Dataset: Zostera experiment community biomass
Deployment: ZEN_2011

Diversity and biomass of eelgrass inhabitants

Principal Investigator:

J. Emmett Duffy (Virginia Institute of Marine Science, VIMS)

Scientist:

Dr Pamela L Reynolds (University of California-Davis, UC Davis)

Contact:

Dr Pamela L Reynolds (University of California-Davis, UC Davis)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Zostera Experimental Network (ZEN)

Data URL:

https://www.bco-dmo.org/dataset-deployment/659869/data

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Description

Methods & Sampling

Dataset acquisition description

Methodology is available from: J. Emmett Duffy, et al. Biodiversity mediates top-down control in eelgrass ecosystems: A global comparative-experimental approach. Ecology Letters 18:7 (696–705). DOI: 10.1111/ele.12448.

Table S1. Codes and locations of sites

Code	Site	Latitude	Longitude	Principal Investigator
AK	Kachemak Bay, Alaska, USA	59.648	-151.436	Iken
BB	Bodega Bay, California, USA	38.317	-123.033	Stachowicz
BC	Vancouver, British Columbia, Canada	49.000	-123.100	O'Connor
FI	Ängsö Island, Finland	60.100	21.700	Boström
JN	Akkeshi-Ko Estuary, Hokkaido, Japan	43.060	144.911	Nakaoka
JS	Akiwan Bay, Hiroshima, Japan	34.178	132.550	Hori
MA	Nahant, Massachusetts, USA	42.426	-70.919	Douglass
NC	Beaufort, North Carolina, USA	34.683	-76.600	Reynolds, Sotka
NN	Misvaerfjord, Bodø, Norway	67.233	15.200	Olsen, Eriksson, Horeau
PO	Ria Formosa Lagoon, Portugal	36.997	-7.829	Engelen
QU	Pointe-Lebel, Quebec, Canada	49.113	68.179	Cusson
SD	San Diego Bay, CA, USA	32.714	-117.226	Hovel
SW	Gullmar Fjord, Sweden	58.314	11.548	Moksnes/Fredriksen
VA	Goodwin Islands, Gloucester Point, Virginia	37.217	-76.383	Duffy/Reynolds
WA	Willapa Bay, Washington, USA	46.500	-124.000	Ruesink

Data Processing Description

Dataset Processing Description

Data have been QA/QC’d for accuracy. Irrelevant/incorrect values have been removed.

BCO-DMO Processing:
- added conventional header with dataset name, PI name, version date, reference information
- renamed some parameters to BCO-DMO standard
- reformatted date from m/d/y to yyyy-mm-dd
- reduced digits to right of decimal

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1031061	NSF Division of Ocean Sciences

Instruments

Automated DNA Sequencer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Automated DNA Sequencer

Acronym: Automated Sequencer

Generic Description:

General term for a laboratory instrument used for deciphering the order of bases in a strand of DNA. Sanger sequencers detect fluorescence from different dyes that are used to identify the A, C, G, and T extension reactions. Contemporary or Pyrosequencer methods are based on detecting the activity of DNA polymerase (a DNA synthesizing enzyme) with another chemoluminescent enzyme. Essentially, the method allows sequencing of a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step.

CHN Elemental Analyzer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: CHN Elemental Analyzer

Acronym: CHN_EA

Generic Description:

A CHN Elemental Analyzer is used for the determination of carbon, hydrogen, and nitrogen content in organic and other types of materials, including solids, liquids, volatile, and viscous samples.

Refractometer

Supplied Name:

Supplied Description:

Used to measure salinity

Instrument Type

Generic Name: Refractometer

Generic Description:

A refractometer is a laboratory or field device for the measurement of an index of refraction (refractometry). The index of refraction is calculated from Snell's law and can be calculated from the composition of the material using the Gladstone-Dale relation.

In optics the refractive index (or index of refraction) n of a substance (optical medium) is a dimensionless number that describes how light, or any other radiation, propagates through that medium.

Temperature Logger

Supplied Name:

Supplied Description:

HOBO Pendant temperature loggers

Instrument Type

Generic Name: Temperature Logger

Generic Description:

Records temperature data over a period of time.

Thermal Cycler

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Thermal Cycler

Generic Description:

A thermal cycler or "thermocycler" is a general term for a type of laboratory apparatus, commonly used for performing polymerase chain reaction (PCR), that is capable of repeatedly altering and maintaining specific temperatures for defined periods of time. The device has a thermal block with holes where tubes with the PCR reaction mixtures can be inserted. The cycler then raises and lowers the temperature of the block in discrete, pre-programmed steps. They can also be used to facilitate other temperature-sensitive reactions, including restriction enzyme digestion or rapid diagnostics.

(adapted from http://serc.carleton.edu/microbelife/research_methods/genomics/pcr.html)

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
site_code	Code: VA (Virginia); NC (North Carolina); MA (Massachusettes); QU (Quebec); AK (Alaska); BC (British Columbia);WA (Washington); BB (Bodega Bay); SD (San Diego); JN (Northern Japan); JS (Southern Japan); NN (Norway); SW (Sweden);FI (Finland); PO (Portugal)	unitless	site
plot	unique plot number within a site	unitless	sample
unique_plot_id	unique idenitifier; concatenated from site code and plot number	unitless	treatment
treatment	D refers to deterrent; N refers to nutrient addition; and +/- refer to presence or absence; respectively.	unitless	treatment
grazer_bmass_per_g	Total biomass of all mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
crustacean_bmass_per_g	Total biomass of all crustacean mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
gammarid_bmass_per_g	Total biomass of all gammaridean mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
caprellid_bmass_per_g	Total biomass of all caprellid mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
isopod_bmass_per_g	Total biomass of all isopod mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
decapod_bmass_per_g	Total biomass of all decapod mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
gastropod_bmass_per_g	Total biomass of all gastropod mesograzers sampled from the plot; estimatred using Edgar's (1990) size-class equations	grams	wet_weight_biomass
grazer_richness_plot	Total number of mesograzer taxa (usually species) recorded from the plot	taxa	count_species
chla_per_Zostera	Algal chlorophyll-a attached to eelgrass blades; expressed as micrograms chl a per g eelgrass blade tissue	micrograms chl a per g (ug/g)	chl_a
latitude	Latitude in decimal degrees	decimal degrees	lat
longitude	Longitude in decimal degrees	decimal degrees	lon
temp_avg	Water temperature in degrees Celsius; mean of measurements made during the experiment	degrees Celsius	temp
sal	Salinity in parts per thousand	PPT	sal
N_mean_pcent	Elemental nitrogen as % of eelgrass dry mass	unitless	TON
genotype_richness_standardized	Total number of eelgrass multilocus genotypes recorded from the site; divided by the maximum number recorded from any site (thus; scale = 0 - 1)	unitless	count_species
grazer_richness_site	Total number of mesograzer taxa (usually species) recorded from all 40 plots at the site	taxa	count_species
ocean	Atlantic (including Baltic Sea); Pacific	unitless	site

Database

Contribute Data

Dataset: Zostera experiment community biomass
Deployment: ZEN_2011

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Zostera experiment community biomassDeployment: ZEN_2011

Dataset acquisition description

Dataset Processing Description

Dataset: Zostera experiment community biomass
Deployment: ZEN_2011