title: Phenotypic and phylogenetic characterization of an abamectin-degrading bacterial strain isolated from a citrus orchard.
abstract: Bacterial strain GB-01 was isolated from abamectin-contaminated soils by continuous enrichment culture. The preliminary identification of strain GB-01 as a Burkholderia species was based mainly on simple biochemical and substrate utilization tests; however, these tests alone cannot accurately differentiate all the species within the genus Burkholderia. The strain GB-01 was subjected to taxonomic analysis through a polyphasic approach, in which phenotypic, genotypic, and phylogenetic information was gathered to conclude the classification of this microbe. Phenotypic information comes from basic bacteriological tests and substrate utilization patterns using the Biolog GN2 MicroPlating system and automated miniature biochemical test kits, i.e. API 20 NE, ID 32 GN and API 50 CH, as well as analyzing the whole cell fatty acid profile. Genotypic information was gathered from whole genome DNA base composition (G+C mol%), and DNA-DNA hybridization with its closest species, while phylogenetic information was collected from the comparative analysis of 16S rRNA and recA gene sequences. The results of polyphasic analysis concluded that strain GB-01 is an atypical strain of the Burkholderia diffusa species.
authors.affiliation: Key Lab of Microbiological Engineering of Agricultural Environment, Nanjing Agricultural University, Nanjing, China.
authors.forename: Shinawar Waseem
authors.initials: SW
authors.lastname: Ali
authors.forename: Fang-Bo
authors.initials: FB
authors.lastname: Yu
authors.forename: Muhammad Saleem
authors.initials: MS
authors.lastname: Haider
authors.forename: Xin
authors.initials: X
authors.lastname: Yan
authors.forename: Shun-Peng
authors.initials: SP
authors.lastname: Li
mesh_terms: D015373:Bacterial Typing Techniques; D001482:Base Composition; D001711:Biotransformation; D042602:Burkholderia cepacia complex / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification / Q000378:metabolism*; D002957:Citrus / Q000254:growth & development; D016000:Cluster Analysis; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D005227:Fatty Acids / Q000032:analysis; D007559:Ivermectin / Q000031:analogs & derivatives* / Q000378:metabolism; D008969:Molecular Sequence Data; D009693:Nucleic Acid Hybridization; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D011938:Rec A Recombinases / Q000235:genetics; D017422:Sequence Analysis, DNA; D012988:Soil Microbiology
chemical_list: D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D005227:Fatty Acids; D012336:RNA, Ribosomal, 16S; C048324:abamectin; D007559:Ivermectin; D011938:Rec A Recombinases