Accessing BCO-DMO data
log in    
Brought to you by BCO-DMO    

ERDDAP > tabledap > Data Access Form ?

Dataset Title:  Sex ratio and GSI data for M. beryllina collected offshore of Pt. Lobos,
California from 2009 to 2010.
Subscribe RSS
Institution:  BCO-DMO   (Dataset ID: bcodmo_dataset_712919)
Information:  Summary ? | License ? | ISO 19115 | Metadata | Background (external link) | Subset | Files | Make a graph
Variable ?   Optional
Constraint #1 ?
Constraint #2 ?
   Minimum ?
   or a List of Values ?
   Maximum ?
 Investigator (unitless) ?      
   - +  ?
 Site (unitless) ?          "DV"    "SUI"
 Date (unitless) ?          "2009/03/20"    "2010/08/20"
 MeanGSI (count) ?          0.6    14.4
 Fs (count) ?          0    10
 Ms (count) ?          0    25
 Total (count) ?          1    26
Server-side Functions ?
 distinct() ?
? ("Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.")

File type: (more info)

(Documentation / Bypass this form ? )
(Please be patient. It may take a while to get the data.)


The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  Investigator {
    String bcodmo_name "person";
    String description "Investigator that collected these data";
    String long_name "Investigator";
    String units "unitless";
  Site {
    String bcodmo_name "site";
    String description "Site where data were collected";
    String long_name "Site";
    String units "unitless";
  Date {
    String bcodmo_name "date";
    String description "Date of data collection; YYYY/MM/DD";
    String long_name "Date";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/";
    String source_name "Date";
    String time_precision "1970-01-01";
    String units "unitless";
  MeanGSI {
    Float32 _FillValue NaN;
    Float32 actual_range 0.6, 14.4;
    String bcodmo_name "mean";
    String description "Mean gonadosomatic index of females";
    String long_name "Mean GSI";
    String units "count";
  Fs {
    Byte _FillValue 127;
    Byte actual_range 0, 10;
    String bcodmo_name "count";
    String description "Number of females in sample";
    String long_name "FS";
    String units "count";
  Ms {
    Byte _FillValue 127;
    Byte actual_range 0, 25;
    String bcodmo_name "count";
    String description "Number of males in sample";
    String long_name "MS";
    String units "count";
  Total {
    Byte _FillValue 127;
    Byte actual_range 1, 26;
    String bcodmo_name "count";
    String description "Total number of adult M. beryllina collected";
    String long_name "Total";
    String units "count";
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"Methodology from: Brander et al., 2013
Fish Collecting and Processing
Fish were collected monthly from the urban and ranch beaches from March
through October of 2009 and 2010, as previously described. All research was
done in accordance with the University of California, Davis Institutional
Animal Care and Use Committee (IACUC), under approved protocol #13353.
Captured fish were kept in a cooler with aeration and transported back to the
UC Davis Bodega Marine Lab, Bodega Bay, CA, for processing. During the 2009
sampling season approximately 20 fish from each site were kept alive and held
in aquaria at 5\\u201310 ppt salinity for 4\\u20135 months to serve as depurated
controls for gene expression analyses. The remaining fish were anesthetized in
accordance with IACUC protocol #13353, sacrificed, and livers were immediately
removed and snap-frozen on liquid nitrogen for RNA extraction. Gonads were
removed, weighed, and fixed for 24 hours in Davidson\\u2019s
solution\\u00a0followed by storage in phosphate buffered 10% formalin. Fish
length and sex were recorded prior to and following dissection, respectively.
Fish mass was measured after gonad removal and used in addition to gonad mass
to obtain a total mass for gonadosomatic index (GSI) calculation (GSI = gonad
mass/total mass). Sagittal otoliths were extracted, mounted on slides,
photographed, and growth increments were counted and measured based on
previously described methods.
Length, Sex Ratio,\\u00a0GSI
Because fish length, sex ratio, and GSI were expected to vary over the
sampling period, we tested for differences among sites in those variables
while including year and Julian date as covariates in a linear model (length)
or logistic regression (sex ratio and GSI). Because no females were seined
from the urban beach after July in either 2009 or 2010, GSI analysis was ended
at that time point.";
    String awards_0_award_nid "542383";
    String awards_0_award_number "OCE-1435473";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward?AWD_ID=1435473";
    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 
"Raw pattern summary data 
  Collected by Susanne Brander 
  J. W. White and S. Brander, PIs 
  Version 4 August 2017";
    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 date_created "2017-08-16T21:11:08Z";
    String date_modified "2019-03-20T14:59:40Z";
    String defaultDataQuery "&time<now";
    String doi "10.1575/1912/bco-dmo.712919.1";
    String history 
"2022-10-07T14:59:43Z (local files)
2022-10-07T14:59:43Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_712919.html";
    String infoUrl "https://www.bco-dmo.org/dataset/712919";
    String institution "BCO-DMO";
    String instruments_0_acronym "Purse-seine";
    String instruments_0_dataset_instrument_description "Used to collect samples";
    String instruments_0_dataset_instrument_nid "713186";
    String instruments_0_description "A purse seine is a large wall of netting deployed in a circle around an entire school of fish. The seine has floats along the top line with a lead line of chain along the bottom. Once a school of fish is located, a skiff pulls the seine into the water as the vessel encircles the school with the net. A cable running along the bottom is then pulled in, \"pursing\" the net closed on the bottom, preventing fish from escaping by swimming downward. The catch is harvested by bringing the net alongside the vessel and brailing the fish aboard.";
    String instruments_0_instrument_name "Purse-seine Fishing Gear";
    String instruments_0_instrument_nid "675173";
    String instruments_0_supplied_name "Beach seine";
    String keywords "bco, bco-dmo, biological, chemical, data, dataset, date, dmo, erddap, gsi, investigator, management, mean, MeanGSI, oceanography, office, preliminary, site, time, total";
    String license "https://www.bco-dmo.org/dataset/712919/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/712919";
    String param_mapping "{'712919': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/712919/parameters";
    String people_0_affiliation "University of North Carolina - Wilmington";
    String people_0_affiliation_acronym "UNC-Wilmington";
    String people_0_person_name "J Wilson White";
    String people_0_person_nid "516429";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "University of North Carolina - Wilmington";
    String people_1_affiliation_acronym "UNC-Wilmington";
    String people_1_person_name "Dr Susanne Brander";
    String people_1_person_nid "712930";
    String people_1_role "Co-Principal Investigator";
    String people_1_role_type "originator";
    String people_2_affiliation "University of North Carolina - Wilmington";
    String people_2_affiliation_acronym "UNC-Wilmington";
    String people_2_person_name "J Wilson White";
    String people_2_person_nid "516429";
    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 "Hannah Ake";
    String people_3_person_nid "650173";
    String people_3_role "BCO-DMO Data Manager";
    String people_3_role_type "related";
    String project "Goby size-selection";
    String projects_0_acronym "Goby size-selection";
    String projects_0_description 
"Description from NSF award abstract:
Many marine fish species change sex during their lifetimes, and many of them are targets of commercial and recreational fishing. The timing of sex change in these animals is often related to body size, so populations typically consist of many small fish of the initial sex (usually female) and few large fish of the other sex (usually male). In nature, smaller fish are at a greater risk of mortality due to predation, but fishermen tend to seek larger fish. Thus fishing that targets larger individuals may skew sex ratios, removing enough of the larger sex to hinder reproduction. However, the extent to which size-selective mortality affects sex-changing fishes is poorly understood. This research will explore the effects of size-selective mortality on the population dynamics of sex-changing species using an integrated set of field experiments and mathematical models. It will provide the first experimental exploration of the sensitivity of different sex-change patterns and reproductive strategies to selective mortality. The results will advance our knowledge of the susceptibility and resilience of sex-changing organisms to different types of size-selective mortality and will reveal how sex-changing species can recover after size-selection ceases, as in populations within marine reserves where fishing is suddenly prohibited. The findings will inform fisheries management policies, which do not currently consider the ability of a species to change sex in setting fisheries regulations.
This project will consist of a three-year study of the effects of size-specific mortality on sex-changing fishes. Field experiments will use three closely related rocky-reef fishes that differ in sex-change pattern and are amenable to field manipulation and direct measurement of reproductive output. The species include a protogynous hermaphrodite (a female-to-male sex-change pattern common among harvested species) and two simultaneous hermaphrodites that differ in their ability to switch between male and female. Two types of experiments will be conducted on populations established on replicate patch reefs at Santa Catalina Island, California: (1) sex ratios will be manipulated to determine when the scarcity of males limits population-level reproductive output; and (2) experiments cross-factoring the intensity of mortality with the form of size-selection (i.e., higher mortality of large or small individuals) will test the demographic consequences of size-selective mortality. In concert with the field experiments, size- and sex-structured population models (integral projection models) will be developed for use in three ways: (1) to evaluate how different types of selective mortality should affect population dynamics; (2) to predict outcomes of the field experiments, testing/validating the model and allowing direct prediction of the ecological significance of short-term selection; and (3) to fit to existing survey data for a fourth species, a widely fished, sex-changing fish, inside and outside of marine reserves. Part (3) will evaluate whether and how quickly the mating system and reproductive output of that species (not directly measurable in the field) is recovering inside reserves. This integrated set of field experiments and models will yield novel insight into the effects of size-selective mortality on the population dynamics of sex-changing marine species.";
    String projects_0_end_date "2018-02";
    String projects_0_geolocation "Southern California, Santa Catalina Island";
    String projects_0_name "Impacts of size-selective mortality on sex-changing fishes";
    String projects_0_project_nid "516431";
    String projects_0_start_date "2015-03";
    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 subsetVariables "Investigator";
    String summary "Sex ratio and GSI data for M. beryllina collected offshore of Pt. Lobos, California from 2009 to 2010.";
    String title "Sex ratio and GSI data for M. beryllina collected offshore of Pt. Lobos, California from 2009 to 2010.";
    String version "1";
    String xml_source "osprey2erddap.update_xml() v1.3";


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 (external link) Data Access Protocol (DAP) (external link) and its selection constraints (external link).

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.

Tabledap request URLs must be in the form
For example,
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.

ERDDAP, Version 2.02
Disclaimers | Privacy Policy | Contact