Accessing BCO-DMO data
Brought to you by BCO-DMO
|
|
BCO-DMO ERDDAP
Accessing BCO-DMO data |
log in
Brought to you by BCO-DMO |
| Dataset Title: | [A. pisonii: egg lipid and glycogen] - Lipid and glycogen content of A. pisonii eggs from three habitats along the Florida eastern coast, 2016 (Linking Variation in Metabolic Processes as a Key to Prediction) 
|
| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_741192) |
| Information: | Summary
| License
| ISO 19115
| Metadata
| Background
| Files
| Make a graph
|
Attributes {
s {
Habitat {
String bcodmo_name "site_descrip";
String description "The habitat where the crab was collected and observed.";
String long_name "Habitat";
String units "unitless";
}
Site {
String bcodmo_name "site";
String description "Site of observation/collection. RI= Round Island Park; PP=Pepper Park; NC=North Causeway Park; Oslo=Oslo Road; ANA=Anastasia State Park; GTM= Guana-Tolomato-Matanzas NERR; VM=Vilano Inlet; PV= Palm Valley/Nocatee Canoe Launch; YC=St. Augustine Yacht Club; BC=Boating Club Road";
String long_name "Site";
String units "unitless";
}
ISO_Date {
String bcodmo_name "date";
String description "Date in ISO format (yyyy-mm-dd)";
String long_name "ISO Date";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/";
String source_name "ISO_Date";
String time_precision "1970-01-01";
String units "unitless";
}
ID {
String bcodmo_name "individual";
String description "individual ID number given to each crab";
String long_name "ID";
String units "unitless";
}
CW {
Float32 _FillValue NaN;
Float32 actual_range 8.4, 24.3;
String bcodmo_name "width";
String description "Size of crab; measured as carapace-width";
String long_name "CW";
String units "millimeters (mm)";
}
GW {
Float32 _FillValue NaN;
Float32 actual_range 3.3, 9.7;
String bcodmo_name "width";
String description "Gut width measured as the width of cardiac stomach.";
String long_name "GW";
String units "millimeters (mm)";
}
GW_CW {
Float32 _FillValue NaN;
Float32 actual_range 0.017, 0.492;
String bcodmo_name "unknown";
String description "gut-width:carapace-width ratio";
String long_name "GW CW";
String units "unitless";
}
Egg_W {
Float32 _FillValue NaN;
Float32 actual_range 0.00533, 0.04273;
String bcodmo_name "weight";
String description "Dry mass of eggs from which lipid were extracted.";
String long_name "Egg W";
String units "grams";
}
F_Vial {
Float32 _FillValue NaN;
Float32 actual_range 13.20482, 13.83595;
String bcodmo_name "weight";
String description "Mass of final vial in-which extracted lipids was weighed.";
String long_name "F Vial";
String units "grams";
}
Vial_Lipid {
Float32 _FillValue NaN;
Float32 actual_range 13.20915, 13.84335;
String bcodmo_name "lipids_biota";
String description "Mass of extracted lipids in vial.";
String long_name "Vial Lipid";
String units "grams";
}
Lipid {
Float32 _FillValue NaN;
Float32 actual_range 6.9e-4, 0.00767;
String bcodmo_name "lipids_biota";
String description "Mass of extracted lipids.";
String long_name "Lipid";
String units "grams";
}
Lipid_wt {
Float32 _FillValue NaN;
Float32 actual_range 0.05472, 0.28441;
String bcodmo_name "lipids_biota";
String description "Proportion of lipid mass to mass of eggs from which the lipids were extracted";
String long_name "Lipid Wt";
String units "unitless";
}
Lipid_pct {
Float32 _FillValue NaN;
Float32 actual_range 5.47185, 28.44141;
String bcodmo_name "lipids_biota";
String description "Concentration of egg lipids in mass-percent of eggs from which lipids were extracted";
String long_name "Lipid Pct";
String units "unitless";
}
Glycogen_W {
Float32 _FillValue NaN;
Float32 actual_range 4.05, 10.94;
String bcodmo_name "weight";
String description "Mass of eggs from which glycogen was extracted.";
String long_name "Glycogen W";
String units "milligrams";
}
Glycogen_Conc {
Float32 _FillValue NaN;
Float32 actual_range 0.1155, 3.77011;
String bcodmo_name "unknown";
String description "Proportion of glycogen mass to mass of eggs from which the glycogen was extracted";
String long_name "Glycogen Conc";
String units "unitless";
}
Glycogen_pct {
Float32 _FillValue NaN;
Float32 actual_range 1.2e-4, 0.001;
String bcodmo_name "unknown";
String description "Concentration of egg glycogen in mass-percent of eggs from which glycogen was extracted";
String long_name "Glycogen Pct";
String units "unitless";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"We collected 10 ovigerous females with stage-1 non-eyed eggs by hand and from
each habitat (mangrove, salt marsh, dock) during the week preceding the full
moon of each of five consecutive months throughout the A. pisonii reproductive
season. Crabs were immediately placed on dry ice and stored at -80oC until
dissection at which time the size and gut-width were determined and the whole
egg clutch was carefully removed from the pleopods. The egg clutch was then
freeze-fried and stored at -80oC until analysis.
We used a modified Folch Extraction to extract the lipids from a subset
(~20-40mg) of each clutch.
We used a subset (~10mg) of each clutch to compare the glycogen content of
eggs between habitats. We did so using a Sigma-Aldrich Glycogen Assay Kit
MAK016 and determined the glycogen concentration as a percentage of egg mass
through colorimetry per the manufacturer instructions.
Mass of extracted lipids was calculated by subtracting the mass of the vial in
which lipids was extracted from the combined mass of the lipids and the vial.
Glycogen concentration was calculated using colorimetry per the manufacturer
instructions.
Locations, Florida East Coast:
Round Island Park: 27o33'33\\\"N 80o19'53\\\"W
Pepper Park: 27o29'42'N 80o18'12\\\"W
North Causeway Park: 27o28'28\\\"N 80o19'12\\\"W
Oslo Road: 27o35'14\\\"N 80o21'55\\\"W
Anastasia State Park: 29o52'40\\\"N 81o16'32\\\"W
Guana-Tolomato-Matanzas NERR: 30o0'49\\\"N 81o20'42\\\"W
Vilano Inlet: 29o55'16\\\"N 81o17'57\\\"W
Palm Valley/Nocatee Canoe Launch: 30o07'57\\\"N 81o23'08\\\"W
St. Augustine Yacht Club: 29o53'09\\\"N 81o17'08\\\"W
Boating Club Road: 29o56'34\\\"N 81o18'31\\\"W";
String awards_0_award_nid "562103";
String awards_0_award_number "OCE-1129166";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1129166";
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
"Lipid and glycogen contents of A. pisonii eggs
B. Griffen, Z. Cannizzo
version: 2018-07-16";
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 "2018-07-24T12:33:46Z";
String date_modified "2020-07-16T13:25:59Z";
String defaultDataQuery "&time<now";
String doi "10.26008/1912/bco-dmo.741192.1";
String history
"2024-11-21T08:59:52Z (local files)
2024-11-21T08:59:52Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_741192.html";
String infoUrl "https://www.bco-dmo.org/dataset/741192";
String institution "BCO-DMO";
String instruments_0_acronym "Scale";
String instruments_0_dataset_instrument_description "Used to measure wet and dry weights of eggs";
String instruments_0_dataset_instrument_nid "741199";
String instruments_0_description "An instrument used to measure weight or mass.";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB13/";
String instruments_0_instrument_name "Scale";
String instruments_0_instrument_nid "714";
String instruments_1_dataset_instrument_description "Used to determine the energy content of the eggs.";
String instruments_1_dataset_instrument_nid "741200";
String instruments_1_description "A device for determining heats of combustion by igniting a sample in a high pressure of oxygen in a sealed vessel and measuring the resulting rise in temperature.";
String instruments_1_instrument_name "bomb calorimeter";
String instruments_1_instrument_nid "741189";
String instruments_1_supplied_name "Parr semimicro bomb calorimeter";
String keywords "bco, bco-dmo, biological, chemical, coastwatch, conc, data, dataset, date, dmo, egg, Egg_W, erddap, F_Vial, glycogen, Glycogen_Conc, Glycogen_pct, Glycogen_W, GW_CW, habitat, iso, lipid, Lipid_pct, Lipid_wt, management, noaa, oceanography, office, pct, preliminary, site, time, vial, Vial_Lipid, w";
String license "https://www.bco-dmo.org/dataset/741192/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/741192";
String param_mapping "{'741192': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/741192/parameters";
String people_0_affiliation "University of South Carolina";
String people_0_person_name "Dr Blaine D. Griffen";
String people_0_person_nid "562106";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "University of South Carolina";
String people_1_person_name "Zachary J. Cannizzo";
String people_1_person_nid "740019";
String people_1_role "Co-Principal Investigator";
String people_1_role_type "originator";
String people_2_person_name "Zachary J. Cannizzo";
String people_2_person_nid "740019";
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 "Nancy Copley";
String people_3_person_nid "50396";
String people_3_role "BCO-DMO Data Manager";
String people_3_role_type "related";
String project "Variation in Metabolic Processes";
String projects_0_acronym "Variation in Metabolic Processes";
String projects_0_description
"Description from NSF award abstract:
A major goal of biological and ecological sciences is to understand natural systems well enough to predict how species and populations will respond to a rapidly changing world (i.e., climate change, habitat loss, etc.). A population under any conditions will grow, shrink, or disappear altogether depending on how efficiently individuals consume resources (food), utilize that food metabolically, and eventually reproduce. However, making accurate predictions based on these metabolic processes is complicated by the realities that each species has different resource requirements and that no two individuals within a species are exactly alike. Rather, individuals vary and this variation, both within and across species, is central to many ecological and evolutionary processes. Developing the ability to predict responses of biological systems to a changing world therefore requires a mechanistic understanding of variation. The goal of this project is to improve this mechanistic understanding by examining variation within a metabolic context across a range of species that have a spectrum of commonly-seen resource requirements. Further, the work capitalizes on a unique biological characteristic of this group of species that allows control and manipulation of individual reproduction, facilitating experimental study of the mechanistic links between variation in individual consumption, metabolism, and reproduction. The foundation this research is a combination of field measurements and laboratory experiments using both well-established and newly-developed techniques to quantify these links. The result will be a quantitative framework to predict how individuals will respond reproductively to changes in resource use. Because of the close link between individual reproduction and population dynamics, this research will contribute substantially to predictions in population dynamics under realistic conditions where individuals use more than a single resource, and improve the prediction of responses to current and future ecological changes.
The following publications and data resulted from this project:
Belgrad, B. and B. Griffen. 2016. Predator-prey interactions mediated by prey personality and predator identity.Proc. Roy. Soc. B: In Review. [2016-01-20]P. herbstii mortality data: Mortality of crabs when exposed to either a single blue crab, toadfish, or no predator for a weekP. herbstii personality data: Refuge use of crabs when exposed to predator odor cues from either blue crabs, toadfish, or control of no cueP. herbstii predator behavior data: Refuge use and mobility of blue crabs and toadfish while in mesocosms for a week - behavior measured during two days.
Belgrad, B. and B. Griffen. 2016. The influence of dietary shifts on fitness of the blue crab, Callinectes sapidus. PloS One. DOI: 10.1371/journal.pone.0145481.Blue crab activity: Activity of crabs fed different diets over a summerBlue crab egg size: Volume of eggs for crabs fed different dietsBlue crab hepatopancreas index (HSI): Weight of hepatopancreas for crabs fed different dietsBlue crab hepatopancreas lipid content: Hepatopancreas lipid content of crabs fed different dietsBlue crab reproductive tissue analysis (GSI): Gonadosomatic index of blue crabs on various dietsBlue crab survival: Blue crab survival data during the dietary study
Knotts ER, Griffen BD. 2016. Individual movement rates are sufficient to determine and maintain dynamic spatial positioning within Uca pugilator herds. Behavioral Ecology and Sociobiology 70:639-646Uca pugilator: behavior change with carapace marking: Search space behavior due to carapace treatment (control, nail polish, and food dye)Uca pugilator: field spatial position: Assessment of individual's position within a herd at 3 min. intervals; for proportion of time found at edge of herdUca pugilator: herd position proportion: Individual's proportion of time spent in an edge/alone position among a herdUca pugilator: search space distribution: Search space that crabs traveled; to evaluate the sample's distribution of exploratory behavior
Belgrad, B. and B. Griffen. 2015. Rhizocephalan infection modifies host food consumption by reducing host activity levels. Journal of Experimental Marine Biology and Ecology. 466: 70-75.E. depressus digestion time : Time taken for food to pass through gut of flat-backed mud crabs infected by a parasiteE. depressus metabolism: Respiration rate of infected/uninfected flat-backed mud crabsE. depressus reaction time to prey: Time taken for infected/uninfected flat-backed mud crabs to react to the presence of prey
Blakeslee, A.M., C.L. Keogh, A.E. Fowler, B. Griffen. 2015. Assessing the effects of trematode infection on invasive green crabs in eastern North America. PLOS One 10(6): e0128674.(pdf)Carcinus: hemocyte density: Counts of circulating hemocyte density in Carcinus maenasCarcinus: parasites physiology behavior: Behavior and physiology of Carcinus maenas infected with trematode parasite
Griffen BD, Norelli AP (2015) Spatially variable habitat quality contributes to within-population variation in reproductive success. Ecology and Evolution 5:1474-1483.P. herbstii diet: sampling site characteristics (Eco-Evo 2015)P. herbstii diet: body measurements (Eco-Evo 2015)P. herbstii diet & reproduction (Eco-Evo 2015)
P. herbstii: collection sites (Ecol-Evol 2015)
Griffen BD, Riley ME (2015) Potential impacts of invasive crabs on one life history strategy of native rock crabs in the Gulf of Maine. Biological Invasions 17:2533-2544.Cancer consumption and reproduction (Bio.Inv. 2015): Lab experiment linking dietary consumption and reproduction
Griffen BD, Vogel M, Goulding L, Hartman R (2015) Energetic effects of diet choice by invasive Asian shore crabs: implications for persistence when prey are scarce. Marine Ecology Progress Series 522:181-192.Hemigrapsus diet 1 (MEPS 2015)Hemigrapsus diet 2 (MEPS 2015)
Hogan and Griffen (2014). The Dietary And Reproductive Consequences Of Fishery-Related Claw Removal For The Stone Crab Menippe Spp. Journal of Shellfish Research, Vol. 33, No. 3, 795–804.Stone crab: 052012-DietChoiceExp1: Prey choice for 2-clawed and 1-clawed Stone Crabs (Menippe spp.)Stone crab: 052012-LongTermConsumption: Long-term consuption for 2-clawed and 1-clawed Stone Crabs (Menippe spp.), summer of 2012Stone crab: 062013-DietChoiceExp2: Prey choice for 2-clawed and 1-clawed Stone Crabs (Menippe spp.)Stone crab: 062013-PreySizeSelection: Prey Size selection ranking for 2-clawed and 1-clawed Stone Crabs (Menippe spp.)
Riley M, Johnston CA, Feller IC, and Griffen B. 2014. Range expansion of Aratus pisonii (mangrove tree crab) into novel vegetative habitats. Southeastern Naturalist 13(4): 43-38A. pisonii: range expansion: Aratus pisonii survey in native mangrove and novel salt marsh habitats
Riley M, Vogel M, Griffen B. 2014. Fitness-associated consequences of an omnivorous diet for the mangrove tree crab Aratus pisonii. Aquatic Biology 20:35-43, DOI: 10.3354/ab00543A. pisonii: fitness and diet: Impact of diet variation on physiological and reproductive condition of A. pisonii
Toscano BJ, Newsome B, Griffen BD (2014) Parasite modification of predator functional response. Oecologia 175:345-352bE. depressus - parasite and feeding (Oecologia, 2014): Feeding with and without parasitic barnacle infectionE. depressus - parasite and prey handling (Oecologia, 2014): Food handling with and without parasitic barnacle infectionE. depressus - parasite study - field survey (Oecologia, 2014): Parasitised field survey
Toscano BJ, Griffen BD (2014) Trait-mediated functional responses: predator behavioural type mediates prey consumption.Journal of Animal Ecology 83:1469-1477P. herbstii - activity and feeding (JAE, 2014): Activity level and feeding with and without predator cue
Toscano BJ, Gatto J, Griffen BD (2014) Effects of predation threat on repeatability of individual crab behavior revealed by mark recapture. Behavioral Ecology and Sociobiology 68:519-527P. herbstii - recapture behavior (BESB, 2014): Mud crabs refuge use and activity level - initial measurementsP. herbstii - refuge use (BESB, 2014): Effect of predation threat on repeatability of individual crab behavior revealed by mark-recapture
Griffen BD, Altman I, Bess BM, Hurley J, Penfield A (2012) The role of foraging in the success of invasive species. Biological Invasions. 14:2545-2558Hemigrapsus seasonal diet (Bio.Inv. 2012): Percent herbivory and gut fullness for Hemigrapsus sanguineus at different times of year
Griffen BD, Toscano B, Gatto J (2012) The role of intraspecific trait variation in mediating indirect interactions. Ecology 93:1935-1943P. herbstii refuge use (Ecology, 2012): Proportion of time that Panopeus herbstii spent using refuge habitats in a lab experimentP. herbstii: Field personality distribution (Ecology, 2012): Field distribution of personality types in the mud crab Panopeus herbstii relative to tidal heightP. herbstii: Trait mediated indirect effect (Ecology, 2012): Influence of refuge use by the mud crab Panopeus herbstii on consumption of bivalves
Riley ME, Griffen BD (2017) Habitat-specific differences alter traditional biogeographic patterns of life history in a climate-change induced range expansion. PLOS One 12(5):e0176263A. pisonii: egg size: Comparing egg size in Aratus pisonii populations from mangrove and salt marsh habitatsA. pisonii: fecundity: Determining fecundity of Aratus pisonii populations in mangrove and salt marsh habitatsA. pisonii: larval starvation resistance: Comparing larval quality in Aratus pisonii populations from mangrove and salt marsh habitatsA. pisonii: latitudinal body size: Survey examining latitudinal body size patterns in Aratus pisoniiA. pisonii: predation: Comparing predation pressure on Aratus pisonii in mangrove and salt marsh habitatsA. pisonii: reproductive effort: Survey comparing Aratus pisonii reproductive effort in native and novel habitatsA. pisonii: herbivory: Relationship between leaf herbivory, tree characteristics, and refuge availabilityA. pisonii: mangrove tree survey: Mangrove tree distribution and characteristics in a dwarf mangrove system
Cannizzo ZJ, Dixon SR & Griffen BD (2018). An anthropogenic habitat within a suboptimal colonized ecosystem provides improved conditions for a range-shifting species. Ecology and Evolution, 8(3):1524-1533.A. pisonii: behavior: Proportion of time the mangrove tree crab Aratus pisonii spent in different behaviors related to diet and energy storageA. pisonii: dock-marsh thermal: Thermal readings from under a dock and in a nearby salt marshA. pisonii: sun-shade: Proportion of time that mangrove tree crab Aratus pisonii spent in sun and shade in three habitats, 2015-2016.A. pisonii: thermal picture: Thermal condition of A. pisonii in three habitats: under dock, mangroves, saltmarsh";
String projects_0_end_date "2016-08";
String projects_0_name "Linking Variation in Metabolic Processes as a Key to Prediction";
String projects_0_project_nid "562104";
String projects_0_start_date "2011-09";
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 includes calculations of the lipid and glycogen content of eggs of mangrove tree crabs, A. pisonii, from three habitats: mangrove, saltmarsh and mangrove collected along the eastern Florida coast in 2016.";
String title "[A. pisonii: egg lipid and glycogen] - Lipid and glycogen content of A. pisonii eggs from three habitats along the Florida eastern coast, 2016 (Linking Variation in Metabolic Processes as a Key to Prediction)";
String version "1";
String xml_source "osprey2erddap.update_xml() v1.5";
}
}
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.
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.