Field applications of the second-generation Environmental Sample Processor (ESP) for remote detection of harmful algae: 2006-2007

We assess the application of the second-generation Environmental Sample Processor (ESP) for the detection of harmful algal bloom (HAB) species in field and laboratory settings using two molecular probe techniques: a sandwich hybridization assay (SHA) and fluorescent in situ hybridization (FISH). During spring 2006, the first time this new instrument was deployed, the ESP successfully automated application of DNA probe arrays for various HAB species and other planktonic taxa, but non-specific background binding on the SHA probe array support made results interpretation problematic. Following 2006, the DNA array support membrane that we were using was replaced with a different membrane, and the SHA chemistry was adjusted. The sensitivity and dynamic range of these modifications were assessed using 96-well plate and ESP array SHA formats for several HAB species found commonly in Monterey Bay over a range of concentrations; responses were significantly correlated (p < 0.01). Modified arrays were deployed in 2007. Compared to 2006, probe arrays showed improved signal:noise, and remote detection of various HAB species was demonstrated. We confirmed that the ESP and affiliated assays can detect HAB populations at levels below those posing human health concerns, and results can be related to prevailing environmental conditions in near real-time.

Temporal trends in reef fish assemblages inside Virgin Islands National Park and around St. John, U.S. Virgin Islands, 1988-2006

This report is a result of long-term fish monitoring studies supported by the National Park Service (NPS) at the Virgin Islands National Park since 1988 and is now a joint NPS and NOAA collaboration. Reef fish monitoring data collected from 1988 to 2006 within Virgin Islands National Park (VINP) and adjacent reefs around St. John, U.S. Virgin Islands (USVI) were analyzed to provide information on the status of reef fishes during the monitoring period. Monitoring projects were initiated by the National Park Service (NPS) in the 1980s to provide useful data for evaluation of resources and for development of a long-term monitoring program. Monthly monitoring was conducted at two reef sites (Yawzi Point and Cocoloba Cay) starting in November 1988 for 2.5 years to document the monthly/seasonal variability in reef fish assemblages. Hurricane Hugo (a powerful Category 4 storm) struck the USVI in September 1989 resulting in considerable damage to the reefs around St. John. Abundance of fishes was lower at both sites following the storm, however, a greater effect was observed at Yawzi Point, which experienced a more direct impact from the hurricane. The storm affected species differently, with some showing only small, short-term declines in abundance, and others, such as the numerically abundant blue chromis (Chromis cyanea), a planktivorous damselfish, exhibiting a larger and longer recovery period. This report provides: 1) an evaluation of sampling methods, sample size, and methods used during the sampling period, 2) an evaluation of the spatial and temporal variability in reef fish assemblages at selected reef sites inside and outside of VINP, and 3) an evaluation of trends over 17 years of monitoring at the four reference sites. Comparisons of methods were conducted to standardize assessments among years. Several methods were used to evaluate sample size requirements for reef fish monitoring and the results provided a statistically robust justification for sample allocation.

Major and trace element analytical methods of the National Status and Trends Program: 2000-2006

This document contains analytical methods that detail the procedures for determining major and trace element concentrations in bivalve tissue and sediment samples collected as part of the National Status and Trends Program (NS&T) for the years 2000-2006. Previously published NOAA Technical Memoranda NOS ORCA 71 and 130 (Lauenstein and Cantillo, 1993; Lauenstein and Cantillo, 1998) detail trace element analyses for the years 1984-1992 and 1993-1996, respectively, and include ancillary, histopathology, and contaminant (organic and trace element) analytical methods. The methods presented in this document for trace element analysis were utilized by the NS&T Mussel Watch and Bioeffects Projects. The Mussel Watch Project has been monitoring contaminants in bivalves and sediment for over 20 years, and is the longest active contaminant monitoring program operating in U.S. costal waters. Approximately 280 Mussel Watch sites are monitored on biennial and decadal timescales using bivalve tissue and sediment, respectively. The Bioeffects Project applies the sediment quality approach, which uses sediment contamination measurements, toxicity tests and benthic macroinfauna quantification to characterize pollution in selected estuaries and coastal embayments. Contaminant assessment is a core function of both projects. Although only one contract laboratory was used by the NS&T Program during the specified time period, several analytical methods and instruments were employed. The specific analytical method, including instrumentation and detection limit, is noted for each measurement taken and can be found at http://NSandT.noaa.gov. The major and trace elements measured by the NS&T Program include: Al, Si, Cr, Mn, Fe, Ni, Cu, Zn, As, Se, Sn, Sb, Ag, Cd, Hg, Tl and Pb.

National report of the frame survey 2006 in the Ugandan part of Lake Victoria

Fisheries Frame surveys have been carried out on Lake Victoria biannually since 2000 to determine· the number of fishers, fish landing sites, facilities at the landing sites. Information on the composition fishing crafts, their mode of propulsion, fishing gears and the fish species they target is also collected. This information is used to guide development and management of the lake's fisheries. The results of the four surveys carried out since 2000 show that the number of landing sites has decreased by 24% from 597 in 2000 to 481 in 2006, mainly as result of reorganisation of landing sites into Beach Management Units (BMUs). The fish landing sites continue to have inadequate facilities to service the fisheries industry e.g. in the 2006 survey only 11.2% of landing sites had fish shades; <0.6% had cold rooms; 3.5% had electricity; and only 35.5% had toilet facilities. Similarly, only 11.4% of landing sites had portable water; 2.5% had jetties, 3.7% had 'fish stores; and 36% were accessible by all weather roads. There is need to improve facilities servicing fisheries at landing sites, with major emphasis on sanitary facilities, especially toilets and portable water. The BMUs should be sensitised to prioritise the construction and utilisation of public toilet facilities at their respective landing sites. The ultimate aim should be to have public toilets at all fish landing sites. The trend of the various indicators of fishing effort has continued upwards: The total number of fishers increased by 43.5% from 37,721 in 2004 to 54,148 in 2006 and the number of fishing crafts increased (43.9%) from 16,775 in 2004 to 24,148 in 2006 over the same period. The total number of gillnets increased by 28.6% from 458,597 in 2004 to 589,777 in 2006 and the number of long line hooks increased by 136% from 968,848 to 2,285,609. The number of fishing crafts using outboard engines also increased from 3,173 in 2004 to 5,047 in 2006 suggesting that more fishers were going far in search of fish. There is still a large number of illegal gears especially beach seines, which increased by 58.8% from 954 in 2004 to 1420 in 2006. Efforts to remove these very destructive gears should be stepped up. There was also larger increase in number of illegal gillnets <5 inch mesh size. These increased by 63% from 56,246 in 2004 to 91,740 in 2006 compared with 23.8% increase of gillnets ~5 inch mesh size. There were also large increases in the numbers of gillnets of 5 and 5% inch mesh size, which increased by 48% and 130% from 2004 to 2006 implying a trend towards use of smaller gillnet mesh sizes. The number of traps which are used in shallow vegetated areas, flood plains and river mouths to target tilapiines and riverine species decreased drastically from 5,361 traps in 2004 to only 499 traps in 2006, a decrease of 974%, a phenomenon attributed to the receding water levels which have left the shallow vegetated areas dry. A total of 17,475 fishing crafts, 72% of all fishing crafts, in the Ugandan part of the lake are still using paddles and the. number of parachute crafts is also still very high, (Le. 5,064) comprising a high proportion (21 %) of the total number of fishing. There is need to promote the use of large fishing crafts with sails or a combination of sail and outboard motor. The Mukene fishery in the Ugandan waters of Lake Victoria has remained underdeveloped with only 9% of all fishing crafts operating in this fishery. Also less than 2% of fishing crafts with sails or motor operate in this fishery which implies that it is limited to near shore waters. Effort should be made to develop this fishery as it appears to have high potential, especially in deep offshore waters which are hardly fished.

A report of the Fisheries Catch Assessment Survey in the Ugandan waters of Lake Victoria for the August 2006 survey

This report presents findings of the CAS conducted in the Ugandan waters of Lake Victoria in August 2006. The results of the previous five CASs conducted under the same programme in July, August, September, and November 2005, and March 2006 are included to show the emerging trends. The results of the preceding CASs, which were hitherto estimated using raising factors from the 2004 Frame survey data, are updated in this report using raising factors based on the 2006 Frame survey data. Through regular CASs, information is building up to show the new picture of fish production in the Ugandan waters of the lake which is based on field observations. Similar surveys are simultaneously conducted in the Kenyan and Tanzanian parts of the lake which provide the lake wide perspective of fisheries production.