Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera

Shan Hua Yang, Kshitij Tandon, Chih Ying Lu, Naohisa Wada, Chao Jen Shih, Silver Sung Yun Hsiao, Wann Neng Jane, Tzan Chain Lee, Chi Ming Yang, Chi Te Liu, Vianney Denis, Yu Ting Wu, Li Ting Wang, Lina Huang, Der Chuen Lee, Yu Wei Wu, Hideyuki Yamashiro, Sen Lin Tang

研究成果: 雜誌貢獻文章

1 引文 (Scopus)

摘要

Background: Endolithic microbes in coral skeletons are known to be a nutrient source for the coral host. In addition to aerobic endolithic algae and Cyanobacteria, which are usually described in the various corals and form a green layer beneath coral tissues, the anaerobic photoautotrophic green sulfur bacteria (GSB) Prosthecochloris is dominant in the skeleton of Isopora palifera. However, due to inherent challenges in studying anaerobic microbes in coral skeleton, the reason for its niche preference and function are largely unknown. Results: This study characterized a diverse and dynamic community of endolithic microbes shaped by the availability of light and oxygen. In addition, anaerobic bacteria isolated from the coral skeleton were cultured for the first time to experimentally clarify the role of these GSB. This characterization includes GSB's abundance, genetic and genomic profiles, organelle structure, and specific metabolic functions and activity. Our results explain the advantages endolithic GSB receive from living in coral skeletons, the potential metabolic role of a clade of coral-associated Prosthecochloris (CAP) in the skeleton, and the nitrogen fixation ability of CAP. Conclusion: We suggest that the endolithic microbial community in coral skeletons is diverse and dynamic and that light and oxygen are two crucial factors for shaping it. This study is the first to demonstrate the ability of nitrogen uptake by specific coral-associated endolithic bacteria and shed light on the role of endolithic bacteria in coral skeletons.
原文英語
文章編號3
期刊Microbiome
7
發行號1
DOIs
出版狀態已發佈 - 一月 4 2019

指紋

Chlorobi
Metagenomics
Anthozoa
Skeleton
Oxygen
Bacteria
Light
Nitrogen Fixation
Anaerobic Bacteria
Cyanobacteria
Organelles

ASJC Scopus subject areas

  • Microbiology
  • Microbiology (medical)

引用此文

Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera. / Yang, Shan Hua; Tandon, Kshitij; Lu, Chih Ying; Wada, Naohisa; Shih, Chao Jen; Hsiao, Silver Sung Yun; Jane, Wann Neng; Lee, Tzan Chain; Yang, Chi Ming; Liu, Chi Te; Denis, Vianney; Wu, Yu Ting; Wang, Li Ting; Huang, Lina; Lee, Der Chuen; Wu, Yu Wei; Yamashiro, Hideyuki; Tang, Sen Lin.

於: Microbiome, 卷 7, 編號 1, 3, 04.01.2019.

研究成果: 雜誌貢獻文章

Yang, SH, Tandon, K, Lu, CY, Wada, N, Shih, CJ, Hsiao, SSY, Jane, WN, Lee, TC, Yang, CM, Liu, CT, Denis, V, Wu, YT, Wang, LT, Huang, L, Lee, DC, Wu, YW, Yamashiro, H & Tang, SL 2019, 'Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera', Microbiome, 卷 7, 編號 1, 3. https://doi.org/10.1186/s40168-018-0616-z
Yang, Shan Hua ; Tandon, Kshitij ; Lu, Chih Ying ; Wada, Naohisa ; Shih, Chao Jen ; Hsiao, Silver Sung Yun ; Jane, Wann Neng ; Lee, Tzan Chain ; Yang, Chi Ming ; Liu, Chi Te ; Denis, Vianney ; Wu, Yu Ting ; Wang, Li Ting ; Huang, Lina ; Lee, Der Chuen ; Wu, Yu Wei ; Yamashiro, Hideyuki ; Tang, Sen Lin. / Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera. 於: Microbiome. 2019 ; 卷 7, 編號 1.
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title = "Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera",
abstract = "Background: Endolithic microbes in coral skeletons are known to be a nutrient source for the coral host. In addition to aerobic endolithic algae and Cyanobacteria, which are usually described in the various corals and form a green layer beneath coral tissues, the anaerobic photoautotrophic green sulfur bacteria (GSB) Prosthecochloris is dominant in the skeleton of Isopora palifera. However, due to inherent challenges in studying anaerobic microbes in coral skeleton, the reason for its niche preference and function are largely unknown. Results: This study characterized a diverse and dynamic community of endolithic microbes shaped by the availability of light and oxygen. In addition, anaerobic bacteria isolated from the coral skeleton were cultured for the first time to experimentally clarify the role of these GSB. This characterization includes GSB's abundance, genetic and genomic profiles, organelle structure, and specific metabolic functions and activity. Our results explain the advantages endolithic GSB receive from living in coral skeletons, the potential metabolic role of a clade of coral-associated Prosthecochloris (CAP) in the skeleton, and the nitrogen fixation ability of CAP. Conclusion: We suggest that the endolithic microbial community in coral skeletons is diverse and dynamic and that light and oxygen are two crucial factors for shaping it. This study is the first to demonstrate the ability of nitrogen uptake by specific coral-associated endolithic bacteria and shed light on the role of endolithic bacteria in coral skeletons.",
keywords = "Anaerobic cultivation, Endoliths, Green sulfur bacteria, Isopora palifera, Nitrogen fixation",
author = "Yang, {Shan Hua} and Kshitij Tandon and Lu, {Chih Ying} and Naohisa Wada and Shih, {Chao Jen} and Hsiao, {Silver Sung Yun} and Jane, {Wann Neng} and Lee, {Tzan Chain} and Yang, {Chi Ming} and Liu, {Chi Te} and Vianney Denis and Wu, {Yu Ting} and Wang, {Li Ting} and Lina Huang and Lee, {Der Chuen} and Wu, {Yu Wei} and Hideyuki Yamashiro and Tang, {Sen Lin}",
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T1 - Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera

AU - Yang, Shan Hua

AU - Tandon, Kshitij

AU - Lu, Chih Ying

AU - Wada, Naohisa

AU - Shih, Chao Jen

AU - Hsiao, Silver Sung Yun

AU - Jane, Wann Neng

AU - Lee, Tzan Chain

AU - Yang, Chi Ming

AU - Liu, Chi Te

AU - Denis, Vianney

AU - Wu, Yu Ting

AU - Wang, Li Ting

AU - Huang, Lina

AU - Lee, Der Chuen

AU - Wu, Yu Wei

AU - Yamashiro, Hideyuki

AU - Tang, Sen Lin

PY - 2019/1/4

Y1 - 2019/1/4

N2 - Background: Endolithic microbes in coral skeletons are known to be a nutrient source for the coral host. In addition to aerobic endolithic algae and Cyanobacteria, which are usually described in the various corals and form a green layer beneath coral tissues, the anaerobic photoautotrophic green sulfur bacteria (GSB) Prosthecochloris is dominant in the skeleton of Isopora palifera. However, due to inherent challenges in studying anaerobic microbes in coral skeleton, the reason for its niche preference and function are largely unknown. Results: This study characterized a diverse and dynamic community of endolithic microbes shaped by the availability of light and oxygen. In addition, anaerobic bacteria isolated from the coral skeleton were cultured for the first time to experimentally clarify the role of these GSB. This characterization includes GSB's abundance, genetic and genomic profiles, organelle structure, and specific metabolic functions and activity. Our results explain the advantages endolithic GSB receive from living in coral skeletons, the potential metabolic role of a clade of coral-associated Prosthecochloris (CAP) in the skeleton, and the nitrogen fixation ability of CAP. Conclusion: We suggest that the endolithic microbial community in coral skeletons is diverse and dynamic and that light and oxygen are two crucial factors for shaping it. This study is the first to demonstrate the ability of nitrogen uptake by specific coral-associated endolithic bacteria and shed light on the role of endolithic bacteria in coral skeletons.

AB - Background: Endolithic microbes in coral skeletons are known to be a nutrient source for the coral host. In addition to aerobic endolithic algae and Cyanobacteria, which are usually described in the various corals and form a green layer beneath coral tissues, the anaerobic photoautotrophic green sulfur bacteria (GSB) Prosthecochloris is dominant in the skeleton of Isopora palifera. However, due to inherent challenges in studying anaerobic microbes in coral skeleton, the reason for its niche preference and function are largely unknown. Results: This study characterized a diverse and dynamic community of endolithic microbes shaped by the availability of light and oxygen. In addition, anaerobic bacteria isolated from the coral skeleton were cultured for the first time to experimentally clarify the role of these GSB. This characterization includes GSB's abundance, genetic and genomic profiles, organelle structure, and specific metabolic functions and activity. Our results explain the advantages endolithic GSB receive from living in coral skeletons, the potential metabolic role of a clade of coral-associated Prosthecochloris (CAP) in the skeleton, and the nitrogen fixation ability of CAP. Conclusion: We suggest that the endolithic microbial community in coral skeletons is diverse and dynamic and that light and oxygen are two crucial factors for shaping it. This study is the first to demonstrate the ability of nitrogen uptake by specific coral-associated endolithic bacteria and shed light on the role of endolithic bacteria in coral skeletons.

KW - Anaerobic cultivation

KW - Endoliths

KW - Green sulfur bacteria

KW - Isopora palifera

KW - Nitrogen fixation

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DO - 10.1186/s40168-018-0616-z

M3 - Article

VL - 7

JO - Microbiome

JF - Microbiome

SN - 2049-2618

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M1 - 3

ER -