Application of Pyrosequencing Method for Investigating the Diversity of Synechococcus Subcluster 5.1 in Open Ocean
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Title
- Application of Pyrosequencing Method for Investigating the Diversity of Synechococcus Subcluster 5.1 in Open Ocean
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Author(s)
- Choi, Dong Han; Noh, Jae Hoon; Lee, Jung-Hyun
- KIOST Author(s)
- Choi, Dong Han(최동한); Lee, Jung Hyun(이정현)
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Alternative Author(s)
- 최동한; 노재훈; 이정현
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Publication Year
- 2014-04-02
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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.
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ISSN
- 1342-6311
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URI
- https://sciwatch.kiost.ac.kr/handle/2020.kiost/2835
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DOI
- 10.1264/jsme2.ME13063
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Bibliographic Citation
- MICROBES AND ENVIRONMENTS, v.29, no.1, pp.17 - 22, 2014
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Publisher
- JAPANESE SOC MICROBIAL ECOLOGY, DEPT BIORESOURCE SCIENCE
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Subject
- TRANSCRIBED SPACER SEQUENCES; EAST CHINA SEA; MARINE SYNECHOCOCCUS; PHYLOGENETIC DIVERSITY; COMMUNITY STRUCTURE; MAXIMUM-LIKELIHOOD; CHESAPEAKE BAY; ATLANTIC-OCEAN; BALTIC SEA; PROCHLOROCOCCUS
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Keywords
- diversity; internal transcribed spacer (ITS); phylogeny; pyrosequencing; Synechococcus
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Type
- Article
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Language
- English
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Document Type
- Article
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