K-shell Analysis Reveals Distinct Functional Parts in an Electron Transfer Network and Its Implications for Extracellular Electron Transfer
暂无分享,去创建一个
Xiao Sun | Dewu Ding | Xiao Sun | D. Ding | Ling Li | Chuanjun Shu | Chuanjun Shu | Ling Li
[1] D. Lovley,et al. Link between capacity for current production and syntrophic growth in Geobacter species , 2015, Front. Microbiol..
[2] Frauke Kracke,et al. Microbial electron transport and energy conservation – the foundation for optimizing bioelectrochemical systems , 2015, Front. Microbiol..
[3] Qichun Zhang,et al. Metabolite-enabled mutualistic interaction between Shewanella oneidensis and Escherichia coli in a co-culture using an electrode as electron acceptor , 2015, Scientific Reports.
[4] Kazuya Watanabe,et al. Transcriptional mechanisms for differential expression of outer membrane cytochrome genes omcA and mtrC in Shewanella oneidensis MR-1 , 2015, BMC Microbiology.
[5] Tian Zhang,et al. Electrifying microbes for the production of chemicals , 2015, Front. Microbiol..
[6] Kelly P. Nevin,et al. Syntrophic growth via quinone-mediated interspecies electron transfer , 2015, Front. Microbiol..
[7] Heinrich Heide,et al. A dynamic periplasmic electron transfer network enables respiratory flexibility beyond a thermodynamic regulatory regime , 2015, The ISME Journal.
[8] Natasa Przulj,et al. Topology-function conservation in protein–protein interaction networks , 2015, Bioinform..
[9] Haichun Gao,et al. Regulation of nitrite resistance of the cytochrome cbb3 oxidase by cytochrome c ScyA in Shewanella oneidensis , 2014, MicrobiologyOpen.
[10] Xiao Sun,et al. Identifying the potential extracellular electron transfer pathways from a c-type cytochrome network. , 2014, Molecular bioSystems.
[11] Sanguk Kim,et al. Linear Motif-Mediated Interactions Have Contributed to the Evolution of Modularity in Complex Protein Interaction Networks , 2014, PLoS Comput. Biol..
[12] Amelia-Elena Rotaru,et al. Plugging in or going wireless: strategies for interspecies electron transfer , 2014, Front. Microbiol..
[13] Zhiming Zheng,et al. Searching for superspreaders of information in real-world social media , 2014, Scientific Reports.
[14] Christopher J. Oldfield,et al. Classification of Intrinsically Disordered Regions and Proteins , 2014, Chemical reviews.
[15] Ujjwal Maulik,et al. Network-Based Study Reveals Potential Infection Pathways of Hepatitis-C Leading to Various Diseases , 2014, PloS one.
[16] Regina A. O'Neil,et al. The Iron Stimulon and Fur Regulon of Geobacter sulfurreducens and Their Role in Energy Metabolism , 2014, Applied and Environmental Microbiology.
[17] M. Uhart,et al. Protein intrinsic disorder and network connectivity. The case of 14-3-3 proteins , 2014, Front. Genet..
[18] Jochen Blumberger,et al. Electron flow in multiheme bacterial cytochromes is a balancing act between heme electronic interaction and redox potentials , 2014, Proceedings of the National Academy of Sciences.
[19] Arnaud Céol,et al. 3did: a catalog of domain-based interactions of known three-dimensional structure , 2013, Nucleic Acids Res..
[20] H. Dyson,et al. Intrinsically disordered proteins in cellular signalling and regulation , 2014, Nature Reviews Molecular Cell Biology.
[21] K. Brockman. Enzyme activity, maturation and regulation of anaerobic reductases in Shewanella oneidensis MR-1 , 2014 .
[22] B. Griffin,et al. Network Context and Selection in the Evolution to Enzyme Specificity , 2014 .
[23] Jing-quan Li,et al. Artemisinin rewires the protein interaction network in cancer cells: network analysis, pathway identification, and target prediction. , 2013, Molecular bioSystems.
[24] Miao Jin,et al. Unique Organizational and Functional Features of the Cytochrome c Maturation System in Shewanella oneidensis , 2013, PloS one.
[25] A Keith Dunker,et al. Alternative splicing of intrinsically disordered regions and rewiring of protein interactions. , 2013, Current opinion in structural biology.
[26] Daniel W. A. Buchan,et al. A large-scale evaluation of computational protein function prediction , 2013, Nature Methods.
[27] Michaela A. Teravest,et al. Tuning promoter strengths for improved synthesis and function of electron conduits in Escherichia coli. , 2013, ACS synthetic biology.
[28] Damian Szklarczyk,et al. STRING v9.1: protein-protein interaction networks, with increased coverage and integration , 2012, Nucleic Acids Res..
[29] Bruno M. Fonseca,et al. Mind the gap: cytochrome interactions reveal electron pathways across the periplasm of Shewanella oneidensis MR-1. , 2013, The Biochemical journal.
[30] C. Leang,et al. The Rnf Complex of Clostridium ljungdahlii Is a Proton-Translocating Ferredoxin:NAD+ Oxidoreductase Essential for Autotrophic Growth , 2012, mBio.
[31] Alexander N. Volkov,et al. Electron Transfer Interactome of Cytochrome c , 2012, PLoS Comput. Biol..
[32] K. Rosso,et al. Thermodynamics of electron flow in the bacterial deca-heme cytochrome MtrF. , 2012, Journal of the American Chemical Society.
[33] Kevin A. Robertson,et al. Extending signaling pathways with protein-interaction networks. Application to apoptosis. , 2012, Omics : a journal of integrative biology.
[34] Dan Coursolle,et al. Reconstruction of Extracellular Respiratory Pathways for Iron(III) Reduction in Shewanella Oneidensis Strain MR-1 , 2012, Front. Microbio..
[35] John M. Zachara,et al. Molecular Underpinnings of Fe(III) Oxide Reduction by Shewanella Oneidensis MR-1 , 2012, Front. Microbio..
[36] Jae-Seong Yang,et al. Rewiring of PDZ Domain-Ligand Interaction Network Contributed to Eukaryotic Evolution , 2012, PLoS genetics.
[37] L. T. Angenent,et al. Transcriptional Analysis of Shewanella oneidensis MR-1 with an Electrode Compared to Fe(III)Citrate or Oxygen as Terminal Electron Acceptor , 2012, PloS one.
[38] Grigoriy E. Pinchuk,et al. Pyruvate and Lactate Metabolism by Shewanella oneidensis MR-1 under Fermentation, Oxygen Limitation, and Fumarate Respiration Conditions , 2011, Applied and Environmental Microbiology.
[39] B. Devreese,et al. Bacterial two-hybrid analysis of the Shewanella oneidensis MR-1 multi-component electron transfer pathway , 2011 .
[40] O. Einsle,et al. Investigation of the Electron Transport Chain to and the Catalytic Activity of the Diheme Cytochrome c Peroxidase CcpA of Shewanella oneidensis , 2011, Applied and Environmental Microbiology.
[41] M. Y. Lobanov,et al. The Ising model for prediction of disordered residues from protein sequence alone , 2011, Physical biology.
[42] Zoran Obradovic,et al. Bioinformatics analysis of disordered proteins in prokaryotes , 2011, BMC Bioinformatics.
[43] Edgar C. Buck,et al. Imaging Hydrated Microbial Extracellular Polymers: Comparative Analysis by Electron Microscopy , 2010, Applied and Environmental Microbiology.
[44] Dan Coursolle,et al. Modularity of the Mtr respiratory pathway of Shewanella oneidensis strain MR‐1 , 2010, Molecular microbiology.
[45] Samantha B. Reed,et al. Impacts of Shewanella oneidensis c‐type cytochromes on aerobic and anaerobic respiration , 2010, Microbial biotechnology.
[46] Jim K. Fredrickson,et al. Constraint-Based Model of Shewanella oneidensis MR-1 Metabolism: A Tool for Data Analysis and Hypothesis Generation , 2010, PLoS Comput. Biol..
[47] Martin Ester,et al. PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes , 2010, Bioinform..
[48] Lev Muchnik,et al. Identifying influential spreaders in complex networks , 2010, 1001.5285.
[49] Alfons J. M. Stams,et al. Electron transfer in syntrophic communities of anaerobic bacteria and archaea , 2009, Nature Reviews Microbiology.
[50] T. DiChristina,et al. Anaerobic Respiration of Elemental Sulfur and Thiosulfate by Shewanella oneidensis MR-1 Requires psrA, a Homolog of the phsA Gene of Salmonella enterica Serovar Typhimurium LT2 , 2009, Applied and Environmental Microbiology.
[51] Samantha B. Reed,et al. Reduction of nitrate in Shewanella oneidensis depends on atypical NAP and NRF systems with NapB as a preferred electron transport protein from CymA to NapA , 2009, The ISME Journal.
[52] E. Birney,et al. Pfam: the protein families database , 2013, Nucleic Acids Res..
[53] José Ignacio Alvarez-Hamelin,et al. A low complexity visualization tool that helps to perform complex systems analysis , 2008 .
[54] Lee Ann McCue,et al. Identification of Mobile Elements and Pseudogenes in the Shewanella oneidensis MR-1 Genome , 2008, Applied and Environmental Microbiology.
[55] G. Anderson,et al. In vivo identification of the outer membrane protein OmcA-MtrC interaction network in Shewanella oneidensis MR-1 cells using novel hydrophobic chemical cross-linkers. , 2008, Journal of proteome research.
[56] Jan O. Korbel,et al. Positive selection at the protein network periphery: Evaluation in terms of structural constraints and cellular context , 2007, Proceedings of the National Academy of Sciences.
[57] S. Chapman,et al. An octaheme c‐type cytochrome from Shewanella oneidensis can reduce nitrite and hydroxylamine , 2007, FEBS letters.
[58] J. Fredrickson,et al. Respiration of metal (hydr)oxides by Shewanella and Geobacter: a key role for multihaem c-type cytochromes , 2007, Molecular microbiology.
[59] Jenn-Kang Hwang,et al. Prediction of protein subcellular localization , 2006, Proteins.
[60] D. Newman,et al. Extracellular respiration of dimethyl sulfoxide by Shewanella oneidensis strain MR-1. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[61] Leszek Rychlewski,et al. FFAS03: a server for profile–profile sequence alignments , 2005, Nucleic Acids Res..
[62] Stefan Wuchty,et al. Peeling the yeast protein network , 2005, Proteomics.
[63] D. Frishman,et al. Identification of 42 possible cytochrome C genes in the Shewanella oneidensis genome and characterization of six soluble cytochromes. , 2004, Omics : a journal of integrative biology.
[64] Alessandro Vespignani,et al. Global protein function prediction from protein-protein interaction networks , 2003, Nature Biotechnology.
[65] O. White,et al. Genome sequence of the dissimilatory metal ion–reducing bacterium Shewanella oneidensis , 2002, Nature Biotechnology.
[66] V. Méjean,et al. Reconstitution of the Trimethylamine Oxide Reductase Regulatory Elements of Shewanella oneidensis in Escherichia coli , 2002, Journal of bacteriology.
[67] D C White,et al. Polyphasic taxonomy of the genus Shewanella and description of Shewanella oneidensis sp. nov. , 1999, International journal of systematic bacteriology.