High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system
Abstract Coral reefs are a complex ecosystem consisting of coral animals and a vast array of associated symbionts including the dinoflagellate Symbiodinium, fungi, viruses and bacteria. Several studies have highlighted the importance of coral-associated bacteria and their fundamental roles in fitnes...
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doaj-54fad9d1d71e48a980d7a02810388f262020-12-08T02:38:10ZengNature Publishing GroupScientific Reports2045-23222017-06-017111410.1038/s41598-017-03139-4High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing systemWirulda Pootakham0Wuttichai Mhuantong1Thippawan Yoocha2Lalita Putchim3Chutima Sonthirod4Chaiwat Naktang5Nalinee Thongtham6Sithichoke Tangphatsornruang7National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development AgencyNational Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development AgencyNational Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development AgencyPhuket Marine Biological CenterNational Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development AgencyNational Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development AgencyPhuket Marine Biological CenterNational Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development AgencyAbstract Coral reefs are a complex ecosystem consisting of coral animals and a vast array of associated symbionts including the dinoflagellate Symbiodinium, fungi, viruses and bacteria. Several studies have highlighted the importance of coral-associated bacteria and their fundamental roles in fitness and survival of the host animal. The scleractinian coral Porites lutea is one of the dominant reef-builders in the Indo-West Pacific. Currently, very little is known about the composition and structure of bacterial communities across P. lutea reefs. The purpose of this study is twofold: to demonstrate the advantages of using PacBio circular consensus sequencing technology in microbial community studies and to investigate the diversity and structure of P. lutea-associated microbiome in the Indo-Pacific. This is the first metagenomic study of marine environmental samples that utilises the PacBio sequencing system to capture full-length 16S rRNA sequences. We observed geographically distinct coral-associated microbial profiles between samples from the Gulf of Thailand and Andaman Sea. Despite the geographical and environmental impacts on the coral-host interactions, we identified a conserved community of bacteria that were present consistently across diverse reef habitats. Finally, we demonstrated the superior performance of full-length 16S rRNA sequences in resolving taxonomic uncertainty of coral associates at the species level.https://doi.org/10.1038/s41598-017-03139-4 |
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DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Wirulda Pootakham Wuttichai Mhuantong Thippawan Yoocha Lalita Putchim Chutima Sonthirod Chaiwat Naktang Nalinee Thongtham Sithichoke Tangphatsornruang |
spellingShingle |
Wirulda Pootakham Wuttichai Mhuantong Thippawan Yoocha Lalita Putchim Chutima Sonthirod Chaiwat Naktang Nalinee Thongtham Sithichoke Tangphatsornruang High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system Scientific Reports |
author_facet |
Wirulda Pootakham Wuttichai Mhuantong Thippawan Yoocha Lalita Putchim Chutima Sonthirod Chaiwat Naktang Nalinee Thongtham Sithichoke Tangphatsornruang |
author_sort |
Wirulda Pootakham |
title |
High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system |
title_short |
High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system |
title_full |
High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system |
title_fullStr |
High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system |
title_full_unstemmed |
High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system |
title_sort |
high resolution profiling of coral-associated bacterial communities using full-length 16s rrna sequence data from pacbio smrt sequencing system |
publisher |
Nature Publishing Group |
series |
Scientific Reports |
issn |
2045-2322 |
publishDate |
2017-06-01 |
description |
Abstract Coral reefs are a complex ecosystem consisting of coral animals and a vast array of associated symbionts including the dinoflagellate Symbiodinium, fungi, viruses and bacteria. Several studies have highlighted the importance of coral-associated bacteria and their fundamental roles in fitness and survival of the host animal. The scleractinian coral Porites lutea is one of the dominant reef-builders in the Indo-West Pacific. Currently, very little is known about the composition and structure of bacterial communities across P. lutea reefs. The purpose of this study is twofold: to demonstrate the advantages of using PacBio circular consensus sequencing technology in microbial community studies and to investigate the diversity and structure of P. lutea-associated microbiome in the Indo-Pacific. This is the first metagenomic study of marine environmental samples that utilises the PacBio sequencing system to capture full-length 16S rRNA sequences. We observed geographically distinct coral-associated microbial profiles between samples from the Gulf of Thailand and Andaman Sea. Despite the geographical and environmental impacts on the coral-host interactions, we identified a conserved community of bacteria that were present consistently across diverse reef habitats. Finally, we demonstrated the superior performance of full-length 16S rRNA sequences in resolving taxonomic uncertainty of coral associates at the species level. |
url |
https://doi.org/10.1038/s41598-017-03139-4 |
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