title: RETRACTED: Reactome array: forging a link between metabolome and genome.
abstract: We describe a sensitive metabolite array for genome sequence-independent functional analysis of metabolic phenotypes and networks, the reactomes, of cell populations and communities. The array includes 1676 dye-linked substrate compounds collectively representing central metabolic pathways of all forms of life. Application of cell extracts to the array leads to specific binding of enzymes to cognate substrates, transformation to products, and concomitant activation of the dye signals. Proof of principle was shown by reconstruction of the metabolic maps of model bacteria. Utility of the array for unsequenced organisms was demonstrated by reconstruction of the global metabolisms of three microbial communities derived from acidic volcanic pool, deep-sea brine lake, and hydrocarbon-polluted seawater. Enzymes of interest are captured on nanoparticles coated with cognate metabolites, sequenced, and their functions unequivocally established.
authors.affiliation: CSIC, Institute of Catalysis, 28049 Madrid, Spain.
authors.forename: Ana
authors.initials: A
authors.lastname: Beloqui
authors.forename: María-Eugenia
authors.initials: ME
authors.lastname: Guazzaroni
authors.forename: Florencio
authors.initials: F
authors.lastname: Pazos
authors.forename: José M
authors.initials: JM
authors.lastname: Vieites
authors.forename: Marta
authors.initials: M
authors.lastname: Godoy
authors.forename: Olga V
authors.initials: OV
authors.lastname: Golyshina
authors.forename: Tatyana N
authors.initials: TN
authors.lastname: Chernikova
authors.forename: Agnes
authors.initials: A
authors.lastname: Waliczek
authors.forename: Rafael
authors.initials: R
authors.lastname: Silva-Rocha
authors.forename: Yamal
authors.initials: Y
authors.lastname: Al-Ramahi
authors.forename: Violetta
authors.initials: V
authors.lastname: La Cono
authors.forename: Carmen
authors.initials: C
authors.lastname: Mendez
authors.forename: José A
authors.initials: JA
authors.lastname: Salas
authors.forename: Roberto
authors.initials: R
authors.lastname: Solano
authors.forename: Michail M
authors.initials: MM
authors.lastname: Yakimov
authors.forename: Kenneth N
authors.initials: KN
authors.lastname: Timmis
authors.forename: Peter N
authors.initials: PN
authors.lastname: Golyshin
authors.forename: Manuel
authors.initials: M
authors.lastname: Ferrer
mesh_terms: D001105:Archaea / Q000235:genetics / Q000378:metabolism; D001419:Bacteria / Q000235:genetics / Q000378:metabolism*; D001426:Bacterial Proteins / Q000378:metabolism; D019295:Computational Biology; D017753:Ecosystem; D004798:Enzymes / Q000378:metabolism*; D004800:Enzymes, Immobilized; D020745:Genome, Archaeal; D016680:Genome, Bacterial; D045482:Hot Springs / Q000382:microbiology; D053858:Metabolic Networks and Pathways; D055442:Metabolome; D055432:Metabolomics / Q000379:methods*; D046228:Microarray Analysis / Q000379:methods*; D053758:Nanoparticles; D016958:Pseudomonas putida / Q000235:genetics / Q000378:metabolism; D012623:Seawater / Q000382:microbiology; D048372:Streptomyces coelicolor / Q000235:genetics / Q000378:metabolism; D014871:Water Microbiology
chemical_list: D001426:Bacterial Proteins; D004798:Enzymes; D004800:Enzymes, Immobilized