In Situ Ichthyoplankton Imaging System (ISIIS) classified taxa concentrations and environmental metadata for 3 transects from the Mobile Bay plume process study, R/V Point Sur cruise PS16-20 (PTS02), 2016-04-09 to 2016-04-11

Consortium for Oil Spill Exposure Pathways in Coastal River-Dominated Ecosystems (CONCORDE)

DOI:
10.7266/9211C8TM
 
UDI:
R4.x260.000:0127
Last Update:
Aug 06 2020 01:44 UTC
 
Dataset Author(s):
Axler, Kelia, Christian Briseño-Avena, Su Sponaugle, Frank Hernandez, Adam Greer, and Robert Cowen
Point of Contact:
Axler, Kelia
Oregon State University / Hatfield Marine Science Center
2030 SE Marine Science Dr
Newport, Oregon  97365
USA
axle0001@umn.edu
Funding Source:
RFP-IV
Data Collection Period:
2016-04-09 to 2016-04-11

Identified Submitted In-Review Available
3 3 3 3

Suggested Citation:

Axler, Kelia, Christian Briseño-Avena, Su Sponaugle, Frank Hernandez, Adam Greer, and Robert Cowen. 2020. In Situ Ichthyoplankton Imaging System (ISIIS) classified taxa concentrations and environmental metadata for 3 transects from the Mobile Bay plume process study, R/V Point Sur cruise PS16-20 (PTS02), 2016-04-09 to 2016-04-11. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/9211C8TM

Abstract:

These 1-m vertically binned concentration data were collected with the In Situ Ichthyoplankton Imaging System (ISIIS) to describe the distribution and concentration of organisms along a transect immediately downstream of the Mobile Bay plume. Data were collected from the R/V Point Sur cruise PS16-20 as part of the CONCORDE program to examine how variable river discharge affects larval fish fine-scale distributions and predator-prey spatial relationships. Larval fishes, their planktonic prey (calanoid copepods), and gelatinous planktonic predators (ctenophores, hydromedusae, and siphonophores) were sampled across multiple freshwater pulses exiting Mobile Bay in the northern Gulf of Mexico (USA) during a large freshwater discharge event (2016-04-09 - 2016-04-11). Sampling transect 023 was carried out during daylight (April 9, 2016 10:13-13:52 CDT), while transects 024 (April 9-10, 2016 21:27-02:11 CDT) and 026 (April 10-11, 2016 21:04-00:42 CDT) were conducted at night. A sparse Convolutional Neural Network (sCNN) automated classification of different organisms within the ISIIS images. The data include 1-m vertically binned concentrations for each listed plankton taxa along with corresponding average environmental data (temperature, salinity fluorescence, oxygen, PAR) and example images of the inventoried taxa. Due to its size, the entire library of images is not available but may be requested from the dataset author.

Purpose:

In situ imagery data and associated environmental metadata were collected during the CONCORDE Spring 2016 cruise to examine how variable freshwater discharge can affect fine-scale larval fish distributions and predator-prey spatial relationships.

Theme Keywords:

In situ imagery, River plume study, Fine-scale larval fish distributions, Predator-prey spatial relationships, In Situ Ichthyoplankton Imaging System (ISIIS), taxa classification, sparse Convolutional Neural Network (sCNN), river plume

File Format:

xlsx, jpg

Filename:

ISIIS_data.zip (2.42 MB)

Dataset Downloads:

0

In Situ Ichthyoplankton Imaging System (ISIIS) classified taxa concentrations and environmental metadata for 3 transects from the Mobile Bay plume process study, R/V Point Sur cruise PS16-20 (PTS02), 2016-04-09 to 2016-04-11



Identification Information
Distribution Information
Metadata Maintenance Information

Metadata: 
  File identifier: 
      R4.x260.000-0127-metadata.xml
  Language: 
      eng; USA
  Character set: 
    Character set code: 
      utf8
  Hierarchy level: 
    Scope code: 
      dataset
  Metadata author: 
    Responsible party: 
      Individual name: 
          Kelia Axler
      Organisation name: 
          Oregon State University / Hatfield Marine Science Center
      Position name: 
          Graduate Student
      Contact info: 
        Contact: 
          Phone: 
            Telephone: 
              Voice: 
                  5418670314
              Facsimile: 
          Address: 
            Address: 
              Delivery point: 
                  2030 SE Marine Science Dr
              City: 
                  Newport
              Administrative area: 
                  Oregon
              Postal code: 
                  97365
              Country: 
                  USA
              Electronic mail address: 
                  axle0001@umn.edu
      Role: 
        Role code: 
          pointOfContact
  Date stamp: 
      2021-09-30T19:43:00+00:00
  Metadata standard name: 
      ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
  Metadata standard version: 
      ISO 19115-2:2009(E)
  Dataset URI: 
      https://data.gulfresearchinitiative.org/metadata/R4.x260.000:0127
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Identification info: Data identification: Citation: Citation: Title: In Situ Ichthyoplankton Imaging System (ISIIS) classified taxa concentrations and environmental metadata for 3 transects from the Mobile Bay plume process study, R/V Point Sur cruise PS16-20 (PTS02), 2016-04-09 to 2016-04-11 Alternate title: Date: Date: Date: 2020-09-10 Date type: Date type code: publication Identifier: Identifier: Code: Anchor: xlink: https://dx.doi.org/10.7266/9211C8TM title: DOI doi:10.7266/9211C8TM Abstract: These 1-m vertically binned concentration data were collected with the In Situ Ichthyoplankton Imaging System (ISIIS) to describe the distribution and concentration of organisms along a transect immediately downstream of the Mobile Bay plume. Data were collected from the R/V Point Sur cruise PS16-20 as part of the CONCORDE program to examine how variable river discharge affects larval fish fine-scale distributions and predator-prey spatial relationships. Larval fishes, their planktonic prey (calanoid copepods), and gelatinous planktonic predators (ctenophores, hydromedusae, and siphonophores) were sampled across multiple freshwater pulses exiting Mobile Bay in the northern Gulf of Mexico (USA) during a large freshwater discharge event (2016-04-09 - 2016-04-11). Sampling transect 023 was carried out during daylight (April 9, 2016 10:13-13:52 CDT), while transects 024 (April 9-10, 2016 21:27-02:11 CDT) and 026 (April 10-11, 2016 21:04-00:42 CDT) were conducted at night. A sparse Convolutional Neural Network (sCNN) automated classification of different organisms within the ISIIS images. The data include 1-m vertically binned concentrations for each listed plankton taxa along with corresponding average environmental data (temperature, salinity fluorescence, oxygen, PAR) and example images of the inventoried taxa. Due to its size, the entire library of images is not available but may be requested from the dataset author. Purpose: In situ imagery data and associated environmental metadata were collected during the CONCORDE Spring 2016 cruise to examine how variable freshwater discharge can affect fine-scale larval fish distributions and predator-prey spatial relationships. Status: Progress code: completed Point of contact: Responsible party: Individual name: Kelia Axler Organisation name: Oregon State University / Hatfield Marine Science Center Position name: Graduate Student Contact info: Contact: Phone: Telephone: Voice: 5418670314 Facsimile: Address: Address: Delivery point: 2030 SE Marine Science Dr City: Newport Administrative area: Oregon Postal code: 97365 Country: USA Electronic mail address: axle0001@umn.edu Role: Role code: pointOfContact Point of contact: Responsible party: Individual name: Christian Briseno-Avena Organisation name: Oregon State University / Hatfield Marine Science Center Position name: Postdoctoral Researcher Contact info: Contact: Phone: Telephone: Voice: 5418670314 Facsimile: Address: Address: Delivery point: 2030 SE Marine Science Dr City: Newport Administrative area: Oregon Postal code: 97365 Country: USA Electronic mail address: brisenoc@oregonstate.edu Role: Role code: pointOfContact Descriptive keywords: Keywords: Keyword: In situ imagery Keyword: River plume study Keyword: Fine-scale larval fish distributions Keyword: Predator-prey spatial relationships Keyword: In Situ Ichthyoplankton Imaging System (ISIIS) Keyword: taxa classification Keyword: sparse Convolutional Neural Network (sCNN) Keyword: river plume Type: Keyword type code: theme Descriptive keywords: Keywords: Keyword: Mobile Bay Keyword: Gulf of Mexico Type: Keyword type code: place Resource constraints: title: Cite As Constraints: Use limitation: Axler, Kelia, Christian Briseño-Avena, Su Sponaugle, Frank Hernandez, Adam Greer, and Robert Cowen. 2020. In Situ Ichthyoplankton Imaging System (ISIIS) classified taxa concentrations and environmental metadata for 3 transects from the Mobile Bay plume process study, R/V Point Sur cruise PS16-20 (PTS02), 2016-04-09 to 2016-04-11. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/9211C8TM Resource constraints: title: CC0 License Legal constraints: Use constraints: Restriction code: licenceUnrestricted Other constraints: This information is released under the Creative Commons license - No Rights Reserved - CC0 1.0 Universal (https://creativecommons.org/publicdomain/zero/1.0/). The person who associated a work with this deed has dedicated the work to the public domain by waiving all of his or her rights to the work worldwide under copyright law, including all related and neighboring rights, to the extent allowed by law. You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission. Resource constraints: title: Liability and Warranty Legal constraints: Other constraints: All materials on this website are made available to GRIIDC and in turn to you "as-is." Content may only be submitted by an individual who represents and warrants that s/he has sufficient rights to be able to make the content available under a CC0 waiver. There is no warranty (expressed or implied) to these materials, their title, accuracy, non-infringement of third party rights, or fitness for any particular purpose, including the performance or results you may obtain from their use. Use these materials at your own risk. Under no circumstances shall GRIIDC be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use or the inability to use either this website or the materials available via this website. If you are dissatisfied with any website feature, content, or terms of use, your sole and exclusive remedy is to discontinue use. Language: eng; USA Topic category: Topic category code: oceans Topic category: Topic category code: environment Extent: Extent: Geographic element: Geographic bounding box: West bound longitude: -88.18946 East bound longitude: -87.90408 South bound latitude: 30.0874 North bound latitude: 30.1921 Geographic element: BoundingPolygon: Polygon: gml:Curve: gml:segments: gml:LineStringSegment: gml:posList: 30.1921 -88.18946 30.17687 -88.1801 30.16156 -88.16999 30.1585 -88.1675 30.14449 -88.15491 30.14155 -88.15176 30.13658 -88.14703 30.13452 -88.14446 30.12004 -88.12828 30.11051 -88.11624 30.10936 -88.11438 30.09951 -88.10014 30.0967 -88.09508 30.09531 -88.09185 30.0948 -88.09029 30.08821 -88.06185 30.0874 -88.05636 30.08742 -88.05428 30.0877 -88.0514 30.09011 -88.04241 30.09279 -88.03389 30.09661 -88.02075 30.11069 -87.9873 30.1161 -87.97357 30.123 -87.95746 30.1291 -87.94212 30.13179 -87.93486 30.14441 -87.90408 Temporal element: Temporal extent: Extent: Time period: Description: ground condition Begin date: 2016-04-09 End date: 2016-04-11 Supplemental Information: The concentration data are contained in four worksheets. The first contains an explanation of parameters for each transect. Each of the remaining worksheets details the concentrations for one of the three transects. Parameters are:
          
TIME_START (CDT, [Matlab format]), TIME_STOP (CDT, [Matlab format]), BIN_MIDDEPTH_M [m], LATITUDE_DEG [decimal degrees N], LONGITUDE_DEG [decimal degrees E], TEMPERATURE_DEG_C [degrees C], SALINITY, FLUORESCENCE_VOLTS [V], PAR_UE_PER_M2 [uE/m^2], O2_mg_PER_L [mg/L], DENSITY_Sigma (sigma, [kg/m^3]), and observed taxa concentrations [individuals/m^3]: fish, Engraulidae, Gobiidae, Microdesmidae, Ophidiidae, Unknown, Plueronectiformes, Scorpaenidae, Sciaenidae, Calanoid copepods, Ctenophores, Hydromedusae, and Siphonophores.|Images of fish larvae and zooplankton were captured using the ISIIS, a towed shadowgraph imager that uses a line-scan camera to sample large volumes of water (150-185 L s-1). Two cameras imaged zooplankton between approximately 500 µm and 12 cm in length while simultaneously measuring salinity, temperature, and depth (Sea-Bird Electronics 49 FastCAT), dissolved oxygen (SBE 43), Chl-a fluorescence (Wet Labs FLRT), and photosynthetically active radiation (PAR; Biospherical QCP-2300). The images and oceanographic data are linked by a common timestamp, which enables a detailed description of the physical environment for each individual organism. A sparse Convolutional Neural Network (sCNN) was used to automate the identification of imaged taxa following Luo et al. (2018). Although 89 different classes of plankton taxa in the CONCORDE data and 693 million images were automatically identified from the three plume transects in our study, only key taxa that were deemed to be ecologically important predators or prey are presented in this data set. Plankton was combined into higher taxonomic groupings to enable the comparison of fish larvae with their prey (calanoid copepods) and predator groups (ctenophores, hydromedusae, and siphonophores). Images of larval fishes from each transect were extracted by the sCNN using the same automated methodology as the zooplankton imagery. However, automatically classified larval fishes were manually reviewed by a human expert to verify correct identifications and to achieve lower taxonomic classifications than the sCNN was trained to do. Taxa concentrations [ind. m^-3] were calculated by using the volume of water imaged, average tow speed, and time spent in each 1-m vertical bin. The length of each horizontal bin was roughly similar but varied slightly (<10s m) depending on the tow speed of the ISIIS vehicle and time spent in each 1-m vertical stratum.|Sea-bird Electronics SBE 43, Sea-bird Electronics 49 FastCAT, Biospherical QCP-2300, Wet Labs FLRT.|||
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Distribution info: Distribution: Distributor: Distributor: Distributor contact: Responsible party: Organisation name: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC) Contact info: Contact: Phone: Telephone: Voice: 3618253604 Address: Address: Delivery point: 6300 Ocean Drive City: Corpus Christi Administrative area: TX Postal code: 78412 Country: USA Electronic mail address: griidc@gomri.org Online Resource: Online Resource: Linkage: URL: https://data.gulfresearchinitiative.org Role: Role code: distributor Distributor format: Format: Name: xlsx, jpg Version: inapplicable File decompression technique: zip Distributor transfer options: Digital transfer options: Transfer size: 2.4212 Online: Online Resource: Linkage: URL: https://data.gulfresearchinitiative.org/data/R4.x260.000:0127 Protocol: https Name: Data Landing Page Description: GRIIDC dataset landing page Function: Online function code: information
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Metadata maintenance: Maintenance information: Maintenance and update frequency: unknown Maintenance note: This ISO metadata record was automatically generated from information provided to GRIIDC for dataset: R4.x260.000:0127 on 2021-11-29T15:57:34-06:00
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