title: Application of pyrosequencing method for investigating the diversity of synechococcus subcluster 5.1 in open ocean.
abstract: Synechococcus are distributed throughout the world's oceans and are composed of diverse genetic lineages. However, as they are much less abundant than Prochlorococcus in oligotrophic open oceans, their in-depth genetic diversity cannot be investigated using commonly used primers targeting both Prochlorococcus and Synechococcus. Thus, in this study, we designed a primer specific to the 16S-23S rRNA internal transcribed spacer (ITS) of the Synechococcus subcluster 5.1. Using the primer, we could selectively amplify Synechococcus sequences in oligotrophic seawater samples. Further, we showed that a barcoded amplicon pyrosequencing method could be applicable to investigate Synechococcus diversity using sequences retrieved in GenBank and obtained from environmental samples. Allowing sequence analyses of a large number of samples, this high-throughput method would be useful to study global biodiversity and biogeographic patterns of Synechococcus in marine environments.
authors.affiliation: Marine Biotechnology Research Division, Korea Institute of Ocean Science and Technology.
authors.forename: Dong Han
authors.initials: DH
authors.lastname: Choi
authors.forename: Jae Hoon
authors.initials: JH
authors.lastname: Noh
authors.forename: Jung-Hyun
authors.initials: JH
authors.lastname: Lee
mesh_terms: D044822:Biodiversity; D004269:DNA, Bacterial / Q000235:genetics; D021903:DNA, Ribosomal Spacer / Q000235:genetics; D017753:Ecosystem; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D008969:Molecular Sequence Data; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012623:Seawater / Q000382:microbiology*; D046940:Synechococcus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*
chemical_list: D004269:DNA, Bacterial; D021903:DNA, Ribosomal Spacer; D012336:RNA, Ribosomal, 16S