title: Unearthing microbial diversity of Taxus rhizosphere via MiSeq high-throughput amplicon sequencing and isolate characterization.
abstract: The species variability and potential environmental functions of Taxus rhizosphere microbial community were studied by comparative analyses of 15 16S rRNA and 15 ITS MiSeq sequencing libraries from Taxus rhizospheres in subtropical and temperate regions of China, as well as by isolating laccase-producing strains and polycyclic aromatic hydrocarbon (PAH)-degrading strains. Total reads could be assigned to 2,141 Operational Taxonomic Units (OTUs) belonging to 31 bacteria phyla and 2,904 OTUs of at least seven fungi phyla. The abundance of Planctomycetes, Actinobacteria, and Chloroflexi was higher in T. cuspidata var. nana and T. × media rhizospheres than in T. mairei rhizosphere (NF), while Acidobacteria, Proteobacteria, Nitrospirae, and unclassified bacteria were more abundant in the latter. Ascomycota and Zygomycota were predominant in NF, while two temperate Taxus rhizospheres had more unclassified fungi, Basidiomycota, and Chytridiomycota. The bacterial/fungal community richness and diversity were lower in NF than in other two. Three dye decolorizing fungal isolates were shown to be highly efficient in removing three classes of reactive dye, while two PAH-degrading fungi were able to degrade recalcitrant benzo[a]pyrene. The present studies extend the knowledge pedigree of the microbial diversity populating rhizospheres, and exemplify the method shift in research and development of resource plant rhizosphere.
authors.affiliation: Biotechnology Institute, School of Environment and Chemical Engineering, Dalian Jiaotong University, Dalian 116028, China.
authors.forename: Da-Cheng
authors.initials: DC
authors.lastname: Hao
authors.affiliation: Biotechnology Institute, School of Environment and Chemical Engineering, Dalian Jiaotong University, Dalian 116028, China.
authors.forename: Si-Meng
authors.initials: SM
authors.lastname: Song
authors.affiliation: College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan 316022, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Mu
authors.affiliation: Biotechnology Institute, School of Environment and Chemical Engineering, Dalian Jiaotong University, Dalian 116028, China.
authors.forename: Wen-Li
authors.initials: WL
authors.lastname: Hu
authors.affiliation: Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Beijing 100193, China.
authors.forename: Pei-Gen
authors.initials: PG
authors.lastname: Xiao
mesh_terms: D044822:Biodiversity; D016000:Cluster Analysis; D058893:DNA Barcoding, Taxonomic; D059014:High-Throughput Nucleotide Sequencing; D054892:Metagenome; D056186:Metagenomics / Q000379:methods; D064307:Microbiota; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D058441:Rhizosphere; D012988:Soil Microbiology; D020946:Taxus / Q000382:microbiology*
chemical_list: D012336:RNA, Ribosomal, 16S