Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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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_818765.subset | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_818765 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_818765/ | public | [Diatom Matrix RNAseq] - Transcriptome data for bacteria collected eight hours after individual inoculation into a diatom Thalassiosira psuedonana culture (Metabolic Currencies of the Ocean Carbon Cycle) | Transcriptome data for bacteria Ruegeria pomeroyi DSS-3, Stenotrophomonas sp. SKA14, Polaribacter dokdonensis MED152, and Dokdonia MED134 collected eight hours after individual inoculation into a diatom Thalassiosira psuedonana culture. The sequence data description for PRHNA448168 is at https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA448168.\n\ncdm_data_type = Other\nVARIABLES:\nSample_Name (unitless)\nNCBI_Bioproject_Accession (unitless)\nBioSample (Bio Sample, unitless)\nDescription (unitless)\nreplicate (unitless)\nNCBI_Genome_Accession (unitless)\ntaxon_microbe (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_818765/index.htmlTable | https://www.bco-dmo.org/dataset/818765
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_818765.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_818765&showErrors=false&email= | BCO-DMO | bcodmo_dataset_818765 | |||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_945915_v1 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_945915_v1.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_945915_v1/ | public | [Metagenome sequencing samples] - Contextual data for samples collected for metagenome sequencing from the deep subseafloor biosphere as accessed via CORKs along the Juan de Fuca Ridge flank in the Northeast Pacific Ocean between 2008 and 2014 (Collaborative Research: Illuminating microbes and their viruses within the dark ocean crust through strain-level approaches) | This dataset provides contextual information about samples used for metagenome sequencing. These samples were collected from pristine crustal fluids sampled via CORK observatories along the Juan de Fuca Ridge flank in the Northeast Pacific Ocean off the coast of North America. Also included are metadata for seawater and sediment metagenomes that have been sequenced as controls. All of the data are publicly available via the National Center for Biotechnology Information (NCBI) accession numbers provided in the dataset (BioProject numbers PRJNA655018 to PRJNA655040).\n\ncdm_data_type = Other\nVARIABLES:\nSample_Type (unitless)\nSample_Name (unitless)\nDNA_Isolation_Method (unitless)\nCollection_Date (unitless)\nCollection_Year (unitless)\nCollection_Month (unitless)\nCollection_Day (unitless)\nSample_Source (unitless)\nFluid_Delivery_Line (unitless)\nEnvironment (unitless)\nlatitude (degrees_north)\nlongitude (degrees_east)\nDepth (msb)\nArea (unitless)\nFull_Sample_Name_and_Description (unitless)\nIMG_Genome_ID (unitless)\nNCBI_Bioproject_Accession (unitless)\nNCBI_Biosample_Accession (unitless)\nSRA_ID (unitless)\n | https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_945915_v1_fgdc.xml | https://erddap.bco-dmo.org/erddap/metadata/iso19115/xml/bcodmo_dataset_945915_v1_iso19115.xml | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_945915_v1/index.htmlTable | https://www.bco-dmo.org/dataset/945915
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_945915_v1.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_945915_v1&showErrors=false&email= | BCO-DMO | bcodmo_dataset_945915_v1 | |||
| log in | [NCBI accessions for RNAseq data from apparently healthy and SCTLD-affected Montastraea cavernosa] - RNAseq data from apparently healthy and Stony Coral Tissue Loss Disease-affected Montastraea cavernosa coral collected from St. Thomas, US Virgin Islands in 2020 (RAPID: Collaborative Research: Predicting the Spread of Multi-Species Coral Disease Using Species Immune Traits) | These data include raw RNAseq reads from Montastraea cavernosa collected from two reefs in St. Thomas, United States Virgin Islands. Samples were collected from two reefs showing signs of active stony coral tissue loss disease (SCTLD) in February of 2020: Buck Island and Black Point. Black Point, a nearshore reef, first exhibited cases of SCTLD between December 2018 and January 2019, whereas Buck Island, situated near an offshore undeveloped island, recorded its first cases of SCTLD in October 2019. At both sites, one coral fragment was collected from each apparently health colony (Buck Island, n = 3; Black Point, n = 3), termed apparently healthy tissue on an apparently healthy colony (HH). Two fragments were collected from each diseased colony: one immediately adjacent to the SCTLD lesion line (Buck Island, n = 3: Black Point, n = 5), termed lesion tissue on a diseased colony (LD), and one as far away from the lesion line as possible (approximately 10 cm from the lesion line) (Buck Island, n = 3; Black Point, n = 5), termed apparently healthy tissue on a diseased colony (HD). Sample and data analysis was performed in January 2024. Sequences were used in a feature selection algorithm to identify the genes in M. cavernosa and its dominant algal endosymbiont, Cladocopium goreaui, that best discriminate between the three SCTLD health states. By characterizing the gene expression profiles associated with various tissue health states in M. cavernosa and C. goreaui, this data supports evidence that SCTLD causes dysbiosis between the coral host and its Symbiodiniaceae and describes the metabolic and immune shifts that occur as the holobiont transitions from an apparently healthy state to a diseased state.\n\ncdm_data_type = Other\nVARIABLES:\nSample_ID (unitless)\nNCBI_BioProject_accession (unitless)\nNCBI_BioSample_accession (unitless)\nNCBI_SRA_accession (unitless)\nSample_type (unitless)\nCoral_species (unitless)\nReef_Name (unitless)\nReef_type (unitless)\nCollection_Date (unitless)\nlatitude (degrees_north)\n... (15 more variables)\n | BCO-DMO | bcodmo_dataset_935630_v1 |