Acinetobacter baylyi ADP1 as a model for metabolic system biology.

[1]  A. Emili,et al.  Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins , 2009, PLoS biology.

[2]  Frédéric Boyer,et al.  Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources? , 2009, BMC Genomics.

[3]  U. Gerischer,et al.  Role of Acinetobacter baylyi Crc in Catabolite Repression of Enzymes for Aromatic Compound Catabolism , 2009, Journal of bacteriology.

[4]  E. Schmelz,et al.  A rapid biosensor-based method for quantification of free and glucose-conjugated salicylic acid , 2008, Plant Methods.

[5]  V. Schachter,et al.  Genome-scale models of bacterial metabolism: reconstruction and applications , 2008, FEMS microbiology reviews.

[6]  Peter D. Karp,et al.  EcoCyc: A comprehensive view of Escherichia coli biology , 2008, Nucleic Acids Res..

[7]  Yan Lin,et al.  DEG 5.0, a database of essential genes in both prokaryotes and eukaryotes , 2008, Nucleic Acids Res..

[8]  M. Adams,et al.  Comparative Genome Sequence Analysis of Multidrug-Resistant Acinetobacter baumannii , 2008, Journal of bacteriology.

[9]  Vincent Schächter,et al.  Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data , 2008, BMC Systems Biology.

[10]  Jason A. Papin,et al.  Genome-Scale Reconstruction and Analysis of the Pseudomonas putida KT2440 Metabolic Network Facilitates Applications in Biotechnology , 2008, PLoS Comput. Biol..

[11]  U. Gerischer,et al.  Aromatic degradative pathways in Acinetobacter baylyi underlie carbon catabolite repression. , 2008, Microbiology.

[12]  M. Reuss,et al.  Global Transcription and Metabolic Flux Analysis of Escherichia coli in Glucose-Limited Fed-Batch Cultivations , 2008, Applied and Environmental Microbiology.

[13]  Bernhard O. Palsson,et al.  A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory , 2008, BMC Systems Biology.

[14]  A. Spiers,et al.  Characterizing the regulation of the Pu promoter in Acinetobacter baylyi ADP1. , 2008, Environmental microbiology.

[15]  Ann E Loraine,et al.  Large‐scale transposon mutagenesis of Mycoplasma pulmonis , 2008, Molecular microbiology.

[16]  Marcel Salanoubat,et al.  New Insights into the Alternative d-Glucarate Degradation Pathway* , 2008, Journal of Biological Chemistry.

[17]  Adam M. Feist,et al.  The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli , 2008, Nature Biotechnology.

[18]  A. Steinbüchel,et al.  Bacterial acyltransferases as an alternative for lipase-catalyzed acylation for the production of oleochemicals and fuels. , 2008, Angewandte Chemie.

[19]  J. Poulain,et al.  Comparative Analysis of Acinetobacters: Three Genomes for Three Lifestyles , 2008, PloS one.

[20]  Vincent Schächter,et al.  A complete collection of single-gene deletion mutants of Acinetobacter baylyi ADP1 , 2008, Molecular systems biology.

[21]  Jason A. Papin,et al.  * Corresponding authors , 2006 .

[22]  A. Chakravorty,et al.  Sensitivity of an Acinetobacter baylyi mpl Mutant to DNA Damage , 2007, Applied and Environmental Microbiology.

[23]  Yoshihiro Yamanishi,et al.  KEGG for linking genomes to life and the environment , 2007, Nucleic Acids Res..

[24]  V. de Crécy-Lagard,et al.  Finding novel metabolic genes through plant-prokaryote phylogenomics. , 2007, Trends in microbiology.

[25]  G. Bou,et al.  Molecular characterization of the gene encoding a new AmpC beta-lactamase in Acinetobacter baylyi. , 2007, The Journal of antimicrobial chemotherapy.

[26]  Pei Yee Ho,et al.  Multiple High-Throughput Analyses Monitor the Response of E. coli to Perturbations , 2007, Science.

[27]  W. Wackernagel,et al.  A double kill gene cassette for the positive selection of transforming non-selective DNA segments in Acinetobacter baylyi BD413. , 2007, Journal of microbiological methods.

[28]  R. Kaul,et al.  A comprehensive transposon mutant library of Francisella novicida, a bioweapon surrogate , 2007, Proceedings of the National Academy of Sciences.

[29]  U. Gerischer,et al.  Multiple-Level Regulation of Genes for Protocatechuate Degradation in Acinetobacter baylyi Includes Cross-Regulation , 2006, Applied and Environmental Microbiology.

[30]  Barbara Di Ventura,et al.  From in vivo to in silico biology and back , 2006, Nature.

[31]  Rick Stevens,et al.  Essential genes on metabolic maps. , 2006, Current opinion in biotechnology.

[32]  Andrew R. Joyce,et al.  Experimental and Computational Assessment of Conditionally Essential Genes in Escherichia coli , 2006, Journal of bacteriology.

[33]  Maria J. Gomez,et al.  Genes Involved in Intrinsic Antibiotic Resistance of Acinetobacter baylyi , 2006, Antimicrobial Agents and Chemotherapy.

[34]  M. Inui,et al.  High-Throughput Transposon Mutagenesis of Corynebacterium glutamicum and Construction of a Single-Gene Disruptant Mutant Library , 2006, Applied and Environmental Microbiology.

[35]  B. Palsson,et al.  The model organism as a system: integrating 'omics' data sets , 2006, Nature Reviews Molecular Cell Biology.

[36]  H. Mori,et al.  Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection , 2006, Molecular systems biology.

[37]  Koji Hayashi,et al.  Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110 , 2006, Molecular systems biology.

[38]  Frederick M Ausubel,et al.  Correction for Liberati et al., An ordered, nonredundant library of Pseudomonas aeruginosa strain PA14 transposon insertion mutants , 2006, Proceedings of the National Academy of Sciences.

[39]  A. Steinbüchel,et al.  Engineering the Genotype of Acinetobacter sp. Strain ADP1 To Enhance Biosynthesis of Cyanophycin , 2006, Applied and Environmental Microbiology.

[40]  C. Hutchison,et al.  Essential genes of a minimal bacterium. , 2006, Proceedings of the National Academy of Sciences of the United States of America.

[41]  C. Médigue,et al.  MaGe: a microbial genome annotation system supported by synteny results , 2006, Nucleic acids research.

[42]  C. Francke,et al.  Reconstructing the metabolic network of a bacterium from its genome. , 2005, Trends in microbiology.

[43]  Naryttza N. Diaz,et al.  The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes , 2005, Nucleic acids research.

[44]  David M Young,et al.  Opportunities for genetic investigation afforded by Acinetobacter baylyi, a nutritionally versatile bacterial species that is highly competent for natural transformation. , 2005, Annual review of microbiology.

[45]  A. Whiteley,et al.  Chromosomally located gene fusions constructed in Acinetobacter sp. ADP1 for the detection of salicylate. , 2005, Environmental microbiology.

[46]  J. Nielsen,et al.  Uncovering transcriptional regulation of metabolism by using metabolic network topology. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[47]  A. Steinbüchel,et al.  The Wax Ester Synthase/Acyl Coenzyme A:Diacylglycerol Acyltransferase from Acinetobacter sp. Strain ADP1: Characterization of a Novel Type of Acyltransferase , 2005, Journal of bacteriology.

[48]  Stanley Falkow,et al.  Global Transposon Mutagenesis and Essential Gene Analysis of Helicobacter pylori , 2004, Journal of bacteriology.

[49]  B. Palsson,et al.  Genome-scale models of microbial cells: evaluating the consequences of constraints , 2004, Nature Reviews Microbiology.

[50]  T. Fuchs,et al.  Large‐scale identification of essential Salmonella genes by trapping lethal insertions , 2004, Molecular microbiology.

[51]  D. Metzgar,et al.  Identification of Four Genes Necessary for Biosynthesis of the Modified Nucleoside Queuosine* , 2004, Journal of Biological Chemistry.

[52]  M. Vidal,et al.  Integrating 'omic' information: a bridge between genomics and systems biology. , 2003, Trends in genetics : TIG.

[53]  S. Ehrlich,et al.  Essential Bacillus subtilis genes , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[54]  E. Rubin,et al.  Genes required for mycobacterial growth defined by high density mutagenesis , 2003, Molecular microbiology.

[55]  S. Wuertz,et al.  Natural Genetic Transformation in Monoculture Acinetobacter sp. Strain BD413 Biofilms , 2003, Applied and Environmental Microbiology.

[56]  Wilfried Wackernagel,et al.  Integration of foreign DNA during natural transformation of Acinetobacter sp. by homology-facilitated illegitimate recombination , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[57]  J. Mekalanos,et al.  A genome-scale analysis for identification of genes required for growth or survival of Haemophilus influenzae , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[58]  L. N. Ornston,et al.  Cloning and Genetic Characterization of dca Genes Required for β-Oxidation of Straight-Chain Dicarboxylic Acids in Acinetobacter sp. Strain ADP1 , 2001, Applied and Environmental Microbiology.

[59]  Roger E Bumgarner,et al.  Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. , 2001, Science.

[60]  K. Murphy,et al.  PCR-mediated gene replacement in Escherichia coli. , 2000, Gene.

[61]  K. Hellingwerf,et al.  The Genes rubA and rubB for Alkane Degradation in Acinetobacter sp. Strain ADP1 Are in an Operon with estB, Encoding an Esterase, andoxyR , 1999, Journal of bacteriology.

[62]  L. N. Ornston,et al.  Phenotypic Expression of PCR-Generated Random Mutations in a Pseudomonas putida Gene after Its Introduction into an Acinetobacter Chromosome by Natural Transformation , 1999, Applied and Environmental Microbiology.

[63]  G. Williamson,et al.  Release of ferulic acid dehydrodimers from plant cell walls by feruloyl esterases , 1999 .

[64]  P. Youngman,et al.  Random mutagenesis by recombinational capture of PCR products in Bacillus subtilis and Acinetobacter calcoaceticus. , 1999, Nucleic Acids Research.

[65]  David A. D'Argenio,et al.  Mutation Analysis of PobR and PcaU, Closely Related Transcriptional Activators in Acinetobacter , 1998, Journal of bacteriology.

[66]  K. Smalla,et al.  Transformation of Acinetobacter sp. Strain BD413 by Transgenic Sugar Beet DNA , 1998, Applied and Environmental Microbiology.

[67]  W. Wackernagel,et al.  Detection of nptII (kanamycin resistance) genes in genomes of transgenic plants by marker-rescue transformation , 1998, Molecular and General Genetics MGG.

[68]  W. Hillen,et al.  Alkane Hydroxylase from Acinetobactersp. Strain ADP1 Is Encoded by alkM and Belongs to a New Family of Bacterial Integral-Membrane Hydrocarbon Hydroxylases , 1998, Applied and Environmental Microbiology.

[69]  N. W. Davis,et al.  The complete genome sequence of Escherichia coli K-12. , 1997, Science.

[70]  D. D'Argenio,et al.  Combining localized PCR mutagenesis and natural transformation in direct genetic analysis of a transcriptional regulator gene, pobR , 1997, Journal of bacteriology.

[71]  R. Palmen,et al.  Uptake and processing of DNA by Acinetobacter calcoaceticus--a review. , 1997, Gene.

[72]  Y. Tani,et al.  Isolation and characterization of a novel oxygenase that catalyzes the first step of n-alkane oxidation in Acinetobacter sp. strain M-1 , 1996, Journal of bacteriology.

[73]  B. Averhoff,et al.  Genetic analysis of supraoperonic clustering by use of natural transformation in Acinetobacter calcoaceticus , 1992, Journal of bacteriology.

[74]  L. N. Ornston,et al.  Recovery of DNA from the Acinetobacter calcoaceticus chromosome by gap repair , 1990, Journal of bacteriology.

[75]  L. N. Ornston,et al.  Cloning and genetic organization of the pca gene cluster from Acinetobacter calcoaceticus , 1987, Journal of bacteriology.

[76]  E. Juni Interspecies Transformation of Acinetobacter: Genetic Evidence for a Ubiquitous Genus , 1972, Journal of bacteriology.

[77]  Cánovas Jl,et al.  Regulation of the enzymes of the beta-ketoadipate pathway in Moraxella calcoacetica. 1. General aspects. , 1967 .

[78]  L. N. Ornston,et al.  The Conversion of Catechol and Protocatechuate to β-Ketoadipate by Pseudomonas putida I. BIOCHEMISTRY , 1966 .

[79]  U. Gerischer,et al.  Acinetobacter : molecular biology , 2008 .

[80]  Philippe Marlière,et al.  Acinetobacter sp. ADP1: an ideal model organism for genetic analysis and genome engineering. , 2004, Nucleic acids research.

[81]  Patrick Wincker,et al.  Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium. , 2004, Nucleic acids research.

[82]  T. Minamikawa,et al.  Occurrence of shikimic and quinic acids in angiosperms , 1975 .