title: Community analysis of picocyanobacteria in an oligotrophic lake by cloning 16S rRNA gene and 16S rRNA gene amplicon sequencing.
abstract: In this study, the picocyanobacterial species composition of Lake Miyagase was examined by analyzing the 16S rRNA gene in a clone library and by amplicon sequencing using a benchtop next-generation sequencer. Five separate samples were analyzed from different days over a ten-month period. In the picocyanobacterial lineage, 9 and 12 OTUs were identified from a clone library and by amplicon sequencing, respectively. Both analyses suggested that a picocyanobacterium related to Synechococcus sp. MW6B4 was dominant in Lake Miyagase. Our findings suggest that 16S rRNA gene amplicon sequencing enables detailed evaluation of picocyanobacteria composition. One OTU identified was found to be a novel cluster that does not group with any of the known freshwater picocyanobacteria.
authors.affiliation: Tokyo University of Agriculture.
authors.forename: Naoshi
authors.initials: N
authors.lastname: Fujimoto
authors.forename: Keigo
authors.initials: K
authors.lastname: Mizuno
authors.forename: Tomoki
authors.initials: T
authors.lastname: Yokoyama
authors.forename: Akihiro
authors.initials: A
authors.lastname: Ohnishi
authors.forename: Masaharu
authors.initials: M
authors.lastname: Suzuki
authors.forename: Satoru
authors.initials: S
authors.lastname: Watanabe
authors.forename: Kenji
authors.initials: K
authors.lastname: Komatsu
authors.forename: Yoichi
authors.initials: Y
authors.lastname: Sakata
authors.forename: Naohiro
authors.initials: N
authors.lastname: Kishida
authors.forename: Michihiro
authors.initials: M
authors.lastname: Akiba
authors.forename: Satoko
authors.initials: S
authors.lastname: Matsukura
mesh_terms: D044822:Biodiversity; D003001:Cloning, Molecular; D016000:Cluster Analysis; D000458:Cyanobacteria / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D020459:Genes, rRNA; D059014:High-Throughput Nucleotide Sequencing; D060106:Lakes / Q000382:microbiology*; D008969:Molecular Sequence Data; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA
chemical_list: D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D012336:RNA, Ribosomal, 16S