title: A fine-scale phylogenetic analysis of free-living Burkholderia species in sugarcane field soil.
abstract: The diversity and abundance of Burkholderia species in sugarcane field soils were investigated by a 16S rRNA gene-based approach using genus-specific primers. A total of 365,721 sequences generated by the Illumina MiSeq platform were assigned to the genus Burkholderia. Nearly 58% of these sequences were placed in a previously defined cluster, including stinkbug symbionts. Quantitative PCR analysis revealed a consistent number of 16S rRNA gene copies for Burkholderia species (10(7) g(-1) soil) across the sampled fields. C/N, pH, and nitrate concentrations were important factors shaping the Burkholderia community structure; however, their impacts were not significant considering the overall genus size.
authors.affiliation: Environmental Biofunction Division, National Institute for Agro-Environmental Sciences.
authors.forename: Kanako
authors.initials: K
authors.lastname: Tago
authors.forename: Hideomi
authors.initials: H
authors.lastname: Itoh
authors.forename: Yoshitomo
authors.initials: Y
authors.lastname: Kikuchi
authors.forename: Tomoyuki
authors.initials: T
authors.lastname: Hori
authors.forename: Yuya
authors.initials: Y
authors.lastname: Sato
authors.forename: Atsushi
authors.initials: A
authors.lastname: Nagayama
authors.forename: Takashi
authors.initials: T
authors.lastname: Okubo
authors.forename: Ronald
authors.initials: R
authors.lastname: Navarro
authors.forename: Tomo
authors.initials: T
authors.lastname: Aoyagi
authors.forename: Kentaro
authors.initials: K
authors.lastname: Hayashi
authors.forename: Masahito
authors.initials: M
authors.lastname: Hayatsu
mesh_terms: D058448:Biota; D019117:Burkholderia / Q000145:classification* / Q000235:genetics*; D002244:Carbon / Q000032:analysis; D016000:Cluster Analysis; D017931:DNA Primers / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D006863:Hydrogen-Ion Concentration; D008969:Molecular Sequence Data; D009566:Nitrates / Q000032:analysis; D009584:Nitrogen / Q000032:analysis; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D031786:Saccharum / Q000254:growth & development*; D017422:Sequence Analysis, DNA; D012987:Soil / Q000737:chemistry; D012988:Soil Microbiology
chemical_list: D017931:DNA Primers; D004275:DNA, Ribosomal; D009566:Nitrates; D012336:RNA, Ribosomal, 16S; D012987:Soil; D002244:Carbon; D009584:Nitrogen