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Dataset Title:	[OTU table for 18S rRNA gene tag sequences from DNA and RNA] - Operational taxonomic unit (OTU) table for 18S rRNA gene tag sequences from DNA and RNA from samples collected in coastal California in 2013 and 2014 (Protistan, prokaryotic, and viral processes at the San Pedro Ocean Time-series)
Institution:	BCO-DMO   (Dataset ID: bcodmo_dataset_748064)
Information:	Summary | License | ISO 19115 | Metadata | Background | Files | Make a graph

 

Variable	Optional Constraint #1		Optional Constraint #2		Minimum	Maximum
OTU_ID (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"AACT01045610"	"Y17766"
April_150m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	21841
July_DCM_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	15305
April_890m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	5012
Oct_DCM_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	6150
Oct_150m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	48601
July_150m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	20621
April_150m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	6822
July_150m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	12261
Jan_DCM_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	11057
Jan_150m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	11928
April_CAT_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	14271
April_5m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	44276
July_POLA_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	10078
July_CAT_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	41668
July_5m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	54326
April_5m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	41114
July_CAT_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	8890
July_5m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	34962
Oct_CAT_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	9237
April_CAT_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	4027
Oct_POLA_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	7870
Oct_5m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	21238
Oct_CAT_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	13068
Oct_5m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	13778
Jan_CAT_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	4128
Jan_5m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	85900
Jan_POLA_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	11517
Jan_5m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	9762
April_DCM_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	6241
Jan_CAT_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	4167
July_DCM_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	4126
April_DCM_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	36115
Oct_150m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	17818
Jan_DCM_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	12655
Jan_150m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	5363
April_POLA_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	8474
July_POLA_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	1747
April_POLA_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	34225
Oct_POLA_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	4979
Jan_POLA_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	5356
July_890m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	36900
July_890m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	7020
Oct_DCM_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	22639
Jan_890m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	12034
Jan_890m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	39471
Oct_890m_DNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	32081
Oct_890m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	37061
April_890m_cDNA (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		0	3950
taxonomy (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Eukaryota"	"Unassigned"

 

Server-side Functions

distinct()

orderBy orderByDescending orderByClosest orderByCount orderByLimit orderByMax orderByMin orderByMinMax orderByMean orderBySum (" OTU_ID April_150m_DNA July_DCM_DNA April_890m_DNA Oct_DCM_DNA Oct_150m_DNA July_150m_DNA April_150m_cDNA July_150m_cDNA Jan_DCM_DNA Jan_150m_DNA April_CAT_DNA April_5m_DNA July_POLA_DNA July_CAT_DNA July_5m_DNA April_5m_cDNA July_CAT_cDNA July_5m_cDNA Oct_CAT_DNA April_CAT_cDNA Oct_POLA_DNA Oct_5m_DNA Oct_CAT_cDNA Oct_5m_cDNA Jan_CAT_DNA Jan_5m_DNA Jan_POLA_DNA Jan_5m_cDNA April_DCM_DNA Jan_CAT_cDNA July_DCM_cDNA April_DCM_cDNA Oct_150m_cDNA Jan_DCM_cDNA Jan_150m_cDNA April_POLA_cDNA July_POLA_cDNA April_POLA_DNA Oct_POLA_cDNA Jan_POLA_cDNA July_890m_DNA July_890m_cDNA Oct_DCM_cDNA Jan_890m_DNA Jan_890m_cDNA Oct_890m_DNA Oct_890m_cDNA April_890m_cDNA taxonomy OTU_ID April_150m_DNA July_DCM_DNA April_890m_DNA Oct_DCM_DNA Oct_150m_DNA July_150m_DNA April_150m_cDNA July_150m_cDNA Jan_DCM_DNA Jan_150m_DNA April_CAT_DNA April_5m_DNA July_POLA_DNA July_CAT_DNA July_5m_DNA April_5m_cDNA July_CAT_cDNA July_5m_cDNA Oct_CAT_DNA April_CAT_cDNA Oct_POLA_DNA Oct_5m_DNA Oct_CAT_cDNA Oct_5m_cDNA Jan_CAT_DNA Jan_5m_DNA Jan_POLA_DNA Jan_5m_cDNA April_DCM_DNA Jan_CAT_cDNA July_DCM_cDNA April_DCM_cDNA Oct_150m_cDNA Jan_DCM_cDNA Jan_150m_cDNA April_POLA_cDNA July_POLA_cDNA April_POLA_DNA Oct_POLA_cDNA Jan_POLA_cDNA July_890m_DNA July_890m_cDNA Oct_DCM_cDNA Jan_890m_DNA Jan_890m_cDNA Oct_890m_DNA Oct_890m_cDNA April_890m_cDNA taxonomy OTU_ID April_150m_DNA July_DCM_DNA April_890m_DNA Oct_DCM_DNA Oct_150m_DNA July_150m_DNA April_150m_cDNA July_150m_cDNA Jan_DCM_DNA Jan_150m_DNA April_CAT_DNA April_5m_DNA July_POLA_DNA July_CAT_DNA July_5m_DNA April_5m_cDNA July_CAT_cDNA July_5m_cDNA Oct_CAT_DNA April_CAT_cDNA Oct_POLA_DNA Oct_5m_DNA Oct_CAT_cDNA Oct_5m_cDNA Jan_CAT_DNA Jan_5m_DNA Jan_POLA_DNA Jan_5m_cDNA April_DCM_DNA Jan_CAT_cDNA July_DCM_cDNA April_DCM_cDNA Oct_150m_cDNA Jan_DCM_cDNA Jan_150m_cDNA April_POLA_cDNA July_POLA_cDNA April_POLA_DNA Oct_POLA_cDNA Jan_POLA_cDNA July_890m_DNA July_890m_cDNA Oct_DCM_cDNA Jan_890m_DNA Jan_890m_cDNA Oct_890m_DNA Oct_890m_cDNA April_890m_cDNA taxonomy OTU_ID April_150m_DNA July_DCM_DNA April_890m_DNA Oct_DCM_DNA Oct_150m_DNA July_150m_DNA April_150m_cDNA July_150m_cDNA Jan_DCM_DNA Jan_150m_DNA April_CAT_DNA April_5m_DNA July_POLA_DNA July_CAT_DNA July_5m_DNA April_5m_cDNA July_CAT_cDNA July_5m_cDNA Oct_CAT_DNA April_CAT_cDNA Oct_POLA_DNA Oct_5m_DNA Oct_CAT_cDNA Oct_5m_cDNA Jan_CAT_DNA Jan_5m_DNA Jan_POLA_DNA Jan_5m_cDNA April_DCM_DNA Jan_CAT_cDNA July_DCM_cDNA April_DCM_cDNA Oct_150m_cDNA Jan_DCM_cDNA Jan_150m_cDNA April_POLA_cDNA July_POLA_cDNA April_POLA_DNA Oct_POLA_cDNA Jan_POLA_cDNA July_890m_DNA July_890m_cDNA Oct_DCM_cDNA Jan_890m_DNA Jan_890m_cDNA Oct_890m_DNA Oct_890m_cDNA April_890m_cDNA taxonomy OTU_ID April_150m_DNA July_DCM_DNA April_890m_DNA Oct_DCM_DNA Oct_150m_DNA July_150m_DNA April_150m_cDNA July_150m_cDNA Jan_DCM_DNA Jan_150m_DNA April_CAT_DNA April_5m_DNA July_POLA_DNA July_CAT_DNA July_5m_DNA April_5m_cDNA July_CAT_cDNA July_5m_cDNA Oct_CAT_DNA April_CAT_cDNA Oct_POLA_DNA Oct_5m_DNA Oct_CAT_cDNA Oct_5m_cDNA Jan_CAT_DNA Jan_5m_DNA Jan_POLA_DNA Jan_5m_cDNA April_DCM_DNA Jan_CAT_cDNA July_DCM_cDNA April_DCM_cDNA Oct_150m_cDNA Jan_DCM_cDNA Jan_150m_cDNA April_POLA_cDNA July_POLA_cDNA April_POLA_DNA Oct_POLA_cDNA Jan_POLA_cDNA July_890m_DNA July_890m_cDNA Oct_DCM_cDNA Jan_890m_DNA Jan_890m_cDNA Oct_890m_DNA Oct_890m_cDNA April_890m_cDNA taxonomy ")

File type: (more information) .asc - View OPeNDAP-style ISO-8859-1 comma-separated text. .csv - Download a ISO-8859-1 comma-separated text table (line 1: names; line 2: units; ISO 8601 times). .csvp - Download a ISO-8859-1 .csv file with line 1: name (units). Times are ISO 8601 strings. .csv0 - Download a ISO-8859-1 .csv file without column names or units. Times are ISO 8601 strings. .dataTable - A JSON file formatted for use with the Google Visualization client library (Google Charts). .das - View the dataset's metadata via an ISO-8859-1 OPeNDAP Dataset Attribute Structure (DAS). .dds - View the dataset's structure via an ISO-8859-1 OPeNDAP Dataset Descriptor Structure (DDS). .dods - OPeNDAP clients use this to download the data in the DODS binary format. .esriCsv - Download a ISO_8859_1 .csv file for ESRI's ArcGIS 9.x and below (separate date and time columns). .fgdc - View the dataset's UTF-8 FGDC .xml metadata. .geoJson - Download longitude,latitude,otherColumns data as a UTF-8 GeoJSON .json file. .graph - View a Make A Graph web page. .help - View a web page with a description of tabledap. .html - View an OPeNDAP-style HTML Data Access Form. .htmlTable - View a UTF-8 .html web page with the data in a table. Times are ISO 8601 strings. .iso19115 - View the dataset's ISO 19115-2/19139 UTF-8 .xml metadata. .itx - Download an ISO-8859-1 Igor Text File. Each response column becomes a wave. .json - View a table-like UTF-8 JSON file (missing value = 'null'; times are ISO 8601 strings). .jsonlCSV1 - View a UTF-8 JSON Lines CSV file with column names on line 1 (mv = 'null'; times are ISO 8601 strings). .jsonlCSV - View a UTF-8 JSON Lines CSV file without column names (mv = 'null'; times are ISO 8601 strings). .jsonlKVP - View a UTF-8 JSON Lines file with Key:Value pairs (missing value = 'null'; times are ISO 8601 strings). .mat - Download a MATLAB binary file. .nc - Download a flat, table-like, NetCDF-3 binary file with COARDS/CF/ACDD metadata. .ncHeader - View the UTF-8 header (the metadata) for the NetCDF-3 .nc file. .ncCF - Download a NetCDF-3 CF Discrete Sampling Geometries file (Contiguous Ragged Array). .ncCFHeader - View the UTF-8 header (the metadata) for the .ncCF file. .ncCFMA - Download a NetCDF-3 CF Discrete Sampling Geometries file (Multidimensional Array). .ncCFMAHeader - View the UTF-8 header (the metadata) for the .ncCFMA file. .nccsv - Download a NetCDF-3-like 7-bit ASCII NCCSV .csv file with COARDS/CF/ACDD metadata. .nccsvMetadata - View the dataset's metadata as the top half of a 7-bit ASCII NCCSV .csv file. .ncoJson - Download a UTF-8 NCO lvl=2 JSON file with COARDS/CF/ACDD metadata. .odvTxt - Download longitude,latitude,time,otherColumns as an ISO-8859-1 ODV Generic Spreadsheet File (.txt). .subset - View an HTML form which uses faceted search to simplify picking subsets of the data. .tsv - Download a ISO-8859-1 tab-separated text table (line 1: names; line 2: units; ISO 8601 times). .tsvp - Download a ISO-8859-1 .tsv file with line 1: name (units). Times are ISO 8601 strings. .tsv0 - Download a ISO-8859-1 .tsv file without column names or units. Times are ISO 8601 strings. .wav - Download a .wav audio file. All columns must be numeric and of the same type. .xhtml - View a UTF-8 XHTML (XML) file with the data in a table. Times are ISO 8601 strings. .kml - View a .kml file, suitable for Google Earth. .smallPdf - View a small .pdf image file with a graph or map. .pdf - View a standard, medium-sized .pdf image file with a graph or map. .largePdf - View a large .pdf image file with a graph or map. .smallPng - View a small .png image file with a graph or map. .png - View a standard, medium-sized .png image file with a graph or map. .largePng - View a large .png image file with a graph or map. .transparentPng - View a .png image file (just the data, without axes, landmask, or legend).

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The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  OTU_ID {
    String bcodmo_name "taxon_code";
    String description "Taxonomic designations called Operational Taxonomic Units";
    String long_name "OTU ID";
    String units "unitless";
  }
  April_150m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 21841;
    String bcodmo_name "sequence";
    String description "DNA sequences from April at 150m depth at SPOT";
    String long_name "April 150m DNA";
    String units "unitless";
  }
  July_DCM_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 15305;
    String bcodmo_name "sequence";
    String description "DNA sequences from July at the DCM at SPOT";
    String long_name "July DCM DNA";
    String units "unitless";
  }
  April_890m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 5012;
    String bcodmo_name "sequence";
    String description "DNA sequences from April at 890m depth at SPOT";
    String long_name "April 890m DNA";
    String units "unitless";
  }
  Oct_DCM_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 6150;
    String bcodmo_name "sequence";
    String description "DNA sequences from Oct at the DCM at SPOT";
    String long_name "Oct DCM DNA";
    String units "unitless";
  }
  Oct_150m_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 48601;
    String bcodmo_name "sequence";
    String description "DNA sequences from Oct at 150m depth at SPOT";
    String long_name "Oct 150m DNA";
    String units "unitless";
  }
  July_150m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 20621;
    String bcodmo_name "sequence";
    String description "DNA sequences from July at 150m depth at SPOT";
    String long_name "July 150m DNA";
    String units "unitless";
  }
  April_150m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 6822;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from April at 150m depth at SPOT";
    String long_name "April 150m C DNA";
    String units "unitless";
  }
  July_150m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 12261;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from July at 150m depth at SPOT";
    String long_name "July 150m C DNA";
    String units "unitless";
  }
  Jan_DCM_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 11057;
    String bcodmo_name "sequence";
    String description "DNA sequences from Jan at the DCM at SPOT";
    String long_name "Jan DCM DNA";
    String units "unitless";
  }
  Jan_150m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 11928;
    String bcodmo_name "sequence";
    String description "DNA sequences from Jan at 150m depth at SPOT";
    String long_name "Jan 150m DNA";
    String units "unitless";
  }
  April_CAT_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 14271;
    String bcodmo_name "sequence";
    String description "DNA sequences from April at the surface at Catalina Island";
    String long_name "April CAT DNA";
    String units "unitless";
  }
  April_5m_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 44276;
    String bcodmo_name "sequence";
    String description "DNA sequences from April at 5m depth at SPOT";
    String long_name "April 5m DNA";
    String units "unitless";
  }
  July_POLA_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 10078;
    String bcodmo_name "sequence";
    String description "DNA sequences from July at the surface at the Port of Los Angeles";
    String long_name "July POLA DNA";
    String units "unitless";
  }
  July_CAT_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 41668;
    String bcodmo_name "sequence";
    String description "DNA sequences from July at the surface at Catalina Island";
    String long_name "July CAT DNA";
    String units "unitless";
  }
  July_5m_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 54326;
    String bcodmo_name "sequence";
    String description "DNA sequences from July at 5m depth at SPOT";
    String long_name "July 5m DNA";
    String units "unitless";
  }
  April_5m_cDNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 41114;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from April at 5m depth at SPOT";
    String long_name "April 5m C DNA";
    String units "unitless";
  }
  July_CAT_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 8890;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from July at the surface at Catalina Island";
    String long_name "July CAT C DNA";
    String units "unitless";
  }
  July_5m_cDNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 34962;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from July at 5m depth at SPOT";
    String long_name "July 5m C DNA";
    String units "unitless";
  }
  Oct_CAT_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 9237;
    String bcodmo_name "sequence";
    String description "DNA sequences from Oct at the surface at Catalina Island";
    String long_name "Oct CAT DNA";
    String units "unitless";
  }
  April_CAT_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 4027;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from April at the surface at Catalina Island";
    String long_name "April CAT C DNA";
    String units "unitless";
  }
  Oct_POLA_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 7870;
    String bcodmo_name "sequence";
    String description "DNA sequences from Oct at the surface at the Port of Los Angeles";
    String long_name "Oct POLA DNA";
    String units "unitless";
  }
  Oct_5m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 21238;
    String bcodmo_name "sequence";
    String description "DNA sequences from Oct at 5m depth at SPOT";
    String long_name "Oct 5m DNA";
    String units "unitless";
  }
  Oct_CAT_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 13068;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Oct at the surface at Catalina Island";
    String long_name "Oct CAT C DNA";
    String units "unitless";
  }
  Oct_5m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 13778;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Oct at 5m depth at SPOT";
    String long_name "Oct 5m C DNA";
    String units "unitless";
  }
  Jan_CAT_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 4128;
    String bcodmo_name "sequence";
    String description "DNA sequences from Jan at the surface at Catalina Island";
    String long_name "Jan CAT DNA";
    String units "unitless";
  }
  Jan_5m_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 85900;
    String bcodmo_name "sequence";
    String description "DNA sequences from Jan at 5m depth at SPOT";
    String long_name "Jan 5m DNA";
    String units "unitless";
  }
  Jan_POLA_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 11517;
    String bcodmo_name "sequence";
    String description "DNA sequences from Jan at the surface at the Port of Los Angeles";
    String long_name "Jan POLA DNA";
    String units "unitless";
  }
  Jan_5m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 9762;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Jan at 5m depth at SPOT";
    String long_name "Jan 5m C DNA";
    String units "unitless";
  }
  April_DCM_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 6241;
    String bcodmo_name "sequence";
    String description "DNA sequences from April at the DCM at SPOT";
    String long_name "April DCM DNA";
    String units "unitless";
  }
  Jan_CAT_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 4167;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Jan at the surface at Catalina Island";
    String long_name "Jan CAT C DNA";
    String units "unitless";
  }
  July_DCM_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 4126;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from July at the DCM at SPOT";
    String long_name "July DCM C DNA";
    String units "unitless";
  }
  April_DCM_cDNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 36115;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from April at the DCM at SPOT";
    String long_name "April DCM C DNA";
    String units "unitless";
  }
  Oct_150m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 17818;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Oct at 150m depth at SPOT";
    String long_name "Oct 150m C DNA";
    String units "unitless";
  }
  Jan_DCM_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 12655;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Jan at the DCM at SPOT";
    String long_name "Jan DCM C DNA";
    String units "unitless";
  }
  Jan_150m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 5363;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Jan at 150m depth at SPOT";
    String long_name "Jan 150m C DNA";
    String units "unitless";
  }
  April_POLA_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 8474;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from April at the surface at the Port of Los Angeles";
    String long_name "April POLA C DNA";
    String units "unitless";
  }
  July_POLA_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 1747;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from July at the surface at the Port of Los Angeles";
    String long_name "July POLA C DNA";
    String units "unitless";
  }
  April_POLA_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 34225;
    String bcodmo_name "sequence";
    String description "DNA sequences from April at the surface at the Port of Los Angeles";
    String long_name "April POLA DNA";
    String units "unitless";
  }
  Oct_POLA_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 4979;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Oct at the surface at the Port of Los Angeles";
    String long_name "Oct POLA C DNA";
    String units "unitless";
  }
  Jan_POLA_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 5356;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Jan at the surface at the Port of Los Angeles";
    String long_name "Jan POLA C DNA";
    String units "unitless";
  }
  July_890m_DNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 36900;
    String bcodmo_name "sequence";
    String description "DNA sequences from July at 890m depth at SPOT";
    String long_name "July 890m DNA";
    String units "unitless";
  }
  July_890m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 7020;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from July at 890m depth at SPOT";
    String long_name "July 890m C DNA";
    String units "unitless";
  }
  Oct_DCM_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 22639;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Oct at the DCM at SPOT";
    String long_name "Oct DCM C DNA";
    String units "unitless";
  }
  Jan_890m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 12034;
    String bcodmo_name "sequence";
    String description "DNA sequences from Jan at 890m depth at SPOT";
    String long_name "Jan 890m DNA";
    String units "unitless";
  }
  Jan_890m_cDNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 39471;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Jan at 890m depth at SPOT";
    String long_name "Jan 890m C DNA";
    String units "unitless";
  }
  Oct_890m_DNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 32081;
    String bcodmo_name "sequence";
    String description "DNA sequences from Oct at 890m depth at SPOT";
    String long_name "Oct 890m DNA";
    String units "unitless";
  }
  Oct_890m_cDNA {
    Int32 _FillValue 2147483647;
    Int32 actual_range 0, 37061;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from Oct at 890m depth at SPOT";
    String long_name "Oct 890m C DNA";
    String units "unitless";
  }
  April_890m_cDNA {
    Int16 _FillValue 32767;
    Int16 actual_range 0, 3950;
    String bcodmo_name "sequence";
    String description "RNA(cDNA) sequences from April at 890m depth at SPOT";
    String long_name "April 890m C DNA";
    String units "unitless";
  }
  taxonomy {
    String bcodmo_name "taxon";
    String description "Full taxonomic description from SILVA v111 database";
    String long_name "Taxonomy";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"These data were published in Hu et al., 2016.
 
This dataset is a raw output\\u00a0operational taxonomic unit (OTU) table
generated by processing and clustering raw 18S rRNA gene tag sequences from
DNA and RNA. The numbers in each column represent the number of sequences from
that sample belonging to a given OTU (row), with the last column listing the
taxonomic ID assigned to each OTU.\\u00a0The raw sequence data can be found in
the NCBI SRA database under accession
number\\u00a0[SRP070577](\\\\\"https://www.ncbi.nlm.nih.gov/sra/SRP070577\\\\\")\\u00a0with
the
associated\\u00a0BioProject\\u00a0[PRJNA311248](\\\\\"https://www.ncbi.nlm.nih.gov//bioproject/PRJNA311248\\\\\").\\u00a0
Metadata for these sequences can be found in the dataset:  
 \\u201d18S rRNA gene tag sequences from DNA and RNA\\\": [https://www.bco-
dmo.org/dataset/745527](\\\\\"https://www.bco-dmo.org/dataset/745527\\\\\")
 
Nucleotide bases with a Q score lower than 20 for the last 30 bp of each
sequence were trimmed. Paired-end sequences were merged using FLASh (Magoc and
Salzberg 2011) with a minimum of 10 bp and maximum of 150 bp overlap between
each sequence pair. Sequences shorter than 350 bp, longer than 460 bp, or
which had an average quality score lower than 25 were discarded using QIIME
v1.8 (Caporaso et al. 2010). Chimeric sequences were identified and removed,
by either de novo or reference-based chimera checking (identify chimeric
seqs.py in QIIME, intersection method).\\u00a0
 
The code release v2 associated with this version of the dataset can be
downloaded as a .zip file from the Supplemental\\u00a0Documents section of this
page. Future code updates will be accessible from the GitHub
repository\\u00a0[https://github.com/shu251/V4_tagsequencing_18Sdiversity_q1](\\\\\"https://github.com/shu251/V4_tagsequencing_18Sdiversity_q1\\\\\").";
    String awards_0_award_nid "743048";
    String awards_0_award_number "OCE-1737409";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1737409";
    String awards_0_funder_name "NSF Division of Ocean Sciences";
    String awards_0_funding_acronym "NSF OCE";
    String awards_0_funding_source_nid "355";
    String awards_0_program_manager "David L. Garrison";
    String awards_0_program_manager_nid "50534";
    String cdm_data_type "Other";
    String comment 
"OTU table 
  PI: David Caron 
  Data Version 1: 2019-07-24";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_email "info@bco-dmo.org";
    String creator_name "BCO-DMO";
    String creator_type "institution";
    String creator_url "https://www.bco-dmo.org/";
    String data_source "extract_data_as_tsv version 2.3  19 Dec 2019";
    String dataset_current_state "Final and no updates";
    String date_created "2018-10-15T19:00:09Z";
    String date_modified "2020-03-06T17:42:26Z";
    String defaultDataQuery "&time<now";
    String doi "10.26008/1912/bco-dmo.748064.1";
    String history 
"2024-11-23T16:49:37Z (local files)
2024-11-23T16:49:37Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_748064.html";
    String infoUrl "https://www.bco-dmo.org/dataset/748064";
    String institution "BCO-DMO";
    String instruments_0_acronym "Niskin bottle";
    String instruments_0_dataset_instrument_nid "748072";
    String instruments_0_description "A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc.";
    String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/";
    String instruments_0_instrument_name "Niskin bottle";
    String instruments_0_instrument_nid "413";
    String instruments_1_acronym "CTD SBE 911plus";
    String instruments_1_dataset_instrument_nid "748073";
    String instruments_1_description "The Sea-Bird SBE 911plus is a type of CTD instrument package for continuous measurement of conductivity, temperature and pressure.  The SBE 911plus includes the SBE 9plus Underwater Unit and the SBE 11plus Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9plus and SBE 11plus is called a SBE 911plus.  The SBE 9plus uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3plus and SBE 4). The SBE 9plus CTD can be configured with up to eight auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorescence, light (PAR), light transmission, etc.). more information from Sea-Bird Electronics";
    String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/TOOL0058/";
    String instruments_1_instrument_name "CTD Sea-Bird SBE 911plus";
    String instruments_1_instrument_nid "591";
    String instruments_2_acronym "Automated Sequencer";
    String instruments_2_dataset_instrument_nid "748071";
    String instruments_2_description "General term for a laboratory instrument used for deciphering the order of bases in a strand of DNA. Sanger sequencers detect fluorescence from different dyes that are used to identify the A, C, G, and T extension reactions. Contemporary or Pyrosequencer methods are based on detecting the activity of DNA polymerase (a DNA synthesizing enzyme) with another chemoluminescent enzyme. Essentially, the method allows sequencing of a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step.";
    String instruments_2_instrument_name "Automated DNA Sequencer";
    String instruments_2_instrument_nid "649";
    String instruments_2_supplied_name "Illumina MiSeq";
    String keywords "150m, 890m, April_150m_cDNA, April_150m_DNA, April_5m_cDNA, April_5m_DNA, April_890m_cDNA, April_890m_DNA, April_CAT_cDNA, April_CAT_DNA, April_DCM_cDNA, April_DCM_DNA, April_POLA_cDNA, April_POLA_DNA, bco, bco-dmo, biological, cat, chemical, data, dataset, dcm, dmo, dna, erddap, Jan_150m_cDNA, Jan_150m_DNA, Jan_5m_cDNA, Jan_5m_DNA, Jan_890m_cDNA, Jan_890m_DNA, Jan_CAT_cDNA, Jan_CAT_DNA, Jan_DCM_cDNA, Jan_DCM_DNA, Jan_POLA_cDNA, Jan_POLA_DNA, July_150m_cDNA, July_150m_DNA, July_5m_cDNA, July_5m_DNA, July_890m_cDNA, July_890m_DNA, July_CAT_cDNA, July_CAT_DNA, July_DCM_cDNA, July_DCM_DNA, July_POLA_cDNA, July_POLA_DNA, management, oceanography, Oct_150m_cDNA, Oct_150m_DNA, Oct_5m_cDNA, Oct_5m_DNA, Oct_890m_cDNA, Oct_890m_DNA, Oct_CAT_cDNA, Oct_CAT_DNA, Oct_DCM_cDNA, Oct_DCM_DNA, Oct_POLA_cDNA, Oct_POLA_DNA, office, otu, OTU_ID, pola, preliminary, taxonomy";
    String license "https://www.bco-dmo.org/dataset/748064/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/748064";
    String param_mapping "{'748064': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/748064/parameters";
    String people_0_affiliation "University of Southern California";
    String people_0_affiliation_acronym "USC";
    String people_0_person_name "David Caron";
    String people_0_person_nid "50524";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "University of Southern California";
    String people_1_affiliation_acronym "USC";
    String people_1_person_name "Sarah K. Hu";
    String people_1_person_nid "745520";
    String people_1_role "Co-Principal Investigator";
    String people_1_role_type "originator";
    String people_2_affiliation "University of Southern California";
    String people_2_affiliation_acronym "USC";
    String people_2_person_name "Sarah K. Hu";
    String people_2_person_nid "745520";
    String people_2_role "Contact";
    String people_2_role_type "related";
    String people_3_affiliation "Woods Hole Oceanographic Institution";
    String people_3_affiliation_acronym "WHOI BCO-DMO";
    String people_3_person_name "Amber D. York";
    String people_3_person_nid "643627";
    String people_3_role "BCO-DMO Data Manager";
    String people_3_role_type "related";
    String project "SPOT";
    String projects_0_acronym "SPOT";
    String projects_0_description 
"Planktonic marine microbial communities consist of a diverse collection of bacteria, archaea, viruses, protists (phytoplankton and protozoa) and small animals (metazoan). Collectively, these species are responsible for virtually all marine pelagic primary production where they form the basis of food webs and carry out a large fraction of respiratory processes. Microbial interactions include the traditional role of predation, but recent research recognizes the importance of parasitism, symbiosis and viral infection. Characterizing the response of pelagic microbial communities and processes to environmental influences is fundamental to understanding and modeling carbon flow and energy utilization in the ocean, but very few studies have attempted to study all of these assemblages in the same study. This project is comprised of long-term (monthly) and short-term (daily) sampling at the San Pedro Ocean Time-series (SPOT) site. Analysis of the resulting datasets investigates co-occurrence patterns of microbial taxa (e.g. protist-virus and protist-prokaryote interactions, both positive and negative) indicating which species consistently co-occur and potentially interact, followed by examination gene expression to help define the underlying mechanisms. This study augments 20 years of baseline studies of microbial abundance, diversity, rates at the site, and will enable detection of low-frequency changes in composition and potential ecological interactions among microbes, and their responses to changing environmental forcing factors. These responses have important consequences for higher trophic levels and ocean-atmosphere feedbacks. The broader impacts of this project include training graduate and undergraduate students, providing local high school student with summer lab experiences, and PI presentations at local K-12 schools, museums, aquaria and informal learning centers in the region. Additionally, the PIs advise at the local, county and state level regarding coastal marine water quality.
This research project is unique in that it is a holistic study (including all microbes from viruses to small metazoa) of microbial species diversity and ecological activities, carried out at the SPOT site off the coast of southern California. In studying all microbes simultaneously, this work aims to identify important ecological interactions among microbial species, and identify the basis(es) for those interactions. This research involves (1) extensive analyses of prokaryote (archaean and bacterial) and eukaryote (protistan and micro-metazoan) diversity via the sequencing of marker genes, (2) studies of whole-community gene expression by eukaryotes and prokaryotes in order to identify key functional characteristics of microorganismal groups and the detection of active viral infections, and (3) metagenomic analysis of viruses and bacteria to aid interpretation of transcriptomic analyses using genome-encoded information. The project includes exploratory metatranscriptomic analysis of poorly-understood aphotic and hypoxic-zone protists, to examine their stratification, functions and hypothesized prokaryotic symbioses.";
    String projects_0_end_date "2021-07";
    String projects_0_geolocation "San Pedro Channel off the coast of Los Angeles";
    String projects_0_name "Protistan, prokaryotic, and viral processes at the San Pedro Ocean Time-series";
    String projects_0_project_nid "743049";
    String projects_0_start_date "2017-08";
    String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
    String publisher_type "institution";
    String sourceUrl "(local files)";
    String standard_name_vocabulary "CF Standard Name Table v55";
    String summary "This dataset is a raw output operational taxonomic unit (OTU) table generated by processing and clustering raw 18S rRNA gene tag sequences from extracted DNA and RNA. Columns represent samples, including month sampled, material (either extracted RNA or DNA), and depth (in meters); thus values in each column represent the number of sequences in that sample that belong to a given OTU (OTUs by row). Each row represents a single OTU. The last column lists the taxonomic identifier assigned to each OTU. The raw sequence data can be found in the NCBI SRA database under accession number SRP070577 with the associated BioProject PRJNA311248.";
    String title "[OTU table for 18S rRNA gene tag sequences from DNA and RNA] - Operational taxonomic unit (OTU) table for 18S rRNA gene tag sequences from DNA and RNA from samples collected in coastal California in 2013 and 2014 (Protistan, prokaryotic, and viral processes at the San Pedro Ocean Time-series)";
    String version "1";
    String xml_source "osprey2erddap.update_xml() v1.5";
  }
}

 

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Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP Data Access Protocol (DAP) and its selection constraints.

The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.

• (easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
• (easy) You can make a graph or map by using the dataset's Make A Graph form. It makes the URL for you.
• (not hard) You can bypass the forms and get the data or make a graph or map by generating the URL by hand or with a computer program or script.

Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names, followed by a collection of constraints (e.g., variable<value), each preceded by '&' (which is interpreted as "AND").

For details, see the tabledap Documentation.

 

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ERDDAP, Version 2.22
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