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| griddap | Subset | tabledap | Make A Graph | wms | files | Accessible | Title | Summary | FGDC | ISO 19115 | Info | Background Info | RSS | Institution | Dataset ID | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_854887_v1 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_854887_v1/ | public | [Atlantic silverside RNA-seq reads] - Sample and genetic accession information for RNA-seq data from whole Atlantic silverside (Menidia menidia) larvae from two populations and their F1 hybrids reared under different temperatures in 2017 (Collaborative research: The genomic underpinnings of local adaptation despite gene flow along a coastal environmental cline) | Sample and genetic accession information for RNA-seq data from whole Atlantic silverside (Menidia menidia) larvae from two populations and their F1 hybrids. Larvae were reared under two different temperatures to study temperature-dependent gene regulatory divergence between locally adapted Atlantic silverside populations in 2017. \n\nThe data are deposited in the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA) with accession numbers SRR13523227- SRR13523268 associated with BioProject PRJNA694674 and BioSamples SAMN17531688 - SAMN17531729.\n\ncdm_data_type = Other\nVARIABLES:\nBioProject (unitless)\nBioSample (unitless)\nSample_name (unitless)\nSRA (unitless)\ntaxonomy_id (unitless)\ntaxonomy_name (unitless)\necotype (unitless)\ndev_stage (unitless)\nsex (unitless)\ntissue (unitless)\nsample_type (unitless)\ncross (unitless)\ntreatment (degrees Celsius)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_854887_v1/index.htmlTable | https://www.bco-dmo.org/dataset/854887
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_854887_v1.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_854887_v1&showErrors=false&email= | BCO-DMO | bcodmo_dataset_854887_v1 | ||||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_935908_v1 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_935908_v1/ | public | [Bacterial communities and relative abundances of the pathogen Vibrio coralliilyticus in feces of coral reef fish] - Bacterial communities and relative abundances of the pathogen Vibrio coralliilyticus in feces of coral reef fish collected on the north shore of Mo’orea, French Polynesia, Oct 2020 (CAREER: Testing the effects of predator-derived feces on host symbiont acquisition and health) | Understanding how microbial communities in consumer feces may impact ecosystem health may improve conservation and restoration efforts. To test how microbial communities in fish feces may affect coral reef health, we collected fecal samples from ten fish species, ranging from obligate corallivore to grazer/detritivore. Additionally, samples of corals, algae, sediments, and seawater were collected to test whether bacterial taxa in these samples were also represented in fish feces (N = 5-14 per fish, coral, or algae species/genus). All collections were conducted in October 2020 from the back reef (1-2 m depth) and fore reef (5-10 m depth) in Moorea, between LTER sites 1 and 2 of the Moorea Coral Reef (MCR) Long Term Ecological Research (LTER) site. We conducted bacterial 16S rRNA gene metabarcoding on all samples and found that fecal communities of bacteria differed among fish guilds (obligate corallivores, facultative corallivores, grazer/detritivores). We also used real-time PCR to quantify abundances of Vibrio coralliilyticus, a known coral pathogen, in all fecal samples. Samples were collected and processed, and data were analyzed, by the authors of Grupstra et al., 2023.\n\ncdm_data_type = Other\nVARIABLES:\nsample_name (unitless)\nSRA (unitless)\nBioSample (unitless)\norganism (unitless)\nstrain (unitless)\nisolation_source (unitless)\ncollection_date (unitless)\ngeo_loc_name (unitless)\ndepth_r (Depth, m)\nenv_broad_scale (unitless)\nhost_description (unitless)\nhost_tissue_sampled (unitless)\nhost_diet (unitless)\nhost_feces_dCT (cycles)\nhost_AphiaID (unitless)\nhost_ScientificName (unitless)\nhost_LSID (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_935908_v1/index.htmlTable | https://www.bco-dmo.org/dataset/935908
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_935908_v1.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_935908_v1&showErrors=false&email= | BCO-DMO | bcodmo_dataset_935908_v1 | ||||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_928636_v1 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_928636_v1/ | public | [Ca. Aquarickettsia rohweri transcriptomes] - Sampling and experimental metadata related to 'Candidatus' Aquarickettsia rohweri transcriptome data from host Acropora cervicornis colonies collected at Looe Key, Lower Florida Keys from Apr to Jun of 2019 (Collaborative Research: Tracking the interacting roles of the environment, host genotype, and a novel Rickettsiales in coral disease susceptibility) | This dataset contains sampling and experimental metadata related to 'Candidatus' Aquarickettsia rohweri transcriptome sequences housed at the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA) under BioProject PRJNA1048415. All host colonies (Acropora cervicornis genotype ML-50) were collected from the same location, the Mote Marine Laboratory in situ coral nursery in Looe Key, Lower Florida Keys between April and June of 2019.\n\nThe Rickettsiales-like bacterial parasite, 'Candidatus' Aquarickettsia rohweri (NCBI:txid2602574) is a ubiquitous coral symbiont that is strongly linked to coral disease susceptibility in staghorn coral, and is undergoing positive selection across the Caribbean. Although ‘Ca.' A. rohweri is a putative parasite, little is known about the activity of this bacterium in coral tissue. We performed a transcriptomic analyses of ‘Ca.' A. rohweri populations during a 6-week nutrient exposure experiment. ‘Ca.' A. rohweri energy scavenging genes and those potentially involved during habitat transition are significantly upregulated during enrichment. Specifically, transcripts involved in signaling, virulence, two-component systems, and nutrient import genes are elevated under higher nutrients. These data support the predicted role of ‘Ca.' A. rohweri as a highly active nutrient-responsive A. cervicornis parasite and provide a glimpse at the mechanism of induced disease susceptibility while implicating nutrient exposure in its horizontal transmission.\n\ncdm_data_type = Other\nVARIABLES:\nSample_name (unitless)\nBioSample_Accession (unitless)\nSRA (unitless)\nBioProject (unitless)\nData_Type (unitless)\nScope (unitless)\nOrganism (unitless)\nCollected_Host_Organism (unitless)\nStrain (unitless)\nisolation_source (unitless)\nCollection_Year (unitless)\nCollection_date_note (unitless)\nTreatment (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_928636_v1/index.htmlTable | https://osprey.bco-dmo.org/dataset/928636
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_928636_v1.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_928636_v1&showErrors=false&email= | BCO-DMO | bcodmo_dataset_928636_v1 | ||||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_817298 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_817298.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_817298/ | public | [Hurricane Harvey Coral Gene Expression] - Coral gene expression Sequence Read Archive (SRA) accession numbers and information for samples collected at the Flower Garden Banks National Marine Sanctuary in the Gulf of Mexico in September and October of 2017 to capture effects of Hurricane Harvey (RAPID: Collaborative Research: Impact of freshwater runoff from Hurricane Harvey on coral reef benthic organisms and associated microbial communities) | To capture the immediate effects of storm-driven freshwater runoff on coral and symbiont physiology, we leveraged the heavy rainfall associated with Hurricane Harvey in late August 2017 by sampling FGB coral gene expression at two time points: September 2017, when surface water salinity was reduced (\\u223c34 ppt); and 1 month later when salinity had returned to typical levels (\\u223c36 ppt in October 2017). \\r\\n\\r\\nThis dataset includes Sequence Read Archive (SRA) and BioSample accessions under BioProject PRJNA552981 at The National Center for Biotechnology Information. It also contains sample information and species names for samples collected the east and west banks of the Flower Garden Banks National Marine Sanctuary (FGBNMS) at 80ft.\\r\\n\\r\\nThese data were published in Wright et al. (2019).\n\ncdm_data_type = Other\nVARIABLES:\nSample_Name (unitless)\ntime2 (Time, unitless)\nBank (unitless)\nBuoy (unitless)\nlatitude (degrees_north)\nlongitude (degrees_east)\nSpecies (unitless)\ndepth (m)\nSRA (unitless)\nAccession (unitless)\n | https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_817298_fgdc.xml | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_817298/index.htmlTable | https://www.bco-dmo.org/dataset/817298
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_817298.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_817298&showErrors=false&email= | BCO-DMO | bcodmo_dataset_817298 | ||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_817436 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_817436.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_817436/ | public | [Sponge-Associated Microbial Communities (via 16S-V4 rRNA amplicon sequencing) Following Storm-Driven Flooding] - SRA accessions and collection information for 16S-V4 rRNA amplicon data from invertebrates sampled at Flower Garden Banks National Marine Sanctuary, Gulf of Mexico following Tax Day Flooding (2016), Hurricane Harvey (2017), and a no flooding year (2018) (RAPID: Collaborative Research: Impact of freshwater runoff from Hurricane Harvey on coral reef benthic organisms and associated microbial communities) | To document the effects of storm-driven freshwater runoff on\\u00a0sponge-\nassociated microbiomes, we leveraged the heavy rainfall\\u00a0associated with\nTax Day Flooding (July 2016) and Hurricane Harvey\\u00a0(August 2017) to\ncharacterize sponge-associated bacterial communities\\u00a0at five time points:\nin July 2016 (at detection of the mortality\\u00a0event), one month after the\nmortality event (August 2016), immediately\\u00a0after Hurricane Harvey\n(September 2017), one month after Hurricane\\u00a0Harvey (October 2017), and\napproximately one year following Hurricane\\u00a0Harvey (October 2018).\n \nThese data contain Sequence Read Archive (SRA) and BioSample accession numbers\nassociated with BioProject\\u00a0PRJNA605902\n(see\\u00a0[https://www.ncbi.nlm.nih.gov/bioproject/605902](\\\\https://www.ncbi.nlm.nih.gov/bioproject/605902\\\\))\\u00a0at\nThe National Center for Biotechnology Information.\n\ncdm_data_type = Other\nVARIABLES:\nSample_Name (unitless)\nCollection_Date_Start (unitless)\nCollection_Date_End (unitless)\nDepth_min (Depth, meters (m))\ndepth (m)\nBank (unitless)\nSpecies (unitless)\nSRA (unitless)\nAccession (unitless)\nlatitude (degrees_north)\nlongitude (degrees_east)\n | https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_817436_fgdc.xml | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_817436/index.htmlTable | https://www.bco-dmo.org/dataset/817436
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_817436.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_817436&showErrors=false&email= | BCO-DMO | bcodmo_dataset_817436 |