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https://www.readbyqxmd.com/read/28453568/baicalin-inhibits-biofilm-formation-attenuates-the-quorum-sensing-controlled-virulence-and-enhances-pseudomonas-aeruginosa-clearance-in-a-mouse-peritoneal-implant-infection-model
#1
Jing Luo, Biying Dong, Ke Wang, Shuangqi Cai, Tangjuan Liu, Xiaojing Cheng, Danqing Lei, Yanling Chen, Yanan Li, Jinliang Kong, Yiqiang Chen
The quorum sensing (QS) circuit plays a role in the precise regulation of genes controlling virulence factors and biofilm formation in Pseudomonas aeruginosa. QS-controlled biofilm formation by Pseudomonas aeruginosa in clinical settings has remained controversial due to emerging drug resistance; therefore, screening diverse compounds for anti-biofilm or anti-QS activities is important. This study demonstrates the ability of sub-minimum inhibitory concentrations (sub-MICs) of baicalin, an active natural compound extracted from the traditional Chinese medicinal Scutellaria baicalensis, to inhibit the formation of Pseudomonas aeruginosa biofilms and enhance the bactericidal effects of various conventional antibiotics in vitro...
2017: PloS One
https://www.readbyqxmd.com/read/28445807/rewiring-brain-circuits-to-block-cataplexy-in-murine-models-of-narcolepsy
#2
REVIEW
Meng Liu, Carlos Blanco-Centurion, Priyattam J Shiromani
Narcolepsy was first identified almost 130 years ago, but it was only 15 years ago that it was identified as a neurodegenerative disease linked to a loss of orexin neurons in the brain. It is unclear what causes the orexin neurons to die, but our strategy has been to place the gene for orexin into surrogate neurons in the validated mouse models of narcolepsy, and test whether it can block narcolepsy symptoms, such as cataplexy. In both the orexin knockout and the orexin-ataxin-3 mouse models of narcolepsy we have found that cataplexy can be blocked if the surrogate neurons are part of the circuit responsible for cataplexy...
April 23, 2017: Current Opinion in Neurobiology
https://www.readbyqxmd.com/read/28445462/cell-diversity-and-network-dynamics-in-photosensitive-human-brain-organoids
#3
Giorgia Quadrato, Tuan Nguyen, Evan Z Macosko, John L Sherwood, Sung Min Yang, Daniel R Berger, Natalie Maria, Jorg Scholvin, Melissa Goldman, Justin P Kinney, Edward S Boyden, Jeff W Lichtman, Ziv M Williams, Steven A McCarroll, Paola Arlotta
In vitro models of the developing brain such as three-dimensional brain organoids offer an unprecedented opportunity to study aspects of human brain development and disease. However, the cells generated within organoids and the extent to which they recapitulate the regional complexity, cellular diversity and circuit functionality of the brain remain undefined. Here we analyse gene expression in over 80,000 individual cells isolated from 31 human brain organoids. We find that organoids can generate a broad diversity of cells, which are related to endogenous classes, including cells from the cerebral cortex and the retina...
April 26, 2017: Nature
https://www.readbyqxmd.com/read/28444142/regulatory-states-in-the-developmental-control-of-gene-expression
#4
Isabelle S Peter
A growing body of evidence shows that gene expression in multicellular organisms is controlled by the combinatorial function of multiple transcription factors. This indicates that not the individual transcription factors or signaling molecules, but the combination of expressed regulatory molecules, the regulatory state, should be viewed as the functional unit in gene regulation. Here, I discuss the concept of the regulatory state and its proposed role in the genome-wide control of gene expression. Recent analyses of regulatory gene expression in sea urchin embryos have been instrumental for solving the genomic control of cell fate specification in this system...
April 24, 2017: Briefings in Functional Genomics
https://www.readbyqxmd.com/read/28443619/programming-mrna-decay-to-modulate-synthetic-circuit-resource-allocation
#5
Ophelia S Venturelli, Mika Tei, Stefan Bauer, Leanne Jade G Chan, Christopher J Petzold, Adam P Arkin
Synthetic circuits embedded in host cells compete with cellular processes for limited intracellular resources. Here we show how funnelling of cellular resources, after global transcriptome degradation by the sequence-dependent endoribonuclease MazF, to a synthetic circuit can increase production. Target genes are protected from MazF activity by recoding the gene sequence to eliminate recognition sites, while preserving the amino acid sequence. The expression of a protected fluorescent reporter and flux of a high-value metabolite are significantly enhanced using this genome-scale control strategy...
April 26, 2017: Nature Communications
https://www.readbyqxmd.com/read/28442597/the-emergence-evolution-and-diversification-of-the-mir390-tas3-arf-pathway-in-land-plants
#6
Rui Xia, Jing Xu, Blake C Meyers
In plants, miR390 directs the production of tasiRNAs from TRANS-ACTING SIRNA 3 (TAS3) transcripts to regulate AUXIN RESPONSIVE FACTOR (ARF) genes, critical for auxin signaling; these tasiRNAs are known as tasiARFs. To understand the evolution of this miR390-TAS3-ARF pathway, we characterized homologs of these three genes from thousands of plant species, from bryophytes to angiosperms. We found the lower-stem region of MIR390 genes, critical for accurate DCL1 (DICER-LIKE 1) processing, is conserved in sequence in seed plants...
April 24, 2017: Plant Cell
https://www.readbyqxmd.com/read/28441531/myrf-er-bound-transcription-factors-drive-c-%C3%A2-elegans-synaptic-plasticity-via-cleavage-dependent-nuclear-translocation
#7
Jun Meng, Xiaoxia Ma, Huaping Tao, Xia Jin, Daniel Witvliet, James Mitchell, Ming Zhu, Meng-Qiu Dong, Mei Zhen, Yishi Jin, Yingchuan B Qi
Synaptic refinement is a critical step in nervous system maturation, requiring a carefully timed reorganization and refinement of neuronal connections. We have identified myrf-1 and myrf-2, two C. elegans homologs of Myrf family transcription factors, as key regulators of synaptic rewiring. MYRF-1 and its paralog MYRF-2 are functionally redundant specifically in synaptic rewiring. They co-exist in the same protein complex and act cooperatively to regulate synaptic rewiring. We find that the MYRF proteins localize to the ER membrane and that they are cleaved into active N-terminal fragments, which then translocate into the nucleus to drive synaptic rewiring...
April 24, 2017: Developmental Cell
https://www.readbyqxmd.com/read/28441117/sexual-dimorphism-of-parental-care-from-genes-to-behavior
#8
Noga Zilkha, Niv Scott, Tali Kimchi
Parental care is found in species across the animal kingdom, from small insects to large mammals, with a conserved purpose of increasing offspring survival. Yet enormous variability exists between different species and between the sexes in the pattern and level of parental investment. Here, we review the literature on the neurobiological mechanisms underlying maternal and paternal care, especially in rodents, and discuss the relationship between sex differences in behavior and sexual dimorphism in the brain...
April 24, 2017: Annual Review of Neuroscience
https://www.readbyqxmd.com/read/28440221/nptx2-and-cognitive-dysfunction-in-alzheimer-s-disease
#9
Mei-Fang Xiao, Desheng Xu, Michael T Craig, Kenneth A Pelkey, Chun-Che Chien, Yang Shi, Juhong Zhang, Susan Resnick, Olga Pletnikova, David Salmon, James Brewer, Steven Edland, Jerzy Wegiel, Benjamin Tycko, Alena Savonenko, Roger H Reeves, Juan C Troncoso, Chris J McBain, Douglas Galasko, Paul F Worley
Memory loss in Alzheimer's disease (AD) is attributed to pervasive weakening and loss of synapses. Here, we present findings supporting a special role for excitatory synapses connecting pyramidal neurons of the hippocampus and cortex with fast-spiking parvalbumin (PV) interneurons that control network excitability and rhythmicity. Excitatory synapses on PV interneurons are dependent on the AMPA receptor subunit GluA4, which is regulated by presynaptic expression of the synaptogenic immediate early gene NPTX2 by pyramidal neurons...
March 23, 2017: ELife
https://www.readbyqxmd.com/read/28438481/genes-and-neural-circuits-for-sleep-of-the-fruit-fly
#10
REVIEW
Jun Tomita, Gosuke Ban, Kazuhiko Kume
Sleep is a universal physiological state evolutionarily conserved among species, but the molecular basis for its regulation is still largely unknown. Due to its electroencephalogram criteria, sleep has long been investigated and described mostly in mammalian species. The fruit fly, Drosophila melanogaster, has emerged as a genetic model organism for studying sleep. The Drosophila sleep is behaviorally defined, and is tightly regulated by circadian and homeostatic processes, like mammals. Genetic analyses using Drosophila have successfully identified a number of conserved regulatory mechanisms underlying sleep between flies and mammals...
April 21, 2017: Neuroscience Research
https://www.readbyqxmd.com/read/28437108/design-of-a-toolbox-of-rna-thermometers
#11
Shaunak Sen, Divyansh Apurva, Rohit Satija, Dan Siegal, Richard M Murray
Biomolecular temperature sensors can be used for efficient control of large-volume bioreactors, for spatiotemporal imaging and control of gene expression, and to engineer robustness to temperature in biomolecular circuit design. While RNA-based sensors, called 'thermometers', have been investigated in both natural and synthetic contexts, an important challenge is to design diverse responses to temperature, differing in sensitivities and thresholds. We address this issue by constructing a library of RNA thermometers, based on thermodynamic computations, and experimentally measuring their activities in cell-free biomolecular 'breadboards'...
April 24, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28435163/progranulin-lysosomal-regulation-and-neurodegenerative-disease
#12
REVIEW
Aimee W Kao, Andrew McKay, Param Priya Singh, Anne Brunet, Eric J Huang
The discovery that heterozygous and homozygous mutations in the gene encoding progranulin are causally linked to frontotemporal dementia and lysosomal storage disease, respectively, reveals previously unrecognized roles of the progranulin protein in regulating lysosome biogenesis and function. Given the importance of lysosomes in cellular homeostasis, it is not surprising that progranulin deficiency has pleiotropic effects on neural circuit development and maintenance, stress response, innate immunity and ageing...
April 24, 2017: Nature Reviews. Neuroscience
https://www.readbyqxmd.com/read/28430101/synthetic-temperature-inducible-lethal-gene-circuits-in-escherichia-coli
#13
Stephanie C Pearce, Ralph L McWhinnie, Francis E Nano
Temperature sensitivity is often used as a way to attenuate micro-organisms to convert them into live vaccines. In this work, we explore the use of temperature-sensitive (TS) genetic circuits that express lethal genes as a widely applicable approach to TS attenuation. We tested different combinations of TS repressors and cognate promoters controlling the expression of genes encoding restriction endonucleases inserted at four different non-essential sites in the Escherichia coli chromosome. We found that the presence of the restriction endonuclease genes did not affect the viability of the host strains at the permissive temperature, but that expression of the genes at elevated temperatures killed the strains to varying extents...
April 22, 2017: Microbiology
https://www.readbyqxmd.com/read/28430084/the-spo0a-sini-sinr-regulatory-circuit-plays-an-essential-role-in-biofilm-formation-nematicidal-activities-and-plant-protection-in-bacillus-cereus-ar156
#14
Sunde Xu, Nan Yang, Shiyu Zheng, Fang Yan, Chunhao Jiang, Yiyang Yu, Jianhua Guo, Yunrong Chai, Yun Chen
The rhizosphere bacterium Bacillus cereus AR156 is capable of forming biofilms, killing nematodes, and protecting plants. However, the underlying molecular mechanisms of these processes are not well understood. In this study, we found that the isogenic mutants ΔBcspo0A and ΔBcsinI have significantly reduced colonization and nematicidal activity in vitro and biological control efficacy on the tomato plant under greenhouse conditions. We further investigated the role of the spo0A-sinI-sinR regulatory circuit in biofilm formation, killing against nematodes, and biological control in AR156...
April 21, 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28428263/different-requirements-of-functional-telomeres-in-neural-stem-cells-and-terminally-differentiated-neurons
#15
Anastasia Lobanova, Robert She, Simon Pieraut, Charlie Clapp, Anton Maximov, Eros Lazzerini Denchi
Telomeres have been studied extensively in peripheral tissues, but their relevance in the nervous system remains poorly understood. Here, we examine the roles of telomeres at distinct stages of murine brain development by using lineage-specific genetic ablation of TRF2, an essential component of the shelterin complex that protects chromosome ends from the DNA damage response machinery. We found that functional telomeres are required for embryonic and adult neurogenesis, but their uncapping has surprisingly no detectable consequences on terminally differentiated neurons...
April 20, 2017: Genes & Development
https://www.readbyqxmd.com/read/28426785/genome-wide-association-studies-identified-multiple-genetic-loci-for-body-size-at-four-growth-stages-in-chinese-holstein-cattle
#16
Xu Zhang, Qin Chu, Gang Guo, Ganghui Dong, Xizhi Li, Qin Zhang, Shengli Zhang, Zhiwu Zhang, Yachun Wang
The growth and maturity of cattle body size affect not only feed efficiency, but also productivity and longevity. Dissecting the genetic architecture of body size is critical for cattle breeding to improve both efficiency and productivity. The volume and weight of body size are indicated by several measurements. Among them, Heart Girth (HG) and Hip Height (HH) are the most important traits. They are widely used as predictors of body weight (BW). Few association studies have been conducted for HG and HH in cattle focusing on single growth stage...
2017: PloS One
https://www.readbyqxmd.com/read/28423738/lncrna-snhg1-a-non-degradable-sponge-for-mir-338-promotes-expression-of-proto-oncogene-cst3-in-primary-esophageal-cancer-cells
#17
Yan Yan, Qingxia Fan, Liping Wang, Yue Zhou, Jianhua Li, Kun Zhou
Competing endogenous RNA (ceRNA) is a newly proposed mechanism that describes a crosstalk among lncRNAs, mRNAs and their shared miRNAs. In this study, the role of miR-338-3p (miR-338) in the progression of esophageal cancer and its involve in the ceRNA regulatory circuit lncRNA-Snhg1/CST3 were explored. MiR-338 displayed a 30% decreased expression in esophageal squamous cell carcinoma tissues compared with the adjacent. Then, proto-oncogene CST3 was predicted and validated as a target gene of miR-338. Gain-and-loss-function experiments indicated that miR-338 suppressed expression of CST3 protein (also Cystatin C, CysC), promoted expression of apoptotic proteins caspase-8/3, attenuated esophageal carcinoma cell growth and induced its apoptosis...
March 14, 2017: Oncotarget
https://www.readbyqxmd.com/read/28419975/animal-models-for-neuropsychiatric-disorders-prospects-for-circuit-intervention
#18
REVIEW
Tobias Kaiser, Yang Zhou, Guoping Feng
Monogenic animal models for psychiatric diseases have enabled researchers to dissect the relationship between certain candidate genes, neural circuit abnormalities, and behavioral phenotypes along development. Early reports of phenotypic reversal after genetic restoration in mouse models sparked hope that genetic defects do not damage circuits irreversibly in early-onset disorders. However, further studies have suggested that only some circuits exhibit this plasticity, while many others require proper gene function during development...
April 15, 2017: Current Opinion in Neurobiology
https://www.readbyqxmd.com/read/28415684/the-long-noncoding-rna-linc-ned125-controls-the-expression-of-medulloblastoma-driver-genes-by-microrna-sponge-activity
#19
Pietro Laneve, Agnese Po, Annarita Favia, Ivano Legnini, Vincenzo Alfano, Jessica Rea, Valerio Di Carlo, Valeria Bevilacqua, Evelina Miele, Angela Mastronuzzi, Andrea Carai, Franco Locatelli, Irene Bozzoni, Elisabetta Ferretti, Elisa Caffarelli
Long noncoding RNAs (lncRNAs) are major regulators of physiological and disease-related gene expression, particularly in the central nervous system. Dysregulated lncRNA expression has been documented in several human cancers, and their tissue-specificity makes them attractive candidates as diagnostic/prognostic biomarkers and/or therapeutic agents. Here we show that linc-NeD125, which we previously characterized as a neuronal-induced lncRNA, is significantly overexpressed in Group 4 medulloblastomas (G4 MBs), the largest and least well characterized molecular MB subgroup...
March 9, 2017: Oncotarget
https://www.readbyqxmd.com/read/28415643/new-transcriptional-based-insights-into-the-pathogenesis-of-desmoplastic-small-round-cell-tumors-dsrcts
#20
Tiziana Negri, Silvia Brich, Fabio Bozzi, Chiara V Volpi, Ambra V Gualeni, Silvia Stacchiotti, Loris De Cecco, Silvana Canevari, Annunziata Gloghini, Silvana Pilotti
To gain new insights into desmoplastic small round cell tumors (DSRCTs) by means of gene expression profiling (GEP). Formalin-fixed, paraffin-embedded surgical specimens obtained from seven pretreated DSRCT patients were interrogated using GEP complemented by immunohistochemistry, a cancer stem cell array, and miRNA in situ hybridisation, including the combined chimera modules miRNA-200/ZEB1 and miRNA-34/SLUG. The chimera modules divided the cases into three classes that respectively recapitulated the traits of mesenchymal epithelial reverse transition (MErT), epithelial mesenchymal transition (EMT), and hybrid/partial EMT...
March 22, 2017: Oncotarget
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