Hydroids--Santa Barbara Channel, California

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Metadata:


Identification_Information:
Citation:
Citation_Information:
Originator: Lisa M. Krigsman
Originator: Mary M. Yoklavich
Originator: Guy R. Cochrane
Originator: Nadine E. Golden
Publication_Date: 2013
Title: Hydroids--Santa Barbara Channel, California
Edition: Version 1.0, 2012
Geospatial_Data_Presentation_Form: GeoTIFF
Larger_Work_Citation:
Citation_Information:
Originator: Lisa M. Krigsman
Originator: Mary M. Yoklavich
Originator: Guy R. Cochrane
Originator: Nadine E. Golden
Publication_Date: 2013
Title: California State Waters Map Series Data Catalog
Geospatial_Data_Presentation_Form: database
Series_Information:
Series_Name: Data Series
Issue_Identification: DS 781
Publication_Information:
Publication_Place: Reston, VA
Publisher: U.S. Geological Survey
Online_Linkage: <https://pubs.usgs.gov/ds/781/>
Larger_Work_Citation:
Citation_Information:
Originator: Samuel Y. Johnson
Originator: Peter Dartnell

Originator: Guy R. Cochrane
Originator: Nadine E. Golden
Originator: Eleyne L. Phillips
Originator: Andrew C. Ritchie
Originator: Rikk G. Kvitek
Originator: H. Gary Greene
Originator: Lisa M. Krigsman
Originator: Charles A. Endris
Originator: Kevin B. Clahan
Originator: Ray W. Sliter
Originator: Florence L. Wong
Originator: Mary M. Yoklavich
Originator: William R. Normark
Publication_Date: 2013
Title:
California State Waters Map Series--Hueneme Canyon and vicinity, California
Geospatial_Data_Presentation_Form: map
Series_Information:
Series_Name: Scientific Investigations Map
Issue_Identification: SIM 3225
Publication_Information:
Publication_Place: Reston, VA
Publisher: U.S. Geological Survey
Online_Linkage: <https://pubs.usgs.gov/sim/3225/>

Description:
Abstract:
This part of DS 781 presents data for the map showing the predicted distribution of hydroids in the Santa Barbara Channel, California, region. The raster data file is included in "Hydroids_SantaBarbaraChannel.zip," which is accessible from <https://pubs.usgs.gov/ds/781/SantaBarbaraChannel/data_catalog_SantaBarbaraChannel.html>. This map showing the predicted distribution of hydroids in the Santa Barbara Channel is published in Scientific Investigations Map 3225, "California State Waters Map Series--Hueneme Canyon and Vicinity, California" (see sheet 12). In addition, this predicted distribution map will be published in four future California State Waters Map Series SIMs of the region (namely, the Offshore of Ventura, Offshore of Santa Barbara, Offshore of Coal Oil Point, and Offshore of Refugio Beach map areas) [note that, at the time of this writing, one of the other four SIMs has been published: the Offshore of Ventura map area (SIM 3254)].
Presence-absence data of benthic macro-invertebrates and associated habitat (that is, sediment type and depth) were collected using a towed camera sled in selected areas along the coast off southern California during a ground-truth observation cruise conducted by the U.S. Geological Survey and NOAA National Marine Fisheries Service for the California Seafloor Mapping Program. Benthic community structure was determined from 35 video towed-camera
transects within California's State Waters 3-nautical-mile limit in the Santa Barbara Channel. These transects produced a total of 923 10-second observations from the Offshore of Refugio Beach map area (34.5 degrees N., 120.1 degrees W.) to the Hueneme Canyon and vicinity map area (34.1 degrees N., 119.2 degrees W.). Presence-absence data were collected for 29 benthic, structure-forming nonmobile taxa. Using this information, generalized linear models (GLMs) were developed to predict the probability of occurrence of five commonly observed taxa (cup corals, hydroids, short and tall sea pens, and brittle stars in the sediment) in five map areas within the Santa Barbara Channel (SBC). A sixth map area (Offshore of Carpinteria) was not modeled owing to insufficient data.
The analysis demonstrates that the community structure for the five map areas can be divided into three statistically distinct groups: (1) the Hueneme Canyon and vicinity and the Offshore of Ventura map areas; (2) the Offshore of Santa Barbara and the Offshore of Coal Oil Point map areas; and (3) the Offshore of Refugio Beach map area. These three distinct groups are the main reason that the probability for each taxa can be so dramatically different within one predictive-distribution map area. The five most frequently observed benthic macro-invertebrate taxa were selected for the these predictive-distribution grids. Presence-absence data for each selected invertebrate were fit to specific generalized linear models using geographic location, depth, and seafloor character as covariates. Data for the covariates were informed by the data presented in sheet 2 (shaded-relief bathymetry), sheet 5 (seafloor-character map), and sheet 6 (ground-truth studies) of the five SIM publications of the Santa Barbara Channel region that are part of the California State Waters Map Series.
Observations based on depth were limited by the capability of the towed camera sled; as a result, no predictions were made below depths of 150 m (in other words, on the continental slope or in Hueneme Canyon). Cup corals and hydroids had high predicted probabilities of occurrence in areas of hard substrata, whereas short and tall sea pens were predicted to occur in parts of the SBC that had unconsolidated and mixed sediment. Our model predicted that brittle stars would occur throughout the entire SBC on various bottom types.
Purpose:
These data are intended for science researchers, students, policy makers, and the general public. The data can be used with geographic information systems (GIS) software to display oceanographic information.
Supplemental_Information:
Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government.
Although this Federal Geographic Data Committee-compliant metadata file is intended to document the data set in nonproprietary form, as well as in ArcInfo format, this metadata file may include some ArcInfo-specific terminology.
Time_Period_of_Content:
Time_Period_Information:
Range_of_Dates/Times:
Beginning_Date: 2005
Ending_Date: 2009
Currentness_Reference: ground condition

Status:
Progress: Complete
Maintenance_and_Update_Frequency: As needed

Spatial_Domain:
Bounding_Coordinates:
West_Bounding_Coordinate: -119.643628
East_Bounding_Coordinate: -119.471725
North_Bounding_Coordinate: 34.390598
South_Bounding_Coordinate: 34.320467

Keywords:
Place:
Place_Keyword_Thesaurus: Geographic Names Information System (GNIS)
Place_Keyword: Pacific Ocean
Place_Keyword: California
Place_Keyword: Santa Barbara Channel
Place_Keyword: Hueneme Canyon
Place_Keyword: Ventura
Place_Keyword: Santa Barbara
Place_Keyword: Coal Oil Point
Place_Keyword: Refugio Beach

Theme:
Theme_Keyword_Thesaurus: Global Change Master Directory (GCMD)
Theme_Keyword: Earth Science > Biosphere > Aquatic Ecosystems > Marine Habitat

Theme:
Theme_Keyword_Thesaurus: ISO 19115 Topic Category
Theme_Keyword: biota
Theme_Keyword: oceans

Theme:
Theme_Keyword_Thesaurus: General
Theme_Keyword: biological prediction
Theme_Keyword: fisheries
Theme_Keyword: ecosystem
Theme_Keyword: U.S. Geological Survey
Theme_Keyword: USGS
Theme_Keyword: Coastal and Marine Geology Program
Theme_Keyword: CMGP

Access_Constraints: None

Use_Constraints:
This information is not intended for navigational purposes.
Read and fully comprehend the metadata prior to data use. Uses of these data should not violate the spatial resolution of the data. Where these data are used in combination with other data of different resolution, the resolution of the combined output will be limited by the lowest resolution of all the data.
Acknowledge the U.S. Geological Survey in products derived from these data. Share data products developed using these data with the U.S. Geological Survey.
This database has been approved for release and publication by the Director of the USGS. Although this database has been subjected to rigorous review and is substantially complete, the USGS reserves the right to revise the data pursuant to further analysis and review. Furthermore, it is released on condition that neither the USGS nor the United States Government may be held liable for any damages resulting from its authorized or unauthorized use.
Although this Federal Geographic Data Committee-compliant metadata file is intended to document these data in nonproprietary form, as well as in ArcInfo format, this metadata file may include some ArcInfo-specific terminology.
Point_of_Contact:
Contact_Information:
Contact_Person_Primary:
Contact_Person: Lisa M. Krigsman
Contact_Organization:
NOAA National Marine Fisheries Service, Southwest Fisheries Science Center
Contact_Position: Biologist
Contact_Address:
Address_Type: mailing and physical address
Address:
NOAA National Marine Fisheries Service, Southwest Fisheries Science Center
City: Santa Cruz
State_or_Province: CA
Postal_Code: 95060
Country: USA
Contact_Voice_Telephone: (831) 420-3971
Contact_Facsimile_Telephone: (831) 420-3977
Contact_Electronic_Mail_Address: lisa.krigsman@noaa.gov

Data_Set_Credit:
The authors would like to thank E.J. Dick (Fisheries Ecology Division, Southwest Fisheries Science Center, Santa Cruz, CA). He was a critical partner in the development of the predictive models used in this study.
Native_Data_Set_Environment:
Microsoft Windows XP Version 5.1 (Build 2600) Service Pack 3 ESRI ArcCatalog 9.3.1.3500

Data_Quality_Information:
Attribute_Accuracy:
Attribute_Accuracy_Report: Pixel resolution 2 m.
Logical_Consistency_Report: Logical Consistency untested.

Completeness_Report:
Please see SIM pamphlet, chapter 5, for information about omissions, selection criteria, generalization, definitions used, and other rules used to derive the data set.
Positional_Accuracy:
Horizontal_Positional_Accuracy:
Horizontal_Positional_Accuracy_Report: On the order of 10 meters.

Lineage:
Process_Step:
Process_Description:
The seafloor-character map, GLMs, and the Marine Geospatial Ecology Tool (MGET; <http://mgel.env.duke.edu>) in ArcGIS were used to develop predictive-probability maps of occurrence per 12 sq m of seafloor for selected invertebrate taxa. The 12 sq m area was calculated by multiplying the average width of the video images by the average distance covered during the 10-second samples. The seafloor-character map provided the habitat class data.

  Hydroids
  taxa~Depth+I(Depth^2)+ Class+Block+Depth:Block # Depth+ Depth^2+Class+Block+Depth:Block tryCatch(taxa33.glm <- glm(taxa~Depth+I(Depth^2)+
  Class+Block+Depth:Block, family=binomial(link="logit"), data=taxa.df),
          warning = function(x) { output.df[33,"flag"] <<- 1 },
          finally = taxa33.glm <- glm(taxa~Depth+I(Depth^2)+
  Class+Block+Depth:Block, family=binomial(link="logit"), data=taxa.df)
          )
  summary(taxa33.glm)

  MODEL SUMMARY:
  ==============

  Call:
  glm(formula = hydroid ~ Depth + I(Depth^2) + factor(Class) + factor(Block) + Depth:factor(Block), family = binomial(link="logit"), data = na.omit(d))

  Deviance Residuals:
      Min       1Q   Median       3Q      Max
  -2.3139  -0.5898  -0.3904  -0.0679   3.0037

  Coefficients:
                         Estimate Std. Error z value Pr(>|z|)
  (Intercept)          -8.4997924  1.5209153  -5.589 2.29e-08 ***
  Depth                 0.1327309  0.0282624   4.696 2.65e-06 ***
  I(Depth^2)           -0.0005203  0.0001674  -3.108  0.00188 **
  factor(Class)2        3.1719054  0.2897839  10.946  < 2e-16 ***
  factor(Class)3        3.8009031  0.5451951   6.972 3.13e-12 ***
  factor(Block)2        1.5962789  1.4989529   1.065  0.28691
  factor(Block)3        5.7171958  1.4296933   3.999 6.36e-05 ***
  Depth:factor(Block)2 -0.0310252  0.0195242  -1.589  0.11205
  Depth:factor(Block)3 -0.0515432  0.0197311  -2.612  0.00899 **
  ---
  Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1

  (Dispersion parameter for binomial family taken to be 1)

      Null deviance: 1016.09  on 922  degrees of freedom
  Residual deviance:  632.84  on 914  degrees of freedom
  AIC: 650.84

  Number of Fisher Scoring iterations: 6

  Analysis of Deviance Table

  Model: binomial, link: logit

  Response: hydroid

  Terms added sequentially (first to last)


                       Df Deviance Resid. Df Resid. Dev
  NULL                                   922    1016.09
  Depth                 1    57.68       921     958.41
  I(Depth^2)            1     1.50       920     956.92
  factor(Class)         2   223.61       918     733.31
  factor(Block)         2    91.52       916     641.78
  Depth:factor(Block)   2     8.95       914     632.84
resampled to 10 meters.
Krigsman, L.M., M.M. Yoklavich, E.J. Dick, and G.R. Cochrane (2012) Models and maps: predicting the distribution of corals and other benthic macro-invertebrates in shelf habitats. Ecosphere 3:1-16.
Process_Date: 2010


Spatial_Data_Organization_Information:
Direct_Spatial_Reference_Method: Raster
Raster_Object_Information:
Raster_Object_Type: Pixel
Row_Count: 23905
Column_Count: 47950

Vertical_Count: 1

Spatial_Reference_Information:
Horizontal_Coordinate_System_Definition:
Planar:
Map_Projection:
Map_Projection_Name: WGS 1984 UTM Zone 11N
Transverse_Mercator:
Scale_Factor_at_Central_Meridian: 0.9996
Longitude_of_Central_Meridian: -117.0
Latitude_of_Projection_Origin: 0.0
False_Easting: 500000.0
False_Northing: 0.0
Planar_Coordinate_Information:
Planar_Coordinate_Encoding_Method: coordinate pair
Coordinate_Representation:
Abscissa_Resolution: 0.000000002220024164500956
Ordinate_Resolution: 0.000000002220024164500956
Planar_Distance_Units: Meter
Geodetic_Model:
Horizontal_Datum_Name: D WGS 1984
Ellipsoid_Name: WGS 1984
Semi-major_Axis: 6378137.0
Denominator_of_Flattening_Ratio: 298.257223563


Entity_and_Attribute_Information:
Detailed_Description:
Entity_Type:
Entity_Type_Label: hydroids
Entity_Type_Definition:
The raster attributes include VALUE - code for the Predicted-Distribution of Hydroids for Santa Barbara Channel Region and COUNT - number of pixels.
Entity_Type_Definition_Source: ESRI
Attribute:
Attribute_Label: Rowid
Attribute_Definition: Internal feature number.
Attribute_Definition_Source: ESRI
Attribute_Domain_Values:
Unrepresentable_Domain:
Sequential unique whole numbers that are automatically generated.
Attribute:
Attribute_Label: VALUE
Attribute_Definition:
VALUE - code for the Predicted-Distribution of Hydroids for Santa Barbara Channel Region
Attribute_Definition_Source: USGS
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: 2.22045e-016
Range_Domain_Maximum: .705603
Attribute:
Attribute_Label: COUNT
Attribute_Definition:
The number of pixels (2 m x 2 m size grid cell) represented in each probability raster (see Attribute: VALUE).
Attribute_Definition_Source: ESRI
Attribute_Domain_Values:
Unrepresentable_Domain:
Sequential unique whole numbers that are automatically generated.

Metadata_Reference_Information:
Metadata_Date: 2013
Metadata_Contact:
Contact_Information:
Contact_Organization_Primary:
Contact_Organization:
NOAA National Marine Fisheries Service, Southwest Fisheries Science Center
Contact_Person: Lisa M. Krigsman
Contact_Position: Biologist
Contact_Address:
Address_Type: mailing and physical address
Address:
NOAA National Marine Fisheries Service, Southwest Fisheries Science Center
City: Santa Cruz
State_or_Province: CA
Postal_Code: 95060
Country: USA
Contact_Voice_Telephone: (831) 420-3971
Contact_Facsimile_Telephone: (831) 420-3977
Contact_Electronic_Mail_Address: lisa.krigsman@noaa.gov
Metadata_Standard_Name: FGDC Content Standards for Digital Geospatial Metadata
Metadata_Standard_Version: FGDC-STD-001-1998

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