title: Immobilized native bacteria as a tool for bioremediation of soils and waters: implementation and modeling.
abstract: Based on 3,4-dihydroxyphenylacetate (3,4-DHPA) dioxygenase amino acid sequence and DNA sequence data for homologous genes, two different oligonucleotides were designed. These were assayed to detect 3,4-DHPA related aromatic compound-degrading bacteria in soil samples by using the FISH method. Also, amplification by PCR using a set of ERIC primers was assayed for the detection of Pseudomonas GCH1 strain, which used in the soil bioremediation process. A model was developed to understand and predict the behavior of bacteria and pollutants in a bioremediation system, taking into account fluid dynamics, molecular/cellular scale processes, and biofilm formation.
authors.affiliation: Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain. mclobo@teleline.es
authors.forename: C
authors.initials: C
authors.lastname: Lobo
authors.forename: M
authors.initials: M
authors.lastname: Sanchez
authors.forename: C
authors.initials: C
authors.lastname: Garbi
authors.forename: E
authors.initials: E
authors.lastname: Ferrer
authors.forename: M J
authors.initials: MJ
authors.lastname: Martinez-Iñigo
authors.forename: J L
authors.initials: JL
authors.lastname: Allende
authors.forename: C
authors.initials: C
authors.lastname: Martín
authors.forename: L
authors.initials: L
authors.lastname: Casasús
authors.forename: R
authors.initials: R
authors.lastname: Alonso
authors.forename: A
authors.initials: A
authors.lastname: Gibello
authors.forename: M
authors.initials: M
authors.lastname: Martin
mesh_terms: D000464:Alginates / Q000737:chemistry; D001673:Biodegradation, Environmental; D018441:Biofilms / Q000254:growth & development*; D015342:DNA Probes / Q000235:genetics; D004269:DNA, Bacterial / Q000235:genetics; D049308:Dioxygenases; D020723:Glucuronic Acid / Q000737:chemistry; D006094:Gram-Positive Bacteria / Q000201:enzymology / Q000235:genetics / Q000378:metabolism*; D006603:Hexuronic Acids / Q000737:chemistry; D006841:Hydrocarbons, Aromatic / Q000032:analysis / Q000378:metabolism; D017404:In Situ Hybridization, Fluorescence; D008954:Models, Biological; D009841:Oligonucleotides / Q000032:analysis / Q000235:genetics; D010105:Oxygenases / Q000032:analysis / Q000235:genetics / Q000378:metabolism; D016133:Polymerase Chain Reaction / Q000379:methods; D011237:Predictive Value of Tests; D011550:Pseudomonas aeruginosa / Q000235:genetics / Q000254:growth & development*; D012107:Research Design; D012988:Soil Microbiology; D014871:Water Microbiology
chemical_list: D000464:Alginates; D015342:DNA Probes; D004269:DNA, Bacterial; D006603:Hexuronic Acids; D006841:Hydrocarbons, Aromatic; D009841:Oligonucleotides; D020723:Glucuronic Acid; D010105:Oxygenases; D049308:Dioxygenases; C020055:3,4-dihydroxyphenylacetate 2,3-dioxygenase