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  • PeerJ  (5)
  • Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu  (3)
  • 1
    Publication Date: 2018-07-12
    Description: Black Band Disease (BBD) is a widely distributed and destructive coral disease that has been studied on a global scale, but baseline data on coral diseases is missing from many areas of the Arabian Seas. Here we report on the broad distribution and prevalence of BBD in the Red Sea in addition to documenting a bleaching-associated outbreak of BBD with subsequent microbial community characterization of BBD microbial mats at this reef site in the southern central Red Sea. Coral colonies with BBD were found at roughly a third of our 22 survey sites with an overall prevalence of 0.04%. Nine coral genera were infected including Astreopora, Coelastrea, Dipsastraea, Gardineroseris, Goniopora, Montipora, Pavona, Platygyra, and Psammocora. For a southern central Red Sea outbreak site, overall prevalence was 40 times higher than baseline (1.7%). Differential susceptibility to BBD was apparent among coral genera with Dipsastraea (prevalence 6.1%), having more diseased colonies than was expected based on its abundance within transects. Analysis of the microbial community associated with the BBD mat showed that it is dominated by a consortium of cyanobacteria and heterotrophic bacteria. We detected the three main indicators for BBD (filamentous cyanobacteria, sulfate-reducing bacteria (SRB), and sulfide-oxidizing bacteria (SOB)), with high similarity to BBD-associated microbes found worldwide. More specifically, the microbial consortium of BBD-diseased coral colonies in the Red Sea consisted of Oscillatoria sp. (cyanobacteria), Desulfovibrio sp. (SRB), and Arcobacter sp. (SOB). Given the similarity of associated bacteria worldwide, our data suggest that BBD represents a global coral disease with predictable etiology. Furthermore, we provide a baseline assessment of BBD disease prevalence in the Red Sea, a still understudied region.
    Electronic ISSN: 2167-8359
    Topics: Biology , Medicine
    Published by PeerJ
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  • 2
    Publication Date: 2015-01-20
    Electronic ISSN: 2167-8359
    Topics: Biology , Medicine
    Published by PeerJ
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  • 3
    Publication Date: 2018-05-23
    Description: The Internal Transcribed Spacer 2 (ITS2) rRNA gene is a commonly targeted genetic marker to assess diversity of Symbiodinium, a dinoflagellate genus of algal endosymbionts that is pervasively associated with marine invertebrates, and notably reef-building corals. Here we tested three commonly used ITS2 primer pairs (SYM_VAR_5.8S2/SYM_VAR_REV, ITSintfor2/ITSReverse, and ITS-DINO/ITS2Rev2) with regard to amplification specificity and sensitivity towards Symbiodinium, as well as sub-genera taxonomic bias. We tested these primers over a range of sample types including three coral species, coral surrounding water, reef surface water, and open ocean water to assess their suitability for use in large-scale next generation sequencing projects and to develop a standardised PCR protocol. We found the SYM_VAR_5.8S2/SYM_VAR_REV primers to perform superior to the other tested ITS2 primers. We therefore used this primer pair to develop a standardised PCR protocol. To do this, we tested the effect of PCR-to-PCR variation, annealing temperature, cycle number, and different polymerase systems on the PCR efficacy. The Symbiodinium ITS2 PCR protocol developed here delivers improved specificity and sensitivity towards Symbiodinium with apparent minimal sub-genera taxonomic bias across all sample types. In particular, the protocol’s ability to amplify Symbiodinium from a range of environmental sources will facilitate the study of Symbiodinium populations across biomes.
    Electronic ISSN: 2167-8359
    Topics: Biology , Medicine
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  • 4
    Publication Date: 2018-03-01
    Description: Current research posits that all multicellular organisms live in symbioses with associated microorganisms and form so-called metaorganisms or holobionts. Cnidarian metaorganisms are of specific interest given that stony corals provide the foundation of the globally threatened coral reef ecosystems. To gain first insight into viruses associated with the coral model system Aiptasia (sensu Exaiptasia pallida), we analyzed an existing RNA-Seq dataset of aposymbiotic, partially populated, and fully symbiotic Aiptasia CC7 anemones with Symbiodinium. Our approach included the selective removal of anemone host and algal endosymbiont sequences and subsequent microbial sequence annotation. Of a total of 297 million raw sequence reads, 8.6 million (∼3%) remained after host and endosymbiont sequence removal. Of these, 3,293 sequences could be assigned as of viral origin. Taxonomic annotation of these sequences suggests that Aiptasia is associated with a diverse viral community, comprising 116 viral taxa covering 40 families. The viral assemblage was dominated by viruses from the families Herpesviridae (12.00%), Partitiviridae (9.93%), and Picornaviridae (9.87%). Despite an overall stable viral assemblage, we found that some viral taxa exhibited significant changes in their relative abundance when Aiptasia engaged in a symbiotic relationship with Symbiodinium. Elucidation of viral taxa consistently present across all conditions revealed a core virome of 15 viral taxa from 11 viral families, encompassing many viruses previously reported as members of coral viromes. Despite the non-random selection of viral genetic material due to the nature of the sequencing data analyzed, our study provides a first insight into the viral community associated with Aiptasia. Similarities of the Aiptasia viral community with those of corals corroborate the application of Aiptasia as a model system to study coral holobionts. Further, the change in abundance of certain viral taxa across different symbiotic states suggests a role of viruses in the algal endosymbiosis, but the functional significance of this remains to be determined.
    Electronic ISSN: 2167-8359
    Topics: Biology , Medicine
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  • 5
    Publication Date: 2014-04-08
    Electronic ISSN: 2167-8359
    Topics: Biology , Medicine
    Published by PeerJ
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  • 6
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    Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu
    Publication Date: 2022-10-31
    Description: Dataset: Red Sea Gradient Visual Bleaching
    Description: This dataset contains measurements of visual bleaching following 18-hour acute thermal stress experiments, where temperatures were ramped up to 30, 33, 36, and 39 degrees Celsius. Four coral species (Acropora hemprichii, Pocillopora verrucosa, Porites lobata, and Stylophora pistillata) were sampled from six sites along the length of the Red Sea, down to Djibouti in the Gulf of Aden. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/863800
    Description: NSF Division of Ocean Sciences (NSF OCE) OCE-1833201
    Keywords: Ocean warming ; Red Sea ; Thermal stress ; Coral thermotolerance ; Standardized acute assays ; Coral Bleaching Automated Stress System (CBASS)
    Repository Name: Woods Hole Open Access Server
    Type: Dataset
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  • 7
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    Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu
    Publication Date: 2022-10-31
    Description: Dataset: Red Sea Gradient Fv/Fm
    Description: This dataset contains measurements of coral physiology (Fv/Fm) during 18-hour acute thermal stress experiments, where temperatures were ramped up to 30, 33, 36, and 39 degrees Celsius. Four coral species (Acropora hemprichii, Pocillopora verrucosa, Porites lobata, and Stylophora pistillata) were sampled from six sites along the length of the Red Sea, down to Djibouti in the Gulf of Aden. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/863771
    Description: NSF Division of Ocean Sciences (NSF OCE) OCE-1833201
    Keywords: Ocean warming ; Red Sea ; Thermal stress ; Coral thermotolerance ; Standardized acute assays ; Coral Bleaching Automated Stress System (CBASS)
    Repository Name: Woods Hole Open Access Server
    Type: Dataset
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  • 8
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    Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu
    Publication Date: 2022-10-31
    Description: Dataset: Red Sea Gradient Physiology
    Description: This dataset contains measurements of coral physiology (chlorophyll a and symbiont densities) following 18-hour acute thermal stress experiments, where temperatures were ramped up to 30, 33, 36, and 39 degrees Celsius. Four coral species (Acropora hemprichii, Pocillopora verrucosa, Porites lobata, and Stylophora pistillata) were sampled from six sites along the length of the Red Sea, down to Djibouti in the Gulf of Aden. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/863786
    Description: NSF Division of Ocean Sciences (NSF OCE) OCE-1833201
    Keywords: Ocean warming ; Red Sea ; Thermal stress ; Coral thermotolerance ; Standardized acute assays ; Coral Bleaching Automated Stress System (CBASS)
    Repository Name: Woods Hole Open Access Server
    Type: Dataset
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