Cruise Report 2004 RMP Sediment Report

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1 Cruise Report 2004 RMP Sediment Report July 27 - August 3, 2004 A P P L I E D S C I E N C E S

2 1.0 INTRODUCTION This report details activities associated with the Regional Monitoring Program for Trace Substances in the San Francisco Estuary (RMP) annual sediment cruise. The cruise was redesigned in 2002 to adopt a randomized sampling strategy in place of the twenty-six base program stations sampled in previous years. 2.0 CRUISE REPORT 2.1 Objectives All sampling was conducted from the R/V Endeavor. The objectives of the sampling effort were to: 1. Collect sediment samples from 47 sites for analysis of trace organics by East Bay Municipal Utility District (EBMUD). 2. Collect sediment samples from 47 sites for analysis of trace elements (Al, Cd, Cu, Fe, Pb, Mn, Ni, Ag, and Zn) by the City and County of San Francisco (CCSF). 3. Collect sediment samples from 47 sites for analysis of mercury and monomethyl mercury by the University of California at Santa Cruz Department of Environmental Toxicology (UCSC). 4. Collect sediment samples from 47 sites for analysis of ancillary parameters (grainsize, TOC, and TN) by UCSC. 5. Collect sediment samples from 47 sites for analysis of arsenic and selenium by Brooks Rand Ltd. (BRL). 6. Collect sediment samples from 27 sites for analysis of toxicity by Marine Pollution Studies Laboratory (MPSL). 7. Collect sediment samples from 47 sites for trace metals archive. 8. Collect sediment samples from 47 sites for trace organics archive. 9. Collect sediment samples from 47 sites for special study oxic layer analysis by San Francisco Estuary Institute (SFEI). 10. Collect sediment samples and bottom water grabs from 47 sites for special study of microbial communities involved in nitrogen and manganese cycling by the Stanford Department of Geological and Environmental Sciences (SDGES). Page 1

3 11. Collect a water column profile at each site for analysis of temperature, conductivity, optical backscatterance, and dissolved oxygen by Applied Marine Sciences (AMS). 12. Collect direct ph measurements from the interstitial water found in the undisturbed sediment in the grab at each site by AMS. 2.2 Personnel The scheduled personnel and work assignments for this cruise were as follows: Name Affiliation Duties Sarah Lowe SFEI Sample Collection (7/27-7/29, 8/3) John Ross SFEI Sample Collection, Oxic Layer Analysis (7/27-7/30) Karen Taberski SFRWQCB Sample Collection (7/29) Don Yee SFEI Sample Collection (7/27) Amy Francis SFEI Sample Collection, Oxic Layer Analysis (7/30, 8/2) Nicole David SFEI Sample Collection, Oxic Layer Analysis (8/2-8/3) Scott Wankel SDGES Special Study Sample Collection (7/27-7/30, 8/2-8/3) Paul Salop AMS Cruise Manager, Sample Collection (7/27, 7/30, 8/2-8/3) David Bell AMS Cruise Manager, Sample Collection (7/27-7/29) Basia Hajduczek AMS Sample Collection (7/28-7/30, 8/2-8/3) Jeanette Popp AMS Sample Transport, Logistics (7/27-7/30, 8/2-8/3) Nick Sakata USBR R/V Endeavor Skipper (7/27-7/30, 8/2-8/3) Gordon Smith AMS Skipper Training (7/27-7/30, 8/2-8/3) 2.3 Cruise Schedule Sampling activities for the 2004 Sediment Cruise are shown below: Date Time Activity July 27, Mobilized sampling gear aboard vessel R/V Endeavor at Benicia Marina. Conducted safety briefing. Departed for site SU002S Sampled SU002S, departed for SU018S Sampled SU018S, departed for BG Sampled BG30, departed for BG Sampled BG20, departed for SU016S. Page 2

4 Date Time Activity July 27, Sampled SU016S, departed for SU020S. (cont.) Sampled SU020S, departed for BF Sampled BF21, departed for SU015S Sampled SU015S, departed for Benicia Marina Arrived Benicia Marina, demobilized vessel. All samples left on vessel overnight. July 28, Mobilized sampling gear aboard vessel at Benicia Marina. Departed for site SPB016S Sampled SPB016S, departed for SPB001S Sampled SPB001S, departed for SPB015S Sampled SPB015S, departed for SPB017S Sampled SPB017S, departed for SPB018S Sampled SPB018S, departed for SU019S Sampled SU019S, departed for SU001S Sampled SU001S, departed for SU017S Sampled SU017S, departed for Benicia Marina Arrived Benicia Marina, demobilized vessel. Appropriate samples transported to AMS for storage. July 29, Mobilized sampling gear aboard vessel at Benicia Marina. Departed for site SPB002S Sampled SPB002S, departed for BD Sampled BD31, departed for SPB020S Attempted to sample site SPB020S. Sandy substrate prevented sampling replaced with alternate site SPB074S. Departed for SPB074S Sampled SPB074S (replacement site for SPB020), departed for SPB019S Sampled SPB019S, departed for CB075S (replacement site for CB015S). Page 3

5 Date Time Activity July 29, Sampled CB075S, departed for CB001S. (cont.) Sampled CB001S, departed for Emeryville Marina Arrived Emeryville Marina, refueled, demobilized vessel, and sampling personnel transported to Benicia to retrieve cars. July 30, Mobilized sampling gear aboard vessel at Emeryville Marina. Departed for site BC Sampled BC11, departed for CB077S (replacement site for CB019S) Sampled CB077S, departed for CB076S (replacement site for CB017S) Attempted to sample site CB076S. Heavy shell hash and sand prevented sampling replaced with alternate site CB078S. Departed for CB020S Sampled CB020S, departed for CB016S Sampled CB016S, departed for CB018S Sampled CB018S, departed for CB078S (replacement site for CB076S) Sampled CB078S, departed for CB002S Sampled CB002S, departed for CB017S Sampled CB017S, departed for Redwood City Municipal Marina (RCMM) Arrived RCMM, demobilized vessel, and sampling personnel transported to Emeryville Marina to retrieve cars. Appropriate samples transported to AMS for storage. August 2, Mobilized sampling gear aboard vessel at RCMM. Departed for site SB018S Sampled SB018S, departed for BA Sampled BA41, departed for SB020S Sampled SB020S, departed for SB019S Sampled SB019S, departed for SB015S. Page 4

6 Date Time Activity August 2, Sampled SB015S, departed for SB016S. (cont.) Sampled SB016S, departed for SB001S Sampled SB001S, departed for SB002S Sampled SB002S, departed for LSB018S Sampled LSB018S, departed for RCMM Arrived RCMM, demobilized vessel. August 3, Mobilized sampling gear aboard vessel at RCMM. Departed for site LSB019S Sampled LSB019S, departed for LSB001S Sampled LSB001S, departed for LSB020S Sampled LSB020S, departed for LSB002S Sampled LSB002S, departed for BA Sampled BA10, departed for LSB016S Sampled LSB016S, departed for LSB017S Sampled LSB017S, departed for LSB015S Sampled LSB015S, departed for RCMM Arrived RCMM, demobilized vessel. Appropriate samples transported to AMS for storage. August 5-16, 2004 As necessary AMS shipped / handed off all samples to appropriate labs for analysis. Page 5

7 2.5 Sampling Sites Table 1 shows site coordinates, water depth, substrate description, and additional comments about sampling. 2.6 Sampling Procedures Sediment sampling equipment was cleaned in the laboratory by AMS four days prior to sampling. Equipment that was pre-cleaned included: Van Veen Grab Sample scoops Compositing bucket Wash bottles Prior to sampling, all equipment was thoroughly cleaned. Equipment was soaked (fully immersed) for three days in a 0.5 % solution of Liquinox detergent and deionized water. Following the soak, equipment was rinsed three times each with deionized water, a 1.0 % solution of hydrochloric acid, methanol, and deionized water again. All equipment was then allowed to dry in a clean place. The cleaned grab was wrapped in aluminum foil for transport to the field. All other equipment was stored in clean Ziploc bags until used in the field. The goal of the sampling program design was to collect fine sediments (> 60% fines) at all random sites. At sites where insufficient amounts of fine material were collected, the scheduled sites were replaced with predetermined oversample sites. When the Van Veen grab was brought on deck, overlying water was first allowed to drain off. Next, two measurements of in situ ph were recorded by submerging a Hach ph probe directly into the sediment to approximately 2.5 cm in depth. A total of four measurements were recorded for each station, except station SU002S, for which two ph measurements were recorded. Sediment was removed by sampling personnel from one of the grabs for two special studies prior to any removal of bulk sediment for compositing. Three 10 cc syringe cores were removed from the sediment surface as part of the SDGES special study. One 7.5 cm core was then collected at each site for oxic layer analysis. Sediment coming in contact with the ph and cored areas was avoided when collecting sediments for chemical analysis. Next, the top 5 cm of sediment were scooped from a minimum of two replicate grabs and mixed in a pre-cleaned compositing bucket to provide a single composite sample for each site for analysis of chemistry, TOC, grainsize, and toxicity (where applicable). Portions of the composited sample were placed into containers Page 6

8 provided by each laboratory. Duplicate trace organic and trace element chemistry samples were collected from the composite for archives. The quality of grab samples was ensured by requiring each sample to satisfy a set of criteria concerning the depth of penetration and disturbance of the sediment within the grab. In this way, each sample normally contained the top 5 cm of sediment within the area of the grab jaws. Samples were rejected for the following conditions: A rock or shell fragment wedged between the jaws of the grab allowed the sample to wash out. The sample surface was significantly disturbed. The sample was uneven from side to side, indicating that the grab was tilted when it penetrated the sediment. The surface of the sample was in contact with the top doors of the grab, suggesting over-penetration of the grab and possible loss of material around the doors. Samples were collected from each site and placed into the containers indicated in Table General Comments On-station times generally ranged from minutes, depending mainly on the number of grabs required to collect sufficient sediment. In lieu of porewater ph analyzed in the past, sampling personnel recorded two in situ ph values for a minimum of two grabs at each station, using a Hach ph probe and meter. The value reported for each station is the average of the four results, except station SU002S, for which two ph measurements were recorded. Three scheduled Central Bay random sites were removed from the cruise schedule during planning operations. The three sites, CB015S, CB017S, and CB019S were all located in areas of deep water and strong currents, suggesting difficulty in sampling and little likelihood in obtaining relatively fine sediments. They were replaced prior to the cruise with oversample sites CB075S, CB076S, and CB077S. During the cruise, it was not possible to collect a sediment sample from scheduled sites SPB020S and CB076S due to lack of appropriate substrate (i.e., a lack of fine materials within a 100 m radius of the target coordinates). This sites were replaced with SPB074S and CB078S, the first scheduled oversample sites for these regions of the Bay, without a significant impact upon the cruise schedule. Page 7

9 2.8 Sample Labeling The sample ID labeling system is as follows: Where: RMP04S_XXXX RMP = Project 04 = Cruise Year S = Matrix (Sediment) XXXX = Unique ID number Page 8

10 Table RMP Sediment Cruise Site Descriptions. Depth not corrected for tidal height. Site Code Latitude Longitude Depth (ft) Substrate Description and Commentary Target Actual Target Actual Target Actual BA10 37º ' 37º ' 122º 3.838' 122º 3.855' Unconsolidated fines with Ampelisca tubes BA41 37º ' 37º ' 122º ' 122º ' Unconsolidated fines atop consolidated fines with BC11 37º 49.34' 37º ' 122º ' 122º ' anemones, shell hash, Ampelisca tubes Unconsolidated fines with many worms, clams, and bryozoans, and few anemones BD31 38º 1.447' 38º 1.398' 122º ' 122º ' Fine silt BF21 38º 6.931' 38º 6.849' 122º 2.429' 122º 2.498' Fine silt atop consolidated fines BG20 38º 3.537' 38º 3.485' 121º ' 121º ' Mostly sand with clam shells BG30 38º 1.369' 38º 1.359' 121º ' 121º ' Compact clay mixed with sand CB001S 37º ' 37º ' 122º 21.69' 122º ' 6 to Fine silt CB002S 37º ' 37º ' 122º ' 122º ' Thin layer of unconsolidated fines with Ampelisca tubes atop consolidated fines CB016S 37º ' 37º ' 122º ' 122º ' Unconsolidated fines above loose clay CB018S 37º ' 37º ' 122º ' 122º ' Unconsolidated fines with Ampelisca, tunicates and some shell debris atop shell hash CB020S 37º ' 37º ' 122º ' 122º ' Unconsolidated fines with bryozoans CB075S 37º ' 37º ' 122º ' 122º ' 6 to Unconsolidated fines with Ampelisca tubes CB076S 37º ' 37º ' 122º ' 122º ' Shell hash and sand; no sample collected CB077S 37º ' 37º ' 122º ' 122º ' Unconsolidated fines CB078S 37º ' 37º ' 122º ' 122º ' Consolidated fines with worm tubes and some shell hash; replacement site for CB076 LSB001S 37º 29.51' 37º ' 122º 5.911' 122º 5.878' Unconsolidated fines with Ampelisca tubes LSB002S 37º ' 37º ' 122º 4.679' 122º 4.724' Unconsolidated fines LSB015S 37º ' 37º ' 122º 6.900' 122º 6.926' 1 to Mostly unconsolidated fines LSB016S 37º ' 37º ' 122º 4.837' 122º 4.979' 1 to Unconsolidated fines with Ampelisca tubes LSB017S 37º ' 37º ' 122º 5.521' 122º 5.562' 3 to Unconsolidated fines LSB018S 37º ' 37º ' 122º 5.130' 122º 5.143' 1 to Semi-unconsolidated fines LSB019S 37º ' 37º ' 122º 6.687' 122º 6.669' Unconsolidated fines, worm tubes, anemones LSB020S 37º ' 37º ' 122º 5.223' 122º 5.227' Unconsolidated fines with Ampelisca tubes SB001S 37º ' 37º ' 122º ' 122º ' 3 to Heavy shell hash with fines, algae, tunicates Page 9

11 Site Code Latitude Longitude Depth (ft) Substrate Description and Commentary Target Actual Target Actual Target Actual SB002S 37º ' 37º ' 122º ' 122º ' 1 to Unconsolidated fines with algae SB015S 37º ' 37º ' 122º ' 122º ' 3 to Fines with shell hash SB016S 37º ' 37º ' 122º ' 122º ' 1 to Unconsolidated fines atop slightly consolidated fines with many tube worms SB017S 37º ' 37º ' 122º ' 122º ' 1 to Shell hash with fines and algae SB018S 37º ' 37º ' 122º ' 122º ' 6 to Unconsolidated fines with Ampelisca tubes SB019S 37º ' 37º ' 122º ' 122º ' Predominantly unconsolidated fines, anemones, tube worms, tunicates SB020S 38º 1.206' 37º ' 122º ' 122º ' Unconsolidated fines with Ampelisca tubes atop slightly consolidated fines SPB001S 38º 4.318' 38º 4.306' 122º ' 122º ' 6 to Unconsolidated fines with Ampelisca tubes atop slightly consolidated fines SPB002S 38º 0.984' 38º 0.968' 122º ' 122º ' 3 to Consolidated fines with algae SPB015S 38º 5.467' 38º 5.431' 122º ' 122º ' 3 to Unconsolidated fines with small worm tubes SPB016S 38º 3.782' 38º 3.752' 122º ' 122º ' 6 to Unconsolidated fines with Ampelisca tubes and clams SPB017S 38º 6.932' 38º 6.938' 122º ' 122º ' 1 to Unconsolidated fines atop clay SPB018S 38º 3.764' 38º 3.786' 122º ' 122º ' 6 to Clay with layer of clam shell hash SPB019S 38º 1.185' 38º 1.184' 122º ' 122º ' 3 to Unconsolidated fines SPB020S 38º 1.206' 38º 1.159' 122º ' 122º ' Very sandy; sample not collected SPB074S 38º 2.123' 38º 2.119' 122º ' 122º ' Unconsolidated fines with Ampelisca tubes SU001S 38º 5.967' 38º 5.962' 122º 2.795' 122º 2.831' Consolidated fines with sand overlying peat SU002S 38º 3.534' 38º 3.540' 121º ' 121º ' Sandy SU015S 38º 6.763' 38º 6.664' 122º 3.695' 122º 3.663' 6 to Fine silt SU016S 38º 6.117' 38º 6.091' 122º 1.042' 122º 1.102' 3 to Consolidated fines SU017S 38º 6.035' 38º 6.021' 122º 2.162' 122º 2.222' Sandy with some consolidated fines SU018S 38º 4.086' 38º 4.106' 121º ' 121º ' Unconsolidated fines SU019S 38º 3.589' 38º 3.595' 122º 5.573' 122º 5.655' 1 to Thin layer of fines over hard clay with sand SU020S 38º 6.759' 38º 6.738' 122º 1.223' 122º 1.383' 3 to Consolidated fines Page 10

12 Site Code As and Se (BRL) Hg/mmHg (UCSC) Trace Organics (EBMUD) Trace Metals (CCSF) Cognates (UCSC) Trace Organics Archive (AMS) Trace Metals Archive (AMS) Toxicity (GCML) Oxic Layer Analysis (SFEI) Microbial Communities Special Studies (SDGES) CTD (AMS) ph (AMS) Table RMP Sediment Cruise Sample Sites and Analytes BA BA BC BD BF BG BG CB001S 6.94 CB002S 6.99 CB016S 6.73 CB018S 7.00 CB020S 6.90 CB075S 6.83 CB077S 7.07 CB078S 7.01 LSB001S 7.11 LSB002S 7.19 LSB015S 7.11 LSB016S 6.90 LSB017S 7.12 LSB018S 6.95 LSB019S 6.90 LSB020S 7.03 SB001S 6.93 SB002S 6.86 SB015S 6.71 SB016S 6.87 SB017S 6.94 SB018S 6.93 SB019S 6.92 SB020S 6.94 SPB001S 6.92 SPB002S 6.84 SPB015S 7.39 Page 11

13 Site Code As and Se (BRL) Hg (UCSC) Trace Organics (EBMUD) Trace Metals (CCSF) Cognates (UCSC) Trace Organics Archive (AMS) Trace Metals Archive (AMS) Toxicity (GCML) Oxic Layer Analysis (SFEI) Microbial Communities Special Studies (SDGES) CTD (AMS) ph (AMS) SPB016S 7.01 SPB017S 7.36 SPB018S 6.73 SPB019S 6.69 SPB074S 6.89 SU001S 7.01 SU002S 7.32 SU015S 6.82 SU016S 7.04 SU017S 7.32 SU018S 6.82 SU019S 7.14 SU020S 7.13 Page 12

Cruise Report 2007 RMP Sediment Report

Cruise Report 2007 RMP Sediment Report August 21-29, 2007 1.0 INTRODUCTION This report details activities associated with the Regional Monitoring Program for Water Quality in the San Francisco Estuary