scholarly journals Relating landscape development intensity to coral reef condition in the watersheds of St. Croix, US Virgin Islands

2011 ◽  
Vol 427 ◽  
pp. 293-302 ◽  
Author(s):  
LM Oliver ◽  
JC Lehrter ◽  
WS Fisher
Keyword(s):  
Coral Reef ◽  
Virgin Islands ◽  
Landscape Development ◽  
Us Virgin Islands ◽  
Landscape Development Intensity ◽  
Reef Condition

Coral-reef Geology: Puerto Rico and the US Virgin Islands

2008 ◽  
pp. 263-302 ◽  
Author(s):  
Dennis K. Hubbard ◽  
Randolph B. Burke ◽  
Ivan P. Gill ◽  
Wilson R. Ramirez ◽  
Clark Sherman
Keyword(s):  
Puerto Rico ◽  
Coral Reef ◽  
Virgin Islands ◽  
Us Virgin Islands ◽  
The Us

scholarly journals Using high-throughput sequencing of ITS2 to describe Symbiodinium metacommunities in St. John, US Virgin Islands

PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e3472 ◽  
Author(s):  
Ross Cunning ◽  
Ruth D. Gates ◽  
Peter J. Edmunds
Keyword(s):  
Coral Reef ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Virgin Islands ◽  
Us Virgin Islands ◽  
Operational Taxonomic Units ◽  
The North ◽  
Application Specific ◽  
North And South ◽  
Symbiotic Microalgae

Symbiotic microalgae (Symbiodinium spp.) strongly influence the performance and stress-tolerance of their coral hosts, making the analysis of Symbiodinium communities in corals (and metacommunities on reefs) advantageous for many aspects of coral reef research. High-throughput sequencing of ITS2 nrDNA offers unprecedented scale in describing these communities, yet high intragenomic variability at this locus complicates the resolution of biologically meaningful diversity. Here, we demonstrate that generating operational taxonomic units by clustering ITS2 sequences at 97% similarity within, but not across, samples collapses sequence diversity that is more likely to be intragenomic, while preserving diversity that is more likely interspecific. We utilize this ‘within-sample clustering’ to analyze Symbiodinium from ten host taxa on shallow reefs on the north and south shores of St. John, US Virgin Islands. While Symbiodinium communities did not differ between shores, metacommunity network analysis of host-symbiont associations revealed Symbiodinium lineages occupying ‘dominant’ and ‘background’ niches, and coral hosts that are more ‘flexible’ or ‘specific’ in their associations with Symbiodinium. These methods shed new light on important questions in coral symbiosis ecology, and demonstrate how application-specific bioinformatic pipelines can improve the analysis of metabarcoding data in microbial metacommunity studies.

Assessing coral reef health across onshore to offshore stress gradients in the US Virgin Islands

2008 ◽  
Vol 56 (12) ◽  
pp. 1983-1991 ◽  
Author(s):  
T.B. Smith ◽  
R.S. Nemeth ◽  
J. Blondeau ◽  
J.M. Calnan ◽  
E. Kadison ◽  
...  
Keyword(s):  
Coral Reef ◽  
Virgin Islands ◽  
Us Virgin Islands ◽  
Stress Gradients ◽  
The Us ◽  
Reef Health

scholarly journals Using high-throughput sequencing of ITS2 to describe Symbiodinium metacommunities in St. John, U.S. Virgin Islands

2017 ◽  
Author(s):  
Ross Cunning ◽  
Ruth D Gates ◽  
Peter J Edmunds
Keyword(s):  
Coral Reef ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Virgin Islands ◽  
Us Virgin Islands ◽  
Operational Taxonomic Units ◽  
The North ◽  
Application Specific ◽  
North And South ◽  
Symbiotic Microalgae

Symbiotic microalgae (Symbiodinium spp.) strongly influence the performance and stress-tolerance of their coral hosts, making the analysis of Symbiodinium communities in corals (and metacommunities on reefs) advantageous for many aspects of coral reef research. High-throughput sequencing of ITS2 nrDNA offers unprecedented scale in describing these communities, yet high intragenomic variability at this locus complicates the resolution of biologically meaningful diversity. Here, we demonstrate that generating operational taxonomic units by clustering ITS2 sequences at 97% similarity within, but not across, samples collapses sequence diversity that is more likely to be intragenomic, while preserving diversity that is more likely interspecific. We utilize this 'within-sample clustering' to analyze Symbiodinium from ten host taxa on shallow reefs on the north and south shores of St. John, US Virgin Islands. While Symbiodinium communities did not differ between shores, metacommunity network analysis of host-symbiont associations revealed Symbiodinium lineages occupying 'dominant' and 'background' niches, and coral hosts that are more 'flexible' or 'specific' in their associations with Symbiodinium. These methods shed new light on important questions in coral symbiosis ecology, and demonstrate how application-specific bioinformatic pipelines can improve the analysis of metabarcoding data in microbial metacommunity studies.

scholarly journals Using high-throughput sequencing of ITS2 to describe Symbiodinium metacommunities in St. John, U.S. Virgin Islands

2017 ◽  
Author(s):  
Ross Cunning ◽  
Ruth D Gates ◽  
Peter J Edmunds
Keyword(s):  
Coral Reef ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Virgin Islands ◽  
Us Virgin Islands ◽  
Operational Taxonomic Units ◽  
The North ◽  
Application Specific ◽  
North And South ◽  
Symbiotic Microalgae

Symbiotic microalgae (Symbiodinium spp.) strongly influence the performance and stress-tolerance of their coral hosts, making the analysis of Symbiodinium communities in corals (and metacommunities on reefs) advantageous for many aspects of coral reef research. High-throughput sequencing of ITS2 nrDNA offers unprecedented scale in describing these communities, yet high intragenomic variability at this locus complicates the resolution of biologically meaningful diversity. Here, we demonstrate that generating operational taxonomic units by clustering ITS2 sequences at 97% similarity within, but not across, samples collapses sequence diversity that is more likely to be intragenomic, while preserving diversity that is more likely interspecific. We utilize this 'within-sample clustering' to analyze Symbiodinium from ten host taxa on shallow reefs on the north and south shores of St. John, US Virgin Islands. While Symbiodinium communities did not differ between shores, metacommunity network analysis of host-symbiont associations revealed Symbiodinium lineages occupying 'dominant' and 'background' niches, and coral hosts that are more 'flexible' or 'specific' in their associations with Symbiodinium. These methods shed new light on important questions in coral symbiosis ecology, and demonstrate how application-specific bioinformatic pipelines can improve the analysis of metabarcoding data in microbial metacommunity studies.

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