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The chemical organization of signaling interactions

U. S. Bhalla
2002 Bioinformatics  
This does not map readily to the block diagram representation familiar to biologists, and obscures the functional organization of signaling networks.  ...  Results: I classified 74 interactions between 25 signaling pathways in terms of shared chemical motifs.  ...  This work was supported by NCBS/TIFR and a grant from the Wellcome Trust.  ... 
doi:10.1093/bioinformatics/18.6.855 pmid:12075021 fatcat:r4b2fyxjhzfefoqvu4vhey444y

Allelochemicals and Signaling Chemicals in Plants

Chui-Hua Kong, Tran Dang Xuan, Tran Dang Khanh, Hoang-Dung Tran, Nguyen Thanh Trung
2019 Molecules  
Belowground interactions, particularly in the context of soil-borne chemicals driving signaling interactions, are largely unknown, due to the complexity of plant-soil interactions.  ...  The plant-organism interactions that are mediated by allelochemicals and signaling chemicals take place both aboveground and belowground.  ...  Acknowledgments: The authors thank the partly fund from Nguyen Tat Thanh and Duy Tan Universities, Vietnam. Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/molecules24152737 pmid:31357670 pmcid:PMC6695906 fatcat:ttur6dko5rfldbaaf6rpddo7w4

Chemical ecology

T. Eisner, J. Meinwald
1995 Proceedings of the National Academy of Sciences of the United States of America  
All organisms engender chemical signals, and all, in their respective ways, respond to the chemical emissions of others.  ...  Molecules that transmit information between organisms are a fundamental part of the regulatory chemicals of nature.  ...  All organisms engender chemical signals, and all, in their respective ways, respond to the chemical emissions of others.  ... 
doi:10.1073/pnas.92.1.1 pmid:7816795 pmcid:PMC42806 fatcat:mngumaehu5h3fmxf4bwfsgteii

Chemical Modifier Screenings as Methods for Identifying Pathway-Targeting Compounds and for Predicting Drug-Drug Interactions

Naoyuki Nishiya
2014 Organic Chemistry: Current Research  
Genetic suppressor screening in different model organisms led to identification of genes functioning in the same signaling pathway.  ...  in model organisms have identified and characterized important signaling pathways.  ... 
doi:10.4172/2161-0401.1000128 fatcat:tdwp2gpv6rfn7ddpezxumdxuc4

Modeling of signaling pathways for endocrine disruptors

Tsuguchika Kaminuma, Takako Takai-Igarashi, Tatsuya Nakano, Kotoko Nakata
2000 Biosystems (Amsterdam. Print)  
Thus we have developed a database complex system that enables one to trace molecular interactions triggered by interaction of receptors with xenobiotic chemicals.  ...  Because of the time and costs required for wet lab tests, it is unrealistic to apply these kinds of tests to all such suspicious or probable chemicals.  ...  Koyano who carried out molecular modeling calculations for these chemicals.  ... 
doi:10.1016/s0303-2647(99)00079-9 pmid:10745105 fatcat:wf6epzexgzb4vm5guevnh4fdga

Microbe-driven chemical ecology: past, present and future

Ruth Schmidt, Dana Ulanova, Lukas Y. Wick, Helge B. Bode, Paolina Garbeva
2019 The ISME Journal  
We aim to emphasize that future developments in the field of MCE will need to include holistic studies involving organisms at all levels and to consider mechanisms underlying the interactions between viruses  ...  However, studies concerning microbial chemical interactions need to consider biotic and abiotic factors on multidimensional levels, which require the development of new tools and approaches mimicking natural  ...  Acknowledgements The authors would like to thank all participants of the roundtable session "Microbial chemical ecology: intraspecies and interspecies communication" at ISME 17 for the fruitful discussion  ... 
doi:10.1038/s41396-019-0469-x pmid:31289346 pmcid:PMC6794290 fatcat:wotqadwj7vfrvi3ttdu4awvfs4

Interspecies Chemical Communication in Bacterial Development

Paul D. Straight, Roberto Kolter
2009 Annual Review of Microbiology  
Traditional methods in microbiology focus on isolation and characterization of bacteria in monoculture, separating the organisms from the surroundings in which interspecies chemical communication has relevance  ...  The hallmark of cellular development, which we characterize as physiological change in response to environmental stimuli, is a defining feature of many bacterial interspecies interactions.  ...  ACKNOWLEDGMENTS The authors thank Juan Gonzalez, John Kirby, and Jordan Stewart for contributions to the figures, and E. Gillian Polk for assistance in assembling the manuscript. LITERATURE CITED  ... 
doi:10.1146/annurev.micro.091208.073248 pmid:19566421 fatcat:bpstpu7zizczhlnvgmjfcdl4bq

The Ecology of Plant Chemistry and Multi-Species Interactions in Diversified Agroecosystems

Rodolfo F Silva, Gabriela B P Rabeschini, Giovanna L R Peinado, Leandro G Cosmo, Luiz H G Rezende, Rafael K Murayama, Martín Pareja
2018 Frontiers in Plant Science  
Over the past few years, our knowledge of how ecological interactions shape the structure and dynamics of natural communities has rapidly advanced.  ...  Plant chemical traits play key roles in these processes because they mediate a diverse range of direct and indirect interactions in a community-wide context.  ...  We also thank the two reviewers and the editor TM for the valuable contributions in the revision process of the manuscript.  ... 
doi:10.3389/fpls.2018.01713 pmid:30524464 pmcid:PMC6262048 fatcat:rqcjh4pbmfbr5dqrupxmoaggea

From Petri Dishes to Model Ecosystems

Oskar Siemianowski, Kara R. Lind, Xinchun Tian, Matt Cain, Songzhe Xu, Baskar Ganapathysubramanian, Ludovico Cademartiri
2018 Trends in Plant Science  
In this context, we highlight recent breakthroughs that allow for the creation of networks of organisms with independently controlled environments and rates of chemical exchange.  ...  Model ecosystems could provide significant insight on the evolution and behavior of real ecosystems. We discuss the advantages and limitations of common approaches like mesocosms.  ...  The development of an ecosystem depends on the environment and the chemical (e.g., signaling) and physical (e.g., shading) interactions between its members.  ... 
doi:10.1016/j.tplants.2018.03.006 pmid:29622395 fatcat:yri5rv43ovdlrdqfxgut7hegca

New Synthesis—Systems Chemical Ecology

Franz Hadacek, Vladimir Chobot
2011 Journal of Chemical Ecology  
Present knowledge suggests that in plants, as in other organisms, co-ordinated redox chemical reactions between reactive oxygen species (ROS) and hormones represent the upstream part of this signalling  ...  of interacting species.  ...  Present knowledge suggests that in plants, as in other organisms, co-ordinated redox chemical reactions between reactive oxygen species (ROS) and hormones represent the upstream part of this signalling  ... 
doi:10.1007/s10886-011-0041-2 pmid:22105563 fatcat:36trj57drfhqzatwnuremmpyne

Do you speak chemistry?

Axel Mithöfer, Wilhelm Boland
2016 EMBO Reports  
Conflict of interest The authors declare that they have no conflict of interest.  ...  Figure 1 . 1 Simplified model of communication between two organisms. Figure 2 . 2 Model of plant-insect herbivore interactions and associated chemical defense mechanisms.  ...  these signals are almost always chemical compounds.  ... 
doi:10.15252/embr.201642301 pmid:27113749 pmcid:PMC5341511 fatcat:7liyml2qara3zaydegs7xflvpe

Chemical communication in a post-genomic world

M. R. Berenbaum, G. E. Robinson
2003 Proceedings of the National Academy of Sciences of the United States of America  
Chemosensory signaling shares several features irrespective of taxon; components of the vast majority of chemosensory signaling systems include a receptor that interacts with a signal molecule, a signal  ...  Many of the most abundantly represented genes in the genomes characterized to date encode proteins mediating interactions among organisms, including odorant receptors and binding proteins, enzymes involved  ... 
doi:10.1073/pnas.2335883100 pmid:14595008 pmcid:PMC304109 fatcat:py74acqkina3dofoziklovbw5a

The raison d'être of chemical ecology

Robert A. Raguso, Anurag A. Agrawal, Angela E. Douglas, Georg Jander, André Kessler, Katja Poveda, Jennifer S. Thaler
2015 Ecology  
Founded on the notion that all organisms use endogenous hormones and chemical compounds that mediate interactions, chemical ecology has flourished over the past 50 years since its origin.  ...  ecosystem effects of chemically mediated species interactions.  ...  All organisms engender chemical signals, and all, in their respective ways, respond to the chemical emissions of others.  ... 
doi:10.1890/14-1474.1 pmid:26236859 fatcat:bxv63fyucrdzzjunb73ps5vsxm

Chiral recognition in metal–organic frameworks studied by solid-state NMR spectroscopy using chiral solvating agents

Herbert C. Hoffmann, Silvia Paasch, Philipp Müller, Irena Senkovska, Mohan Padmanaban, Frank Glorius, Stefan Kaskel, Eike Brunner
2012 Chemical Communications  
Metal-Organic Frameworks (MOFs) 2-4 are hybrid materials formed by organic and inorganic building blocks. 5 The interactions between organic and inorganic constituents are relatively strong 6 resulting  ...  1 Magnetic resonance spectroscopy is frequently used for the characterization of porous materials and their interactions with adsorbed species (host-guest interactions).  ...  Comparison of the spectra loaded with (R)-and (S)-TFPE reveals different chemical shifts for selected signals.  ... 
doi:10.1039/c2cc35366k pmid:22932689 fatcat:jh2verm53fcm5guuluye2twt7q

Pheromones and Behavior [chapter]

Tristram D. Wyatt
2010 Chemical Communication in Crustaceans  
Signature mixtures are variable chemical mixtures (a subset of the molecules in an animal's chemical profile) learned by other conspecifics and used to recognize an organism as an individual (e.g., lobsters  ...  Chemical communication is widely used by crustaceans, for example, in sexual interactions, larval release, and planktonic settlement.  ...  Thomas) and Zoology Departments for supporting me over many years, and the editors and chapter referees for their suggestions.  ... 
doi:10.1007/978-0-387-77101-4_2 fatcat:tybsv5ymjnbpbe27zgmwfbjiam
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