Processing Steps |
- Parameter or Variable: Average pH that Tanner crab was held at for 602 days before their hemolymph was removed and anlayzed for immune response.; Abbreviation: Average pH; Controlled vocabulary name: None; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Manipulation condition; Measured or calculated: calculated average; Analyzing instrument: a Durafet II or III pH probe; Detailed sampling and analyzing information: This is the average pH that each crab was exposed to for 602 days. The original pH, alkalinity, DIC values can be found in the data set by Lead PI Robert Foy entitled Effects of Ocean Acidification on Federally Managed Crab Species in Alaska; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Raw data with the probe SNARF-5F used to stain the Semi-granular+ granular cell and give FL2-H fluorenced that is used to calculate internal cell pH; Abbreviation: Raw data SNARF-5F SGC+GC FL2-H to calculate internal cell pH; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Detailed sampling and analyzing information: The mean FL-2 H(580 nm) wavelenght was determined using the software for the semi-granular + ganular cells. The scale for the x and y axis was in the log. Detailed information about how the data is collected and analyzed can be found at the method referenced below.; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Raw data with the probe SNARF-5F used to stain the Semi-granular+ granular cell and give FL3-H fluorenced that is used to calculate internal cell pH; Abbreviation: Raw data SNARF-5F SNARF-5F SGC+GC FL3-H used to calculate internal pH; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Detailed sampling and analyzing information: The mean FL-3 H(630 nm) wavelenght was determined using the software for the semi-granular + ganular cells. The scale for the x and y axis was in the log. Detailed information about how the data is collected and analyzed can be found at the method referenced below.; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Raw data with the probe SNARF-5F used to stain the halinocyte cell and give FL2-H fluorenced that is used to calculate internal cell pH; Abbreviation: Raw data SNARF-5F HC FL2-H to calculate internal cell pH; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Detailed sampling and analyzing information: The mean FL-2 H(580 nm) wavelenght was determined using the software for the halinocytes cells. The scale for the x and y axis was in the log. Detailed information about how the data is collected and analyzed can be found at the method referenced below.; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Raw data with the probe SNARF-5F used to stain the halinocyte cell and give FL3-H fluorenced that is used to calculate internal cell pH; Abbreviation: Raw data SNARF-5F SNARF-5F HC FL3-H used to calculate internal pH; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Detailed sampling and analyzing information: The mean FL-3 H(630 nm) wavelenght was determined using the software for the semi-granular + ganular cells. The scale for the x and y axis was in the log. Detailed information about how the data is collected and analyzed can be found at the method refer; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Calcualted semi-granular and granular cell internal pH; Abbreviation: Calculated SGC+GC pHi; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Calculated; Analyzing instrument: The ratio of FL3/FL2 from a calibration curve was used to generate the internal pH of the cells. The calibration curve can be found in the reference below. Detailed information about how the data is collected and analyzed can be found at the method referenced below.; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Calcualted halinocyte cell internal pH; Abbreviation: Calculated HC pHi; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Calculated; Analyzing instrument: The ratio of FL3/FL2 from a calibration curve was used to generate the internal pH of the cells. The calibration curve can be found in the reference below. Detailed information about how the data is collected and analyzed can be found at the method referenced below.; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: External hemolymph pH; Abbreviation: Hemolymph pHe; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Corning pH-30 electrode; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Total number of cells in the hemolymph that are semi-granular and granular hemocytes; Abbreviation: Total Cell SGC+GC; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Total number of cells in the hemolymph that are halinocyte cells; Abbreviation: Total Cell HC; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Total number of dead cells in the hemolymph that are semi-granular and granular hemocytes; Abbreviation: Dead Cell SGC+GC; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Total number of dead halinocyte cells in the hemolymph; Abbreviation: Dead Cell HC; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Percentage of dead cells for semi-granular and granular hemocytes in the hemolymph; Abbreviation: % Dead Cell SGC+GC; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Calculated; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Percentage of dead halinocyte cells in the hemolymph; Abbreviation: % Dead HC; Observation type: Laboratory experiment; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Calculated; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration.
- Parameter or Variable: Percentage of cellsthat have Phagocytosis properties; Abbreviation: % Phagocytosis; Observation type: experiment studied; In-situ / Manipulation / Response variable: Response variable; Measured or calculated: Measured; Sampling instrument: A 2-ml 23-gauge, sterile needle was used to collect hemolymph from each crab.; Analyzing instrument: Accuri C6 flow cytometer (Becton Dickinson, United States) for 30 seconds at 66 ul min-1. Side-scatter, forward-scatter, and fluorescence intensities of individual cells were collected and analyzed using BD Accuri C6 Software (Becton-Dickinson, United States).; Detailed sampling and analyzing information: All hemocytes that contained 3 beads or more are considered to be highly phagocytic; Method reference: Shannon L. Meseck, Jennifer H. Alix, Katherine M. Swiney, W. Christopher Long, Gary H. Wikfors, Robert J. Foy (submitted PLOS One, accepted unsure of publication date). Flow cytometric characterization of hemocytes from the Tanner crab (Chionoecetes bairdi) subjected to acidified ocean water; Biological subject: Chionoecetes baird, Tanner Crab; Researcher name: Shannon Meseck; Researcher institution: Northeast Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration .
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