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Di-cyclic gmp

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https://www.readbyqxmd.com/read/28078398/potential-coupling-effects-of-ammonia-oxidizing-and-anaerobic-ammonium-oxidizing-bacteria-on-completely-autotrophic-nitrogen-removal-over-nitrite-biofilm-formation-induced-by-the-second-messenger-cyclic-diguanylate
#1
Chao Wang, Sitong Liu, Xiaochen Xu, Chuanqi Zhao, Fenglin Yang, Dong Wang
The objective of this study was to investigate the influence of extracellular polymeric substance (EPS) on the coupling effects between ammonia-oxidizing bacteria (AOB) and anaerobic ammonium-oxidizing (anammox) bacteria for the completely autotrophic nitrogen removal over nitrite (CANON) biofilm formation in a moving bed biofilm reactor (MBBR). Analysis of the quantity of EPS and cyclic diguanylate (c-di-GMP) confirmed that the contents of polysaccharides and c-di-GMP were correlated in the AOB sludge, anammox sludge, and CANON biofilm...
January 11, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28057864/adenylate-cyclase-a-acting-on-pka-mediates-induction-of-stalk-formation-by-cyclic-diguanylate-at-the-dictyostelium-organizer
#2
Zhi-Hui Chen, Reema Singh, Christian Cole, Hajara Mohammed Lawal, Christina Schilde, Melanie Febrer, Geoffrey J Barton, Pauline Schaap
Coordination of cell movement with cell differentiation is a major feat of embryonic development. The Dictyostelium stalk always forms at the organizing tip, by a mechanism that is not understood. We previously reported that cyclic diguanylate (c-di-GMP), synthesized by diguanylate cyclase A (DgcA), induces stalk formation. Here we used transcriptional profiling of dgca- structures to identify target genes for c-di-GMP, and used these genes to investigate the c-di-GMP signal transduction pathway. We found that knockdown of cAMP-dependent protein kinase (PKA) activity in prestalk cells reduced stalk gene induction by c-di-GMP, whereas PKA activation bypassed the c-di-GMP requirement for stalk gene expression...
January 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28031943/supramolecular-polymer-formation-by-cyclic-dinucleotides-and-intercalators-affects-dinucleotide-enzymatic-processing
#3
Shizuka Nakayama, Jie Zhou, Yue Zheng, Henryk Szmacinski, Herman O Sintim
BACKGROUND: Cyclic dinucleotides form supramolecular aggregates with intercalators, and this property could be utilized in nanotechnology and medicine. METHODS & RESULTS: Atomic force microscopy and electrophoretic mobility shift assays were used to show that cyclic diguanylic acid (c-di-GMP) forms G-wires in the presence of intercalators. The average fluorescence lifetime of thiazole orange, when bound to c-di-GMP was greater than when bound to DNA G-quadruplexes or dsDNA...
March 2016: Future Science OA
https://www.readbyqxmd.com/read/28031279/progress-in-understanding-of-the-molecular-basis-underlying-functional-diversification-of-cyclic-di-nucleotide-turnover-proteins
#4
Ute Römling, Zhao-Xun Liang, J Maxwell Dow
Cyclic di-GMP was the first cyclic di-nucleotide second messenger described, presaging the discovery of additional cyclic di-nucleotide messengers in bacteria and eukaryotes. The GGDEF diguanylate cyclase (DGC) and EAL and HD-GYP phosphodiesterase (PDE) domains conduct the turnover of cyclic di-GMP. These three unrelated domains belong to superfamilies that exhibit significant variations in function, to include both enzymatically active and inactive members with a subset involved in synthesis and degradation of other cyclic di-nucleotides...
December 28, 2016: Journal of Bacteriology
https://www.readbyqxmd.com/read/28011630/a-polycycstin-type-transient-receptor-potential-trp-channel-that-is-activated-by-atp
#5
David Traynor, Robert R Kay
ATP and ADP are ancient extra-cellular signalling molecules that in Dictyostelium amoebae cause rapid, transient increases in cytosolic calcium due to an influx through the plasma membrane. This response is independent of hetero-trimeric G-proteins, the putative IP3 receptor IplA and all P2X channels. We show, unexpectedly, that it is abolished in mutants of the polycystin-type transient receptor potential channel, TrpP. Responses to the chemoattractants cyclic-AMP and folic acid are unaffected in TrpP mutants...
December 23, 2016: Biology Open
https://www.readbyqxmd.com/read/27990276/recent-advances-in-understanding-streptomyces
#6
REVIEW
Keith F Chater
About 2,500 papers dated 2014-2016 were recovered by searching the PubMed database for Streptomyces, which are the richest known source of antibiotics. This review integrates around 100 of these papers in sections dealing with evolution, ecology, pathogenicity, growth and development, stress responses and secondary metabolism, gene expression, and technical advances. Genomic approaches have greatly accelerated progress. For example, it has been definitively shown that interspecies recombination of conserved genes has occurred during evolution, in addition to exchanges of some of the tens of thousands of non-conserved accessory genes...
2016: F1000Research
https://www.readbyqxmd.com/read/27986717/flra-represses-transcription-of-biofilm-associated-bpfa-operon-in-shewanella-putrefaciens
#7
Yuan-Yuan Cheng, Chao Wu, Jia-Yi Wu, Hui-Ling Jia, Ming-Yu Wang, Huan-Yu Wang, Si-Min Zou, Rui-Rui Sun, Rong Jia, Ya-Zhong Xiao
: Manipulation of biofilm formation in Shewanella is beneficial for applications in industrial and environmental biotechnology. BpfA is an adhesin largely responsible for biofilm formation in many Shewanella species. However, the mechanism underlying the BpfA production and resulting biofilm remains vaguely understood. We previously described that BpfA expression is enhanced by DosD, an oxygen-stimulated diguanylate cyclase, under aerobic growth. In the present work, we identified FlrA as a critical transcription regulator of the bpfA operon in Shewanella putrefaciens CN32 by transposon mutagenesis...
December 16, 2016: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/27956524/thermoregulation-of-biofilm-formation-in-burkholderia-pseudomallei-is-disrupted-by-mutation-of-a-putative-diguanylate-cyclase
#8
Brooke A Plumley, Kevin H Martin, Grace I Borlee, Nicole L Marlenee, Mary N Burtnick, Paul J Brett, David P AuCoin, Richard A Bowen, Herbert P Schweizer, Bradley R Borlee
: Burkholderia pseudomallei, a Tier 1 select agent and the etiological agent of melioidosis, transitions from soil and aquatic environments to infect a variety of vertebrate and invertebrate hosts. During the transition from an environmental saprophyte to a mammalian pathogen, B. pseudomallei encounters and responds to rapidly changing environmental conditions. Environmental sensing systems that control cellular levels of cyclic di-GMP promote pathogen survival in diverse environments...
December 12, 2016: Journal of Bacteriology
https://www.readbyqxmd.com/read/27933792/oxygen-and-bis-3-5-cyclic-dimeric-guanosine-monophosphate-binding-control-oligomerization-state-equilibria-of-diguanylate-cyclase-containing-globin-coupled-sensors
#9
Justin L Burns, Shannon Rivera, D Douglas Deer, Shawnna C Joynt, David Dvorak, Emily E Weinert
Bacteria sense their environment to alter phenotypes, including biofilm formation, to survive changing conditions. Heme proteins play important roles in sensing the bacterial gaseous environment and controlling the switch between motile and sessile (biofilm) states. Globin coupled sensors (GCS), a family of heme proteins consisting of a globin domain linked by a central domain to an output domain, are often found with diguanylate cyclase output domains that synthesize c-di-GMP, a major regulator of biofilm formation...
December 6, 2016: Biochemistry
https://www.readbyqxmd.com/read/27914071/differential-radial-capillary-action-of-ligand-assay-dracala-for-high-throughput-detection-of-protein-metabolite-interactions-in-bacteria
#10
Mona W Orr, Vincent T Lee
Bacteria rely on numerous nucleotide second messengers for signal transduction such as cyclic AMP, cyclic-di-GMP, and cyclic-di-AMP. Although a number of receptors responsible for known regulated phenotypes have been established, the completeness of protein receptors in any given organism remains elusive. We have developed a method called differential radial capillary action of ligand assay (DRaCALA) that allows for an unbiased, systematic high-throughput screen for the detection of ligand binding proteins encoded by a genome...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27899451/real-time-spatial-and-temporal-mapping-of-the-distribution-of-c-di-gmp-during-biofilm-development
#11
Harikrishnan A S Nair, Saravanan Periasamy, Yang Liang, Staffan Kjelleberg, Scott A Rice
Bis-(3 ́-5 ́)-cyclic dimeric guanosine monophosphate (c-di-GMP) is a dynamic intracellular signaling molecule that plays a central role in the biofilm life cycle. Current methodologies for the quantification of c-di-GMP are typically based on chemical extraction, representing end-point measurements. Chemical methodologies also fail to take into consideration the physiological heterogeneity of the biofilm and thus represents an average c-di-GMP concentration across the entire biofilm. To address these problems, a ratiometric, image-based quantification method has been developed based on expression of the green fluorescence protein (GFP) under the control of the c-di-GMP responsive cdrA promoter (1)...
November 29, 2016: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27881736/reactive-oxygen-species-drive-evolution-of-pro-biofilm-variants-in-pathogens-by-modulating-cyclic-di-gmp-levels
#12
Song Lin Chua, Yichen Ding, Yang Liu, Zhao Cai, Jianuan Zhou, Sanjay Swarup, Daniela I Drautz-Moses, Stephan Christoph Schuster, Staffan Kjelleberg, Michael Givskov, Liang Yang
The host immune system offers a hostile environment with antimicrobials and reactive oxygen species (ROS) that are detrimental to bacterial pathogens, forcing them to adapt and evolve for survival. However, the contribution of oxidative stress to pathogen evolution remains elusive. Using an experimental evolution strategy, we show that exposure of the opportunistic pathogen Pseudomonas aeruginosa to sub-lethal hydrogen peroxide (H2O2) levels over 120 generations led to the emergence of pro-biofilm rough small colony variants (RSCVs), which could be abrogated by l-glutathione antioxidants...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27855163/genetic-modulation-of-c-di-gmp-turnover-affects-multiple-virulence-traits-and-bacterial-virulence-in-rice-pathogen-dickeya-zeae
#13
Yufan Chen, Mingfa Lv, Lisheng Liao, Yanfang Gu, Zhibin Liang, Zurong Shi, Shiyin Liu, Jianuan Zhou, Lianhui Zhang
The frequent outbreaks of rice foot rot disease caused by Dickeya zeae have become a significant concern in rice planting regions and countries, but the regulatory mechanisms that govern the virulence of this important pathogen remain vague. Given that the second messenger cyclic di-GMP (c-di-GMP) is associated with modulation of various virulence-related traits in various microorganisms, here we set to investigate the role of the genes encoding c-di-GMP metabolism in the regulation of the bacterial physiology and virulence by construction all in-frame deletion mutants targeting the annotated c-di-GMP turnover genes in D...
2016: PloS One
https://www.readbyqxmd.com/read/27852620/cyclic-di-gmp-binding-induces-structural-rearrangements-in-the-plza-and-plzc-proteins-of-the-lyme-disease-and-relapsing-fever-spirochetes-a-possible-switch-mechanism-for-c-di-gmp-mediated-effector-functions
#14
Katherine L Mallory, Daniel P Miller, Lee D Oliver, John C Freedman, Jessica L Kostick-Dunn, Jason A Carlyon, James D Marion, Jessica K Bell, Richard T Marconi
The c-di-GMP network of Borrelia burgdorferi, a causative agent of Lyme disease, consists of Rrp1, a diguanylate cyclase/response regulator; Hpk1, a histidine kinase; PdeA and PdeB, c-di-GMP phosphodiesterases; and PlzA, a PilZ domain c-di-GMP receptor. Borrelia hermsii, a causative agent of tick-borne relapsing fever, possesses a putative c-di-GMP regulatory network that is uncharacterized. While B. burgdorferi requires c-di-GMP to survive within ticks, the associated effector mechanisms are poorly defined...
November 2016: Pathogens and Disease
https://www.readbyqxmd.com/read/27822534/long-term-evolution-of-burkholderia-multivorans-during-a-chronic-cystic-fibrosis-infection-reveals-shifting-forces-of-selection
#15
Inês N Silva, Pedro M Santos, Mário R Santos, James E A Zlosnik, David P Speert, Sean W Buskirk, Eric L Bruger, Christopher M Waters, Vaughn S Cooper, Leonilde M Moreira
Burkholderia multivorans is an opportunistic pathogen capable of causing severe disease in patients with cystic fibrosis (CF). Patients may be chronically infected for years, during which the bacterial population evolves in response to unknown forces. Here we analyze the genomic and functional evolution of a B. multivorans infection that was sequentially sampled from a CF patient over 20 years. The population diversified into at least four primary, coexisting clades with distinct evolutionary dynamics. The average substitution rate was only 2...
May 2016: MSystems
https://www.readbyqxmd.com/read/27821498/established-t-cell-inflamed-tumors-rejected-after-adaptive-resistance-was-reversed-by-combination-sting-activation-and-pd-1-pathway-blockade
#16
Ellen Moore, Paul E Clavijo, Ruth Davis, Harrison Cash, Carter Van Waes, Young Kim, Clint Allen
Patients with head and neck squamous cell carcinoma harbor T cell-inflamed and non-T cell-inflamed tumors. Despite this, only 20% of patients respond to checkpoint inhibitor immunotherapy. Lack of induction of innate immunity through pattern-recognition receptors, such as the stimulator of interferon (IFN) genes (STING) receptor, may represent a significant barrier to the development of effective antitumor immunity. Here, we demonstrate robust control of a T cell-inflamed (MOC1), but not non-T cell-inflamed (MOC2), model of head and neck cancer by activation of the STING pathway with the synthetic cyclic dinucleotide RP,RP dithio-c-di-GMP...
December 2016: Cancer Immunology Research
https://www.readbyqxmd.com/read/27811183/a-cyclic-di-gmp-binding-adaptor-protein-interacts-with-a-chemotaxis-methyltransferase-to-control-flagellar-motor-switching
#17
Linghui Xu, Lingyi Xin, Yukai Zeng, Joey Kuok Hoong Yam, Yichen Ding, Prabhadevi Venkataramani, Qing Wei Cheang, Xiaobei Yang, Xuhua Tang, Lian-Hui Zhang, Keng-Hwee Chiam, Liang Yang, Zhao-Xun Liang
The bacterial messenger cyclic diguanylate monophosphate (c-di-GMP) binds to various effectors, the most common of which are single-domain PilZ proteins. These c-di-GMP effectors control various cellular functions and multicellular behaviors at the transcriptional or posttranslational level. We found that MapZ (methyltransferase-associated PilZ; formerly known as PA4608), a single-domain PilZ protein from the opportunistic pathogen Pseudomonas aeruginosa, directly interacted with the methyltransferase CheR1 and that this interaction was enhanced by c-di-GMP...
October 18, 2016: Science Signaling
https://www.readbyqxmd.com/read/27811181/a-pilz-domain-protein-for-chemotaxis-adds-another-layer-to-c-di-gmp-mediated-regulation-of-flagellar-motility
#18
REVIEW
Mona W Orr, Vincent T Lee
Cyclic diguanylate monophosphate (c-di-GMP) is a ubiquitous second messenger in bacteria. In this issue of Science Signaling, Xu et al show that c-di-GMP regulates chemotaxis by binding to the PilZ domain protein MapZ to alter the methyltransferase activity of its protein partner CheR, fleshing out the c-di-GMP signaling network of the opportunistic pathogen Pseudomonas aeruginosa.
October 18, 2016: Science Signaling
https://www.readbyqxmd.com/read/27803478/development-of-a-drug-delivery-system-for-cancer-immunotherapy
#19
Takashi Nakamura
 Delivery systems are a powerful technology for enhancing the effect of cancer immunotherapy. We have been in the process of developing lipid-based delivery systems for controlling the physical properties and dynamics of immunofunctional molecules such as antigens and adjuvants. The lipid nanoparticulation of these molecules improves their physical properties, resulting in a good water dispensability, greater stability, and small size. The cell wall skeleton of bacille Calmette-Guerin (BCG-CWS) could be used to replace live BCG as a drug for treating bladder cancer, but problems associated with the physical properties of BCG-CWS have prevented its use...
2016: Yakugaku Zasshi: Journal of the Pharmaceutical Society of Japan
https://www.readbyqxmd.com/read/27802310/non-enzymatic-oligomerization-of-3-5-cyclic-amp
#20
Giovanna Costanzo, Samanta Pino, Anna Maria Timperio, Judit E Šponer, Jiří Šponer, Olga Nováková, Ondrej Šedo, Zbyněk Zdráhal, Ernesto Di Mauro
Recent studies illustrate that short oligonucleotide sequences can be easily produced from nucleotide precursors in a template-free non-enzymatic way under dehydrating conditions, i.e. using essentially dry materials. Here we report that 3',5' cyclic AMP may also serve as a substrate of the reaction, which proceeds under moderate conditions yet with a lower efficiency than the previously reported oligomerization of 3',5' cyclic GMP. Optimally the oligomerization requires (i) a temperature of 80°C, (ii) a neutral to alkaline environment and (iii) a time on the order of weeks...
2016: PloS One
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