNA viruses including oncogenic viruses, gram positive and negative bacteria, fungi and parasites were detected...
June 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28642153/characterization-of-the-differential-coregulator-binding-signatures-of-the-retinoic-acid-receptor-subtypes-upon-ant-agonist-action
#9
Ignacio Miro Estruch, Diana Melchers, René Houtman, Laura H J de Haan, John P Groten, Jochem Louisse, Ivonne M C M Rietjens
Retinoic Acid Receptor alpha (RARα/NR1B1), Retinoic Acid Receptor beta (RARβ/NR1B2) and Retinoic Acid Receptor gamma (RARγ/NR1B3) are transcription factors regulating gene expression in response to retinoids. Within the RAR genomic pathways, binding of RARs to coregulators is a key intermediate regulatory phase. However, ligand-dependent interactions between the wide variety of coregulators that may be present in a cell and the different RAR subtypes are largely unknown. The aim of this study is to characterize the coregulator binding profiles of RARs in the presence of the pan-agonist all-trans-Retinoic Acid (AtRA); the subtype-selective agonists Am80 (RARα), CD2314 (RARβ) and BMS961 (RARγ); and the antagonist Ro415253...
June 19, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28638988/same-day-genomic-and-epigenomic-diagnosis-of-brain-tumors-using-real-time-nanopore-sequencing
#10
Philipp Euskirchen, Franck Bielle, Karim Labreche, Wigard P Kloosterman, Shai Rosenberg, Mailys Daniau, Charlotte Schmitt, Julien Masliah-Planchon, Franck Bourdeaut, Caroline Dehais, Yannick Marie, Jean-Yves Delattre, Ahmed Idbaih
Molecular classification of cancer has entered clinical routine to inform diagnosis, prognosis, and treatment decisions. At the same time, new tumor entities have been identified that cannot be defined histologically. For central nervous system tumors, the current World Health Organization classification explicitly demands molecular testing, e.g., for 1p/19q-codeletion or IDH mutations, to make an integrated histomolecular diagnosis. However, a plethora of sophisticated technologies is currently needed to assess different genomic and epigenomic alterations and turnaround times are in the range of weeks, which makes standardized and widespread implementation difficult and hinders timely decision making...
June 21, 2017: Acta Neuropathologica
https://www.readbyqxmd.com/read/28638452/targeting-tpx2-suppresses-the-tumorigenesis-of-hepatocellular-carcinoma-cells-resulting-in-arrested-mitotic-phase-progression-and-increased-genomic-instability
#11
Chao-Wen Hsu, Yu-Chia Chen, Hsing-Hao Su, Guan-Jin Huang, Chih-Wen Shu, Tony Tong-Lin Wu, Hung-Wei Pan
Hepatocellular carcinoma (HCC) remains one of the most difficult cancers to treat, with chemotherapies being relatively ineffective. Therefore, a better knowledge of molecular hepatocarcinogenesis will provide opportunities for designing targeted therapies. TPX2 (targeting protein for Xklp2) is overexpressed as a consequence of oncogenic alterations and is likely to alter the proper regulation of chromosome segregation in cancer cells. Disrupting the machinery which is responsible for mitosis and chromosome instability in cancer cells can be one of the most successful strategies for cancer therapy...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/28635675/co-infection-with-marek-s-disease-virus-and-reticuloendotheliosis-virus-increases-illness-severity-and-reduces-marek-s-disease-vaccine-efficacy
#12
Guo-Rong Sun, Yan-Ping Zhang, Lin-Yi Zhou, Hong-Chao Lv, Feng Zhang, Kai Li, Yu-Long Gao, Xiao-Le Qi, Hong-Yu Cui, Yong-Qiang Wang, Li Gao, Qing Pan, Xiao-Mei Wang, Chang-Jun Liu
Marek's disease virus (MDV) and reticuloendotheliosis virus (REV) cause Marek's disease (MD) and reticuloendotheliosis (RE), respectively. Co-infection with MDV and REV is common in chickens, causing serious losses to the poultry industry. However, experimental studies of such co-infection are lacking. In this study, Chinese field strains of MDV (ZW/15) and REV (JLR1501) were used as challenge viruses to evaluate the pathogenicity of co-infection and the influence of MD vaccination in chickens. Compared to the MDV-challenged group, the mortality and tumor rates increased significantly by 20...
June 21, 2017: Viruses
https://www.readbyqxmd.com/read/28634474/different-dynamic-distribution-in-chickens-and-ducks-of-the-hypervirulent-novel-genotype-fowl-adenovirus-serotype-4-recently-emerged-in-china
#13
Qing Pan, Yanchao Yang, Zhibin Shi, Linlin Liu, Yulong Gao, Xiaole Qi, Changjun Liu, Yanping Zhang, Hongyu Cui, Xiaomei Wang
A hypervirulent fowl adenovirus serotype 4 (FAdV-4) has caused hepatitis-hydropericardium syndrome (HHS) with mortalities that range from 30 to 80% in outbreaks across China since 2015. The FAdV-4 strain was characterized as a novel genotype based on the specific genome characteristics. However, our understanding of the dynamic distribution, tissue tropism, and pathogenesis of the novel FAdV-4 is incomplete. In this study, a new, sensitive and FAdV-4-specific real-time PCR was developed and applied to detect the dynamic distribution of the duck origin, novel FAdV-4 strain HLJDAd15 in experimentally infected special-pathogen free (SPF) chickens and ducks...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28633659/computing-patient-data-in-the-cloud-practical-and-legal-considerations-for-genetics-and-genomics-research-in-europe-and-internationally
#14
Fruzsina Molnár-Gábor, Rupert Lueck, Sergei Yakneen, Jan O Korbel
Biomedical research is becoming increasingly large-scale and international. Cloud computing enables the comprehensive integration of genomic and clinical data, and the global sharing and collaborative processing of these data within a flexibly scalable infrastructure. Clouds offer novel research opportunities in genomics, as they facilitate cohort studies to be carried out at unprecedented scale, and they enable computer processing with superior pace and throughput, allowing researchers to address questions that could not be addressed by studies using limited cohorts...
June 20, 2017: Genome Medicine
https://www.readbyqxmd.com/read/28631185/the-increased-expression-of-follicle-stimulating-hormone-leads-to-a-decrease-of-fecundity-in-transgenic-large-white-female-pigs
#15
Kai Jiang, Pan Xu, Wanbo Li, Qiang Yang, Longyun Li, Chuanmin Qiao, Huanfa Gong, Hao Zheng, Zhimin Zhou, Hao Fu, Qiuyan Li, Yuyun Xing, Jun Ren
Follicle-stimulating hormone (FSH) is a pituitary gonadotropin regulating reproduction in mammals. Overexpression of the exogenous FSHα/β genes from Chinese Erhualian pigs improved female fecundity of transgenic (TG) mice and male spermatogenesis ability of Large White TG boars. Here, we investigated the impact of the exogenous FSHα/β genes on female reproductive performance of Large White TG pigs. First, we identified the integration site of the exogenous FSHα/β genes at 140,646,456 bp on chromosome 9 in these TG pigs using whole-genome sequencing...
June 19, 2017: Transgenic Research
https://www.readbyqxmd.com/read/28630475/utilization-of-a-wheat660k-snp-array-derived-high-density-genetic-map-for-high-resolution-mapping-of-a-major-qtl-for-kernel-number
#16
Fa Cui, Na Zhang, Xiao-Li Fan, Wei Zhang, Chun-Hua Zhao, Li-Juan Yang, Rui-Qing Pan, Mei Chen, Jie Han, Xue-Qiang Zhao, Jun Ji, Yi-Ping Tong, Hong-Xia Zhang, Ji-Zeng Jia, Guang-Yao Zhao, Jun-Ming Li
In crop plants, a high-density genetic linkage map is essential for both genetic and genomic researches. The complexity and the large size of wheat genome have hampered the acquisition of a high-resolution genetic map. In this study, we report a high-density genetic map based on an individual mapping population using the Affymetrix Wheat660K single-nucleotide polymorphism (SNP) array as a probe in hexaploid wheat. The resultant genetic map consisted of 119 566 loci spanning 4424.4 cM, and 119 001 of those loci were SNP markers...
June 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28629190/biotechnological-potential-of-cold-adapted-pseudoalteromonas-spp-isolated-from-deep-sea-sponges
#17
Erik Borchert, Stephen Knobloch, Emilie Dwyer, Sinéad Flynn, Stephen A Jackson, Ragnar Jóhannsson, Viggó T Marteinsson, Fergal O'Gara, Alan D W Dobson
The marine genus Pseudoalteromonas is known for its versatile biotechnological potential with respect to the production of antimicrobials and enzymes of industrial interest. We have sequenced the genomes of three Pseudoalteromonas sp. strains isolated from different deep sea sponges on the Illumina MiSeq platform. The isolates have been screened for various industrially important enzymes and comparative genomics has been applied to investigate potential relationships between the isolates and their host organisms, while comparing them to free-living Pseudoalteromonas spp...
June 19, 2017: Marine Drugs
https://www.readbyqxmd.com/read/28624550/comparative-genome-analysis-of-fish-pathogen-flavobacterium-columnare-reveals-extensive-sequence-diversity-within-the-species
#18
Pattanapon Kayansamruaj, Ha Thanh Dong, Ikuo Hirono, Hidehiro Kondo, Saengchan Senapin, Channarong Rodkhum
Flavobacterium columnare is one of the deadliest fish pathogens causing devastating mortality in various freshwater fish species globally. To gain an insight into bacterial genomic contents and structures, comparative genome analyses were performed using the reference and newly sequenced genomes of F. columnare including genomovar I, II and I/II strains isolated from Thailand, Europe and the USA. Bacterial genomes varied in size from 3.09 to 3.39Mb (2714 to 3101 CDSs). The pan-genome analysis revealed open pan-genome nature of F...
June 15, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28623054/detection-of-yellow-fever-virus-genomes-from-four-imported-cases-in-china
#19
Shujuan Cui, Yang Pan, Yanning Lyu, Zhichao Liang, Jie Li, Yulan Sun, Xiangfeng Dou, Lili Tian, Da Huo, Lijuan Chen, Xinyu Li, Quanyi Wang
Yellow fever virus (YFV), as the first proven human-pathogenic virus, is still a major public health problem with a dramatic upsurge in recent years. This is a report on four imported cases of yellow fever virus into China identified by whole genome sequencing. Phylogenetic analysis was performed and the results showed that these four viruses were highly homologous with Angola 71 strains (AY968064). In addition, effective mutations of amino acids were not observed in the E protein domain of four viruses, thus confirming the effectiveness of the YFV-17D vaccine (X03700)...
June 13, 2017: International Journal of Infectious Diseases: IJID
https://www.readbyqxmd.com/read/28622015/the-first-whole-genome-sequence-and-pathogenicity-characterization-of-a-fowl-adenovirus-4-isolated-from-ducks-associated-with-inclusion-body-hepatitis-and-hydropericardium-syndrome
#20
Qing Pan, Linlin Liu, Yongqiang Wang, Yanping Zhang, Xiaole Qi, Changjun Liu, Yulong Gao, Xiaomei Wang, Hongyu Cui
In June 2015, an infectious disease with high prevalence causing severe hydropericardium syndrome (HPS) first appeared in duck farms of northeast China. The disease showed high morbidity of 35% and mortality of 15% in a commercial duck farm with 200,000 45-day-old ducks. One strain of hypervirulent fowl adenovirus serotype 4 was identified and designated as HLJDAd15. The whole genome of the duck isolate was sequenced and found to contain the same large deletions as a genotype that has become prevalent in chickens in China recently, indicating that this disease might be transmitted from chickens to ducks...
June 16, 2017: Avian Pathology: Journal of the W.V.P.A
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