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https://www.readbyqxmd.com/read/29126017/epidermal-growth-factor-receptor-overexpression-and-outcomes-in-early-breast-cancer-a-systematic-review-and-a-meta-analysis
#1
REVIEW
Galileo A Gonzalez-Conchas, Laura Rodriguez-Romo, David Hernandez-Barajas, Juan F Gonzalez-Guerrero, Ivan A Rodriguez-Fernandez, Adrian Verdines-Perez, Arnoud J Templeton, Alberto Ocana, Bostjan Seruga, Ian F Tannock, Eitan Amir, Francisco E Vera-Badillo
BACKGROUND: The epidermal growth factor receptor (EGFR) is a member of the ErbB family of membrane tyrosine-kinase receptors. Studies exploring the prognostic role of EGFR-overexpression in early breast cancer have shown variable results, and the true prognostic value of EGFR is unknown. METHODS: A systematic review of identified publications exploring the association between EGFR-overexpression (as defined from different techniques and cut-offs) and outcomes [disease-free (DFS) and, overall survival (OS)] in women with early breast cancer...
October 31, 2017: Cancer Treatment Reviews
https://www.readbyqxmd.com/read/29053653/patients-with-advanced-oral-squamous-cell-carcinoma-have-high-levels-of-soluble-e-cadherin-in-the-saliva
#2
S López-Verdín, J-J Soto-Avila, A-L Zamora-Perez, B-P Lazalde-Ramos, M-L Martínez-Fierro, R González-González, N Molina-Frechero, M-A Isiordia-Espinoza, R Bologna-Molina
BACKGROUND: The objective of this study was to assess the potential clinical value of the concentration of soluble salivary E-cadherin (sE-cadherin) compared with the clinical value of the presence of membranous E-cadherin (mE-cadherin) in oral squamous cell carcinoma tumor tissues. MATERIAL AND METHODS: Data regarding patient demographics, clinical stage, saliva and tumor tissue samples were collected. The saliva was analyzed for sE-cadherin protein levels and was compared to the mE-cadherin immunohistochemical expression levels in tumor tissues, which were assessed via the HercepTest® method...
November 1, 2017: Medicina Oral, Patología Oral y Cirugía Bucal
https://www.readbyqxmd.com/read/29031725/intestinal-sirt3-overexpression-in-mice-improves-whole-body-glucose-homeostasis-independent-of-body-weight
#3
Deepti Ramachandran, Rosmarie Clara, Shahana Fedele, Junmin Hu, Endre Lackzo, Jing-Yi Huang, Eric Verdin, Wolfgang Langhans, Abdelhak Mansouri
OBJECTIVE: Intestinal metabolism might play a greater role in regulating whole body metabolism than previously believed. We aimed to enhance enterocyte metabolism in mice and investigate if it plays a role in diet-induced obesity (DIO) and its comorbidities. METHODS: Using the cre-loxP system, we overexpressed the mitochondrial NAD(+) dependent protein deacetylase SIRT3 in enterocytes of mice (iSIRT3 mice). We chronically fed iSIRT3 mice and floxed-SIRT3 control (S3fl) mice a low-fat, control diet (CD) or a high-fat diet (HFD) and then phenotyped the mice...
October 2017: Molecular Metabolism
https://www.readbyqxmd.com/read/28976959/rna-targeting-with-crispr-cas13
#4
Omar O Abudayyeh, Jonathan S Gootenberg, Patrick Essletzbichler, Shuo Han, Julia Joung, Joseph J Belanto, Vanessa Verdine, David B T Cox, Max J Kellner, Aviv Regev, Eric S Lander, Daniel F Voytas, Alice Y Ting, Feng Zhang
RNA has important and diverse roles in biology, but molecular tools to manipulate and measure it are limited. For example, RNA interference can efficiently knockdown RNAs, but it is prone to off-target effects, and visualizing RNAs typically relies on the introduction of exogenous tags. Here we demonstrate that the class 2 type VI RNA-guided RNA-targeting CRISPR-Cas effector Cas13a (previously known as C2c2) can be engineered for mammalian cell RNA knockdown and binding. After initial screening of 15 orthologues, we identified Cas13a from Leptotrichia wadei (LwaCas13a) as the most effective in an interference assay in Escherichia coli...
October 12, 2017: Nature
https://www.readbyqxmd.com/read/28939823/stapled-peptide-inhibitors-of-rab25-target-context-specific-phenotypes-in-cancer
#5
Shreya Mitra, Jeffrey E Montgomery, Matthew J Kolar, Gang Li, Kang J Jeong, Bo Peng, Gregory L Verdine, Gordon B Mills, Raymond E Moellering
Recent evidence has established a role for the small GTPase RAB25, as well as related effector proteins, in enacting both pro-oncogenic and anti-oncogenic phenotypes in specific cellular contexts. Here we report the development of all-hydrocarbon stabilized peptides derived from the RAB-binding FIP-family of proteins to target RAB25. Relative to unmodified peptides, optimized stapled peptides exhibit increased structural stability, binding affinity, cell permeability, and inhibition of RAB25:FIP complex formation...
September 22, 2017: Nature Communications
https://www.readbyqxmd.com/read/28933431/erratum-genome-scale-activation-screen-identifies-a-lncrna-locus-regulating-a-gene-neighbourhood
#6
Julia Joung, Jesse M Engreitz, Silvana Konermann, Omar O Abudayyeh, Vanessa K Verdine, Francois Aguet, Jonathan S Gootenberg, Neville E Sanjana, Jason B Wright, Charles P Fulco, Yuen-Yi Tseng, Charles H Yoon, Jesse S Boehm, Eric S Lander, Feng Zhang
This corrects the article DOI: 10.1038/nature23451.
September 20, 2017: Nature
https://www.readbyqxmd.com/read/28911171/sirtuin-3-promotes-adipogenesis-osteoclastogenesis-and-bone-loss-in-aging-male-mice
#7
Linh Ho, Liping Wang, Theresa M Roth, Yong Pan, Eric M Verdin, Edward C Hsiao, Robert A Nissenson
Sirtuin-3 (Sirt3) is an essential metabolic regulatory enzyme that plays an important role in mitochondrial metabolism, but its role in bone marrow and skeletal homeostasis remains largely unknown. In this study, we hypothesize that increased expression of Sirt3 plays a role in skeletal aging. Using mice that overexpress Sirt3 [i.e., Sirt3 transgenic (Sirt3Tg)], we show that Sirt3 is a positive regulator of adipogenesis and osteoclastogenesis and a negative regulator of skeletal homeostasis. Sirt3Tg mice exhibited more adipocytes in the tibia compared with control mice...
September 1, 2017: Endocrinology
https://www.readbyqxmd.com/read/28877458/ketogenic-diet-reduces-midlife-mortality-and-improves-memory-in-aging-mice
#8
John C Newman, Anthony J Covarrubias, Minghao Zhao, Xinxing Yu, Philipp Gut, Che-Ping Ng, Yu Huang, Saptarsi Haldar, Eric Verdin
Ketogenic diets recapitulate certain metabolic aspects of dietary restriction such as reliance on fatty acid metabolism and production of ketone bodies. We investigated whether an isoprotein ketogenic diet (KD) might, like dietary restriction, affect longevity and healthspan in C57BL/6 male mice. We find that Cyclic KD, KD alternated weekly with the Control diet to prevent obesity, reduces midlife mortality but does not affect maximum lifespan. A non-ketogenic high-fat diet (HF) fed similarly may have an intermediate effect on mortality...
September 5, 2017: Cell Metabolism
https://www.readbyqxmd.com/read/28877456/distinct-circadian-signatures-in-liver-and-gut-clocks-revealed-by-ketogenic-diet
#9
Paola Tognini, Mari Murakami, Yu Liu, Kristin L Eckel-Mahan, John C Newman, Eric Verdin, Pierre Baldi, Paolo Sassone-Corsi
The circadian clock orchestrates rhythms in physiology and behavior, allowing organismal adaptation to daily environmental changes. While food intake profoundly influences diurnal rhythms in the liver, how nutritional challenges are differentially interpreted by distinct tissue-specific clocks remains poorly explored. Ketogenic diet (KD) is considered to have metabolic and therapeutic value, though its impact on circadian homeostasis is virtually unknown. We show that KD has profound and differential effects on liver and intestine clocks...
September 5, 2017: Cell Metabolism
https://www.readbyqxmd.com/read/28829437/control-of-phosphorothioate-stereochemistry-substantially-increases-the-efficacy-of-antisense-oligonucleotides
#10
Naoki Iwamoto, David C D Butler, Nenad Svrzikapa, Susovan Mohapatra, Ivan Zlatev, Dinah W Y Sah, Meena, Stephany M Standley, Genliang Lu, Luciano H Apponi, Maria Frank-Kamenetsky, Jason Jingxin Zhang, Chandra Vargeese, Gregory L Verdine
Whereas stereochemical purity in drugs has become the standard for small molecules, stereoisomeric mixtures containing as many as a half million components persist in antisense oligonucleotide (ASO) therapeutics because it has been feasible neither to separate the individual stereoisomers, nor to synthesize stereochemically pure ASOs. Here we report the development of a scalable synthetic process that yields therapeutic ASOs having high stereochemical and chemical purity. Using this method, we synthesized rationally designed stereopure components of mipomersen, a drug comprising 524,288 stereoisomers...
September 2017: Nature Biotechnology
https://www.readbyqxmd.com/read/28826372/%C3%AE-hydroxybutyrate-a-signaling-metabolite
#11
REVIEW
John C Newman, Eric Verdin
Various mechanisms in the mammalian body provide resilience against food deprivation and dietary stress. The ketone body β-hydroxybutyrate (BHB) is synthesized in the liver from fatty acids and represents an essential carrier of energy from the liver to peripheral tissues when the supply of glucose is too low for the body's energetic needs, such as during periods of prolonged exercise, starvation, or absence of dietary carbohydrates. In addition to its activity as an energetic metabolite, BHB is increasingly understood to have cellular signaling functions...
August 21, 2017: Annual Review of Nutrition
https://www.readbyqxmd.com/read/28792927/genome-scale-activation-screen-identifies-a-lncrna-locus-regulating-a-gene-neighbourhood
#12
Julia Joung, Jesse M Engreitz, Silvana Konermann, Omar O Abudayyeh, Vanessa K Verdine, Francois Aguet, Jonathan S Gootenberg, Neville E Sanjana, Jason B Wright, Charles P Fulco, Yuen-Yi Tseng, Charles H Yoon, Jesse S Boehm, Eric S Lander, Feng Zhang
Mammalian genomes contain thousands of loci that transcribe long noncoding RNAs (lncRNAs), some of which are known to carry out critical roles in diverse cellular processes through a variety of mechanisms. Although some lncRNA loci encode RNAs that act non-locally (in trans), there is emerging evidence that many lncRNA loci act locally (in cis) to regulate the expression of nearby genes-for example, through functions of the lncRNA promoter, transcription, or transcript itself. Despite their potentially important roles, it remains challenging to identify functional lncRNA loci and distinguish among these and other mechanisms...
August 17, 2017: Nature
https://www.readbyqxmd.com/read/28758782/shape-up-an-eye-tracking-study-of-preschoolers-shape-name-processing-and-spatial-development
#13
Brian N Verdine, Ann Bunger, Angeliki Athanasopoulou, Roberta Michnick Golinkoff, Kathy Hirsh-Pasek
Learning the names of geometric shapes is at the intersection of early spatial, mathematical, and language skills, all important for school-readiness and predictors of later abilities in science, technology, engineering, and mathematics (STEM). We investigated whether socioeconomic status (SES) influenced children's processing of shape names and whether differences in processing were predictive of later spatial skills. Three-year-olds (N = 79) with mothers of varying education levels participated in an eye-tracking task that required them to look at named shapes...
October 2017: Developmental Psychology
https://www.readbyqxmd.com/read/28751388/rhizospheric-microbiome-profiling-of-capsicum-annuum-l-cultivated-in-amended-soils-by-16s-and-internal-transcribed-spacer-2-rrna-amplicon-metagenome-sequencing
#14
Ali Asaff-Torres, Mariana Armendáriz-Ruiz, Manuel Kirchmayr, Raúl Rodríguez-Heredia, Marcos Orozco, Juan Carlos Mateos-Díaz, Luis Figueroa-Yáñez, Itzamná Baqueiro-Peña, Jorge Verdín
Rhizospheric microbiomes of Capsicum annuum L. cultivated either conventionally or amended with a synthetic microbial consortium or a root exudate inductor, were characterized by 16S/internal transcribed spacer 2 (ITS2) rRNA amplicon metagenome sequencing. The most abundant taxa found, although differently represented in each treatment, were Gammaproteobacteria, Alphaproteobacteria, Actinobacteria, and Bacilli, as well as Chytridiomycetes and Mortierellomycotina.
July 27, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28749477/mapping-the-genomic-landscape-of-inherited-retinal-disease-genes-prioritizes-genes-prone-to-coding-and-noncoding-copy-number-variations
#15
Kristof Van Schil, Sarah Naessens, Stijn Van de Sompele, Marjolein Carron, Alexander Aslanidis, Caroline Van Cauwenbergh, Anja Kathrin Mayer, Mattias Van Heetvelde, Miriam Bauwens, Hannah Verdin, Frauke Coppieters, Michael E Greenberg, Marty G Yang, Marcus Karlstetter, Thomas Langmann, Katleen De Preter, Susanne Kohl, Timothy J Cherry, Bart P Leroy, Elfride De Baere
PurposePart of the hidden genetic variation in heterogeneous genetic conditions such as inherited retinal diseases (IRDs) can be explained by copy-number variations (CNVs). Here, we explored the genomic landscape of IRD genes listed in RetNet to identify and prioritize those genes susceptible to CNV formation.MethodsRetNet genes underwent an assessment of genomic features and of CNV occurrence in the Database of Genomic Variants and literature. CNVs identified in an IRD cohort were characterized using targeted locus amplification (TLA) on extracted genomic DNA...
July 27, 2017: Genetics in Medicine: Official Journal of the American College of Medical Genetics
https://www.readbyqxmd.com/read/28724936/an-engineered-protein-antagonist-of-k-ras-b-raf-interaction
#16
Monique J Kauke, Michael W Traxlmayr, Jillian A Parker, Jonathan D Kiefer, Ryan Knihtila, John McGee, Greg Verdine, Carla Mattos, K Dane Wittrup
Ras is at the hub of signal transduction pathways controlling cell proliferation and survival. Its mutants, present in about 30% of human cancers, are major drivers of oncogenesis and render tumors unresponsive to standard therapies. Here we report the engineering of a protein scaffold for preferential binding to K-Ras G12D. This is the first reported inhibitor to achieve nanomolar affinity while exhibiting specificity for mutant over wild type (WT) K-Ras. Crystal structures of the protein R11.1.6 in complex with K-Ras WT and K-Ras G12D offer insight into the structural basis for specificity, highlighting differences in the switch I conformation as the major defining element in the higher affinity interaction...
July 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28669763/new-species-in-the-papaya-ringspot-virus-cluster-insights-into-the-evolution-of-the-prsv-lineage
#17
C Desbiez, C Wipf-Scheibel, P Millot, E Verdin, G Dafalla, H Lecoq
The "Papaya ringspot virus (PRSV) cluster" of cucurbit-infecting potyviruses contains five acknowledged species that have similar biological, serological and molecular properties. Additional data suggest there are other uncharacterized species from various locations in the world that likely belong to the PRSV cluster including a new PRSV-like virus reported from Sudan in 2003. Molecular and biological data indicated that the virus from Sudan belongs to a new species, tentatively named wild melon vein banding virus (WMVBV)...
September 15, 2017: Virus Research
https://www.readbyqxmd.com/read/28648414/prognostic-role-of-ki-67-score-in-localized-prostate-cancer-a-systematic-review-and-meta-analysis
#18
REVIEW
Alejandro Berlin, Julio F Castro-Mesta, Laura Rodriguez-Romo, David Hernandez-Barajas, Juan F González-Guerrero, Iván A Rodríguez-Fernández, Galileo González-Conchas, Adrian Verdines-Perez, Francisco E Vera-Badillo
BACKGROUND: Ki-67 for quantifying tumor proliferation is widely used. In localized prostate cancer (PCa), despite a suggested predictive role of Ki-67 for outcomes after therapies, it has not been incorporated into clinical practice. Herein, we conduct a systematic review and meta-analysis of the literature reporting the association of Ki-67 and disease outcomes in PCa treated radically. METHODS: Medline and EMBASE databases were searched without date or language restrictions, using "KI67" and "prostate cancer" MeSH terms...
June 22, 2017: Urologic Oncology
https://www.readbyqxmd.com/read/28603085/kaempferol-increases-levels-of-coenzyme-q-in-kidney-cells-and-serves-as-a-biosynthetic-ring-precursor
#19
Lucía Fernández-Del-Río, Anish Nag, Elena Gutiérrez Casado, Julia Ariza, Agape M Awad, Akil I Joseph, Ohyun Kwon, Eric Verdin, Rafael de Cabo, Claus Schneider, Jorge Z Torres, María I Burón, Catherine F Clarke, José M Villalba
Coenzyme Q (Q) is a lipid-soluble antioxidant essential in cellular physiology. Patients with Q deficiencies, with few exceptions, seldom respond to treatment. Current therapies rely on dietary supplementation with Q10, but due to its highly lipophilic nature, Q10 is difficult to absorb by tissues and cells. Plant polyphenols, present in the human diet, are redox active and modulate numerous cellular pathways. In the present study, we tested whether treatment with polyphenols affected the content or biosynthesis of Q...
September 2017: Free Radical Biology & Medicine
https://www.readbyqxmd.com/read/28576697/sequencing-viral-sirnas-to-identify-previously-undescribed-viruses-and-viroids-in-a-panel-of-ornamental-plant-samples-structured-as-a-matrix-of-pools
#20
REVIEW
Eric Verdin, Catherine Wipf-Scheibel, Patrick Gognalons, François Aller, Mireille Jacquemond, Mark Tepfer
Ornamental plants constitute a largely unknown and potentially important source of pathogens affecting not only ornamental plants, but also major crop species. We have carried out studies using high-throughput sequencing of 21-24 nt RNAs from potentially virus-infected ornamental plants, followed by assembly of sequence scaffolds, to identify the virus and viroid genomes present in a panel of 67 plant samples representing 46 species belonging to the main sectors of the ornamental plant industry (cut flowers, pot plants, bulbs)...
September 15, 2017: Virus Research
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