Plum Island Ecosystems LTER Database

Acceptance and utilization of LTER data requires that:

(1) The Principal Investigator be sent a notice stating reasons for acquiring any data and a description of the publication intentions.
(2) The Principal Investigator of the data set be sent a copy of the report or manuscript prior to submission and be adequately cited in any resultant publications.
(3) A copy of any resultant publications should be sent to:

Principal Investigator
Ecosystems Center
Marine Biological Laboratory
7 MBL St.
Woods Hole, MA 02543

Dataset URLs:METADATA: HTML, Rich Text, XML(EML compliant)
DATA: Comma Delimited, Excel file with Metadata and data
Dataset ID:HTL-EST-Clam-chlorophyll.01
Dataset Title:Water column chlorophyll concentrations associated with clam flat surveys during year 2010 in the Plum Island Sound estuary, Newbury, Rowley and Ipswich, MA.
Investigator 1: 
First Name:Chuck
Last Name:Hopkinson
Address line 1:University of Georgia
Address line 2:229 Marine Sciences
Address line 3:
City:Athens
State:GA
Zip Code:30602
Country:USA
Associate Investigators:Kyung-Ah Koo, Emily Davenport
Keywords:LTER, PIE, Plum Island Ecosystems, primary production, softshell clam, chlorophyll
Abstract:Six to eight sites in the Plum Island Sound estuary , the mainstem of the Parker River and Rowley River, in areas close to where other clam samples were being taken for other studies, were selected for monthly chlorophyll sampling to determine the concentration of phytoplankton at these sites.
Contact: Plum Island Ecosystems LTER Information Manager
The Ecosystems Center
Marine Biological Lab
7 MBL St
Woods Hole, MA 02543
Phone (508) 289 7485
Email: pie_im@mbl.edu
Online URL: http://pie-lter.ecosystems.mbl.edu
DATA FILE INFORMATION:
Data File URL http://ecosystems.mbl.edu/PIE/data/HTL/data/HTL-EST-Clam-chlorophyll.csv
Data File Name HTL-EST-Clam-chlorophyll
Beginning Date 6/18/2010
End Date 11/29/2010
Number of Data Records 62
Other Files to Reference HTL-EST-Clam-densitysediment, HTL-EST-Clam-growth, HTL-EST-Clam-isotopes, HTL-EST-Clam-lengthweight
Availability Status Type 1
Quality Control Information
Maintenance Description Data complete for 2010
Log of Changes: Version 01: September 29, 2015, data and metadata created to comply with importation to Drupal and LTER PASTA. Used MarcrosExportEML_HTML (working)pie_excel2007_Jan2015.xlsm 1/15/15 4:26 PM for QA/QC to EML 2.1.0
 
RESEARCH LOCATION: HTL-PR-MS-Clams HTL-PR-MR-Clams HTL-PR-RR-Clams HTL-PR-HB-Clams HTL-PR-OTL-Clams HTL-SO-GF-Clams HTL-SO-Stackyard-Clams HTL-SO-FP-Clams HTL-RO-RM-Clams HTL-SO-TL-Clams HTL-SO-MG-Clams HTL-SO-IB-Clams HTL-RO-Clubmouth-Clams HTL-RO-Sweeneymouth-Clams HTL-RO-RowleyHouse-Clams  
Geographic Description Site of clam surveys near Middle Road, north of Rte 1, Newbury MA Site of clam surveys at confluence of Mill River with Parker River, Newbury, MA Site of clam surveys near railroad bridge on Parker River, Newbury, MA Site of clam surveys alias "House Boat" near the mouth of the Little River, Newbury, MA Site of clam surveys, alias "Old Town Landing" near the Newbury marina, Newbury, MA Site of clam surveys, alias "Grandkids Flat", southeast of Cape Merrill in Plum Island Sound, Newbury, MA Site of clam surveys, end of Stackyard Rd, east of Nelson Island, in Plum Island Sound, Newbury, MA. Site of clam surveys, Far Point, southeast of Cape Merrill in Plum Island Sound, Newbury MA Site of clam surveys, near kite flag pole, mouth of Rowley River, Rowley, MA Site of clam surveys, Third Creek, south of Roger Island River, Plum Island Sound, Ipswich, MA. Site of clam surveys, Middle Ground, south of Roger Island River, Plum Island Sound Ipswich MA Site of clam surveys, Ipswich Bluff flats, east of Ipswich Bay Yacht Club, Plum Island, Ipswich, MA. Site of clam surveys, mouth of Clubhead Creek, off Rowley River, Rowley, MA Site of clam surveys, mouth of Sweeney Creek, off Rowley River, Ipswich, MA Site of clam surveys, tidal flat near PIE LTER Rowley field station, Rowley, MA.  
Location Bounding Box                                
West Bounding Coordinate                                
East Bounding Coordinate                                
North Bounding Coordinate                                
South Bounding Coordinate                                
OR if single point location                                
Latitude 42.759367 42.755183 42.760367 42.762683 42.761283 42.7483 42.74625 42.7345 42.727133 42.7518 42.719367 42.70875 42.732018 42.727844 42.725367  
Longitude -70.898767 -70.872083 -70.86325 -70.859017 -70.838033 -70.810983 -70.8219 -70.799467 -70.81515 -70.81635 -70.796667 -70.7859 -70.83836 -70.84776 -70.85495  
Elevation                                
                                 
                                 
 
TAXONOMIC COVERAGE:
Taxonomic Protocols
Organisms studied Mya arenaria
 
Methods:Six to eight sites in the Plum Island Sound estuary , the mainstem of the Parker River and Rowley River, in areas close to where other clam samples were being taken for other studies, were selected for monthly chlorophyll sampling to determine the concentration of phytoplankton at these sites. Roughly once a month, two 1L brown Nalgene bottles of water were sampled adjacent to each site from a boat at high tide. The water was kept cool and dark during transport to the lab, and filtered within three hours of collection. The procedure for filtration is outlined below:
1. Using square-ended forceps (to prevent poking a hole in the filter), place a single Whatman GF/F filter (2.5cm) onto a Gelman filter funnel. Make sure the funnel forms a tight seal with the base.
2. The filter funnel should be attached to a vacuum system. We use a home-made PVC manifold that holds several funnels, and each funnel has a valve to open/close the vacuum. The manifold is attached to heavy-walled tygon tubing and a large vacuum flask (5 gallon glass water bottle). A second hose runs from the carboy to the vacuum pump. Use a moderate vacuum for the filtrations (ca. 100 to 200 mm Hg, or <7 in. Hg vac).
3. Open the vacuum and pour in a pre-measured amount (using a clean graduated cylinder) of sample water. This is the tricky part. You may have to use trial and error to determine how much water you can filter before the filter clogs. Samples closer to the mouth of Plum Island Sound will require larger volumes (500-1000ml) than samples up the Parker River (150-700ml) depending upon season and discharge. Filter water samples in duplicate, be sure to record the total volume of water filtered for each duplicate sample.
4. Using square-tipped forceps, gently fold the filter in half, with the side containing the sample on the inside of the fold. Remove the filter, keeping it folded, and place the filter between a small piece of aluminum foil
5. Label the outside of the aluminum foil (a square piece with dimensions of 5 x 5 cm) with the sample identification number. Use a black sharpie pen and make sure the ink dries (sharpie ink will destroy the pigment analysis….and the filters are magnets for sharpie ink!)
6. Bend the edges of the foil to make sure the filter is sealed within the foil. Place the foil in a freezer (the colder the better). Keep the sample completely frozen and in the dark until you are ready to conduct the analysis

To extract chlorophyll from the filters, the method outlined by the US EPA was followed: EPA Method 445.0, In Vitro Determination of Chlorophyll a and Pheophytin a in Marine and Freshwater Algae by Fluorescence
Elizabeth J. Arar and Gary B. Collins, Revision 1.2, September 1997

In short, the samples were placed in a test tube with 90% acetone and vortexed. They were kept cold overnight to allow time for the chlorophyll to be extracted, then vortexed again and analyzed on a Turner Trilogy Fluorometer. The fluorometer was calibrated with a chlorophyll standard curve using chlorophyll standards purchased from Turner Designs (standards had known concentrations and were then diluted to get a standard curve of 5 concentrations of chlorophyll ranging from low (0) to high (approx 200ug/L). After getting a chlorophyll reading, samples were acidified using 0.1NHCL to get the phaeophytin-a concentrations. Formulas for calculating chlorophyll-a and phaeophytin-a can be found in the Turner Trilogy Fluorometer user manual, page 36.

Data Table

Variable Name Variable Description Units Measurement Scale Code Information Number Type DateTime Format Missing Value Code Missing Value Code Explanation
Date Date of sampling   datetime     DD-MON-YYYY NA NA = not available
Station_ID Name of sampling station   nominal       NA NA = not available
Site_ID Name of specific sampling site   nominal       NA NA = not available
Latitude Latitude of sampling station (decimal degrees) degree ratio   real   NA NA = not available
Longitude Longitude of sampling station (decimal degrees) degree ratio   real   NA NA = not available
Replicate Replicate of sample analyzed for chlorophyll   ordinal   real   NA NA = not available
Volume_filtered volume of water filtered for chlorophyll analysis milliliter ratio   real   NA NA = not available
Chlorophyll-a chlorophyll a concentration (ug/L) microgramPerLiter ratio   real   NA NA = not available
Phaeophytin-a phaeophytin-a concentration (ug/L) microgramPerLiter ratio   real   NA NA = not available