Evaluation of salmon and steelhead spawning habitat quality in the South Fork Trinity River Basin, 1997

Sediment sampling was used to evaluate chinook salmon (Oncorhynchus tshawytscha) and steelhead (O. mykiss) spawning habitat quality in the South Fork Trinity River (SFTR) basin. Sediment samples were collected using a McNeil-type sampler and wet sieved through a series of Tyler screens (25.00 mm, 12.50 mm, 6.30 mm, 3.35 mm, 1.00 mm, and 0.85 mm). Fines (particles < 0.85 mm) were determined after a l0-minute settling period in Imhoff cones. Thirteen stations were sampled in the SFTR basin: five stations were located in mainstem SFTR between rk 2.1 and 118.5, 2 stations each were located in EF of the SFTR, Grouse Creek, and Madden Creek, and one station each was located in Eltapom and Hayfork Creeks. Sample means for fines(particles < 0.85 mm) fer SFTR stations ranged between 14.4 and 19.4%; tributary station sample mean fines ranged between 3.4 and 19.4%. Decreased egg survival would be expected at 4 of 5 mainstem SFTR stations and at one station in EF of SFTR and Grouse Creek where fines content exceed 15%. Small gravel/sand content measured at all stations were high, and exceed levels associated with reduced sac fry emergence rates. Reduction of egg survival or sac fry emergence due to sedimentation in spawning gravels could lead to reduced juvenile production from the South Fork Trinity River. (PDF contains 18 pages.)

Biology, ecology, control and management of the invasive Indo-Pacific lionfish: An updated integrated assessment

Venomous Indo-Pacific lionfish (Pterois miles and P. volitans) are now established along the Southeast U.S.A. and parts of the Caribbean and pose a serious threat to reef fish communities of these regions. Lionfish are likely to invade the Gulf of Mexico and potentially South America in the near future. Introductions of lionfish were noted since the 1980s along south Florida and by 2000 lionfish were established off the coast of North Carolina. Lionfish are now one of the more numerous predatory reef fishes at some locations off the Southeast U.S.A. and Caribbean. Lionfish are largely piscivores that feed occasionally on economically important reef fishes. The trophic impacts of lionfish could alter the structure of native reef fish communities and potentially hamper stock rebuilding efforts of the Snapper –Grouper Complex. Additional effects of the lionfish invasion are far-reaching and could increase coral reef ecosystem stress, threaten human health, and ultimately impact the marine aquarium industry. Control strategies for lionfish are needed to mitigate impacts, especially in protected areas. This integrated assessment provides a general overview of the biology and ecology of lionfish including genetics, taxonomy, reproductive biology, early life history and dispersal, venom defense and predation, and feeding ecology. In addition, alternative management actions for mitigating the negative impacts of lionfish, approaches for reducing the risk of future invasions, and directions for future research are provided.

Habitat enhancing marine structures: Creating habitat in urban waters

Although maritime regions support a large portion of the world’s human population, their value as habitat for other species is overlooked. Urban structures that are built in the marine environment are not designed or managed for the habitat they provide, and are built without considering the communities of marine organisms that could colonize them (Clynick et al., 2008). However, the urban waterfront may be capable of supporting a significant proportion of regional aquatic biodiversity (Duffy-Anderson et al., 2003). While urban shorelines will never return to their original condition, some scientists think that the habitat quality of urban waterfronts could be significantly improved through further research and some design modifications, and that many opportunities exist to make these modifications (Russel et al., 1983, Goff, 2008). Habitat enhancing marine structures (or HEMS) are a potentially promising approach to address the impact of cities on marine organisms including habitat fragmentation and degradation. HEMS are a type of habitat improvement project that are ecologically engineered to improve the habitat quality of urban marine structures such as bulkheads and docks for marine organisms. More specifically, HEMS attempt to improve or enhance the physical habitat that organisms depend on for survival in the inter- and sub-tidal waterfronts of densely populated areas. HEMS projects are targeted at areas where human-made structures cannot be significantly altered or removed. While these techniques can be used in suburban or rural areas restoration or removal is preferred in these settings, and HEMS are resorted to only if removal of the human-made structure is not an option. Recent research supports the use of HEMS projects. Researchers have examined the communities found on urban structures including docks, bulkheads, and breakwaters. Complete community shifts have been observed where the natural shoreline was sandy, silty, or muddy. There is also evidence of declines in community composition, ecosystem functioning, and increases in non-native species abundances in assemblages on urban marine structures. Researchers have identified two key differences between these substrates including the slope (seawalls are vertical; rocky shores contain multiple slopes) and microhabitat availability (seawalls have very little; rocky shores contain many different types). In response, researchers have suggested designing and building seawalls with gentler slopes or a combination of horizontal and vertical surfaces. Researchers have also suggested incorporating microhabitat, including cavities designed to retain water during low tide, crevices, and other analogous features (Chapman, 2003; Moreira et al., 2006) (PDF contains 4 pages)

Social Organisation of the Short-finned Pilot Whale, Globicephala macrorhynchus, with Special Reference to the Comparative Social Ecology of Delphinids

As a contribution to the understanding of comparative social trends within the cetacean family Delphinidae, a 22-month study was conducted on the shortfinned pilot whale, Globicephala macrorhynchus, which has been suggested to have a unique social system in which males and females in the same group are related and mating occurs outside of the group. The individual identification of 495 pilot whales, analysed in daily group association patterns, allowed identification of 46 pods. They were classified as productive or non-productive based on the presence or absence of immature animals. Productive pods were a significantly larger, although 12% of them lacked adult males. Two classes of whales (residents and visitors) were defined by patterns of occurrence,suggesting differential patterns of habitat use. Resident pods occasionally travelled together (41% of all groups) and associations between age and sex classes showed that in mixed-pod groups, the highest ranked associations of the reproductive females were with males from other pods, while within pods, adult males and females associated less. During summer, the proposed peak conception period, pilot whale groups were significantly larger and contained individuals from a significantly greater number of pods. These findings support the hypothesis that males and females mate when associating with individuals from other pods. A comparative analysis of sexual dimorphism, brain size, and testes size, habitat, prey and group size within the 17 delphinid genera identified a correlation between sexual dimorphism and body size, but relative measures of brain size and testes size did not correlate with broad ecological or social classifications. However, a comparison of three delphinid societies identified two distinct male mating systems: males of the small, mono-morphic Tursiops truncatus live in age/sex segregated groups and mate with a number of discrete female communities. Males in the large sexually dimorphic Glob icephala spp. and Orcinus orca mate with associated female pods and yet remain with their female kin. This corresponds to the avunculate social system described in some human societies. It could evolve from a promiscuous mating system where there is little guarantee of paternity and where males that live with their kin increase their inclusive fitness.

Natural habitat and population control mechanism of Crassula helmsii (Australian Swamp Stonecrop) in Australia

The plant Crassula helmsii (Kirk) Cochayne, was likely to become widely distributed and to dominate many damp and wet areas of nature reserves, recreational waters and agricultural drainage of Britain. The aim of this report was to study Australian Swamp Stonecrop in its natural habitat where it is in balance with its environment. This contrasts with its rapid and widespread distribution in the U.K. where its growth interferes with the use of fisheries and amenity lakes but also reduces the value of nature reserves and sites of special scientific interest by suppressing native flora. It was proposed to observe its growth at a variety of sites over its natural distribution and to include some environmental factors, e.g. water-level, water-chemistry (nutrients, acidity and alkalinity), frost-tolerance, salinity, with the help of portable sensors, locally-available services or data. 8 weeks of travel in Australia allowed time to study the plant in its natural habitat including the coastal areas of the southern half of the continent i.e . Western Australia, South Australia, New South Wales, Victoria, Tasmania and southern Queensland. The overall objective was to determine the environmental range by visits to selected sites of Crassula helmsii over its geographic range.

Habitat segregation in fish assemblages

The segregation of habitats of fish assemblages found in the chalk streams and rivers within the Wessex, South West and Southern Water Authority boundaries in southern England have been examined. Habitat segregation is the most frequent type of resource partitioning in natural communities. The habitat of individual fish species will be defined in order to determine the following: (1) the requirements of each species in terms of depth, current velocity, substrate, cover etc.; (2) identify the essential habitat variables in the segregation of species; (3) whether species in an assemblage demonstrate resource partitioning with reference to habitat, and (4) the mechanisms behind such resource partitioning.

Scale-Dependent Habitat Selection of Nesting Great Egrets and Snowy Egrets

Foraging habitat selection of nesting Great Egrets ( Ardea alba ) and Snowy Egrets ( Egretta thula ) was investigated within an estuary with extensive impounded salt marsh habitat. Using a geographic information system, available habitat was partitioned into concentric bands at five, ten, and 15 km radius from nesting colonies to assess the relative effects of habitat composition and distance on habitat selection. Snowy Egrets were more likely than Great Egrets to depart colonies and travel to foraging sites in groups, but both species usually arrived at sites that were occupied by other wading birds. Mean flight distances were 6.2 km (SE = 0.4, N = 28, range 1.8-10.7 km) for Great Egrets and 4.7 km (SE = 0.48, N = 31, range 0.7-12.5 km) for Snowy Egrets. At the broadest spatial scale both species used impounded (mostly salt marsh) and estuarine edge habitat more than expected based on availability while avoiding unimpounded (mostly fresh water wetland) habitat. At more local scales habitat use matched availability. Interpretation of habitat preference differed with the types of habitat that were included and the maximum distance that habitat was considered available. These results illustrate that caution is needed when interpreting the results of habitat preference studies when individuals are constrained in their choice of habitats, such as for central place foragers.

Variations saisonnières des facteurs hydrologiques et du biovolume microalgal benthique au sein d'un habitat artificiel (acadja-enclos) dans la lagune Ebrié: site d'Adjapoté

This paper presents the results of a comparative study of chemical and physical characteristics (temperature, oxygen, salinity, turbidity, pH, nutrient: phosphates, nitrates, nitrites, ammoniac) within the extensive aquaculture structure (acadja-enclosure or artificial habitats for fishes) and in the surrounding water. Biological characteristics of the periphyton growing on bamboos from acadja-enclosure were also described.

River Wyre salmon and sea trout spawning habitat restoration / creation project. Gravel enhancement schemes.

As part of an overall desire to maintain and improve the migratory salmonid population in the River Wyre, a project was commissioned to investigate remedial action which may improve and enhance spawning success and lead to an eventual improvement in the status of adult stocks. The report, titled "River Wyre Salmon and Sea Trout Spawning Habitat Restoration/Creation Project", concluded that usable spawning gravels appeared to be in short supply in the River Wyre catchment and may be the limiting factor influencing the returning adult stock, as juvenile nursery habitat was not found to be limiting. This report looks at gravel enhancement schemes to improve River Wyre salmon and sea trout spawning habitat restoration. It examines methods for gravel enhancement schemes: mechanical cleaning and construction of gravel addition structures. Includes sites figures of sites identified for enhancement.

Distribution, movements, and habitat use of small striped bass (Morone saxatilis) across multiple spatial scales

Distribution, movements, and habitat use of small (<46 cm, juveniles and individuals of unknown maturity) striped bass (Morone saxatilis) were investigated with multiple techniques and at multiple spatial scales (surveys and tag-recapture in the estuary and ocean, and telemetry in the estuary) over multiple years to determine the frequency and duration of use of non-natal estuaries. These unique comparisons suggest, at least in New Jersey, that smaller individuals (<20 cm) may disperse from natal estuaries and arrive in non-natal estuaries early in life and take up residence for several years. During this period of estuarine residence, individuals spend all seasons primarily in the low salinity portions of the estuary. At larger sizes, they then leave these non-natal estuaries to begin coastal migrations with those individuals from nurseries in natal estuaries. These composite observations of frequency and duration of habitat use indicate that non-natal estuaries may provide important habitat for a portion of the striped bass population.

Comparison of habitat-based indices of abundance with fishery-independent biomass estimates from bottom trawl surveys

Rockfish species are notoriously difficult to sample with multispecies bottom trawl survey methods. Typically, biomass estimates have high coefficients of variation and can fluctuate outside the bounds of biological reality from year to year. This variation may be due in part to their patchy distribution related to very specific habitat preferences. We successfully modeled the distribution of five commercially important and abundant rockf ish species. A two-stage modeling method (modeling both presence-absence and abundance) and a collection of important habitat variables were used to predict bottom trawl survey catch per unit of effort. The resulting models explained between 22% and 66% of the variation in rockfish distribution. The models were largely driven by depth, local slope, bottom temperature, abundance of coral and sponge, and measures of water column productivity (i.e., phytoplankton and zooplankton). A year-effect in the models was back-transformed and used as an index of the time series of abundance. The abundance index trajectories of three of five species were similar to the existing estimates of their biomass. In the majority of cases the habitat-based indices exhibited less interannual variability and similar precision when compared with stratified survey-based biomass estimates. These indices may provide for stock assessment models a more stable alternative to current biomass estimates produced by the multispecies bottom trawl survey in the Gulf of Alaska.

A modeling approach to identify optimal habitat and suitable fishing grounds for neon flying squid (Ommastrephes bartramii) in the Northwest Pacific Ocean

We developed a habitat suitability index (HSI) model to understand and identify the optimal habitat and potential fishing grounds for neon f lying squid (Ommastrephes bartramii) in the Northwest Pacific Ocean. Remote sensing data, including sea surface temperature, sea surface salinity, sea surface height, and chlorophyll-a concentrations, as well as fishery data from Chinese mainland squid f leets in the main fishing ground (150–165°E longitude) from August to October, from 1999 to 2004, were used. The HSI model was validated by using fishery data from 2005. The arithmetic mean modeling with three of the environmental variables—sea surface temperature, sea surface height anomaly, and chlorophyll- a concentrations—was defined as the most parsimonious HSI model. In 2005, monthly HSI values >0.6 coincided with productive fishing grounds and high fishing effort from August to October. This result implies that the model can reliably predict potential f ishing grounds for O. bartramii. Because spatially explicit fisheries and environmental data are becoming readily available, it is feasible to develop a dynamic, near real-time habitat model for improving the process of identifying potential fishing areas for and optimal habitats of neon flying squid.

Environmental characterization of seasonal trends and foraging habitat of bottlenose dolphins (Tursiops truncatus) in northern Gulf of Mexico bays

A description of the foraging habitat of a cetacean species is critical for conservation and effective management. We used a fine-scale microhabitat approach to examine patterns in bottlenose dolphin (Tursiops truncatus) foraging distribution in relation to dissolved oxygen, turbidity, salinity, water depth, water temperature, and distance from shore measurements in a highly turbid estuary on the northern Gulf of Mexico. In general, environmental variation in the Barataria Basin marine environment comprises three primary axes of variability (i.e., factors: temperature and dissolved oxygen, salinity and turbidity, and distance and depth) that represent seasonal, spatial-seasonal, and spatial scales, respectively. Foraging sites were differentiated from nonforaging sites by significant differences among group size, temperature, turbidity, and season. Habitat selection analysis on individual variables indicated that foraging was more frequently observed in waters 4–6 m deep, 200–500 m from shore, and at salinity values of around 20 psu. This fine-scale and multivariate approach represents a useful method of exploring the complexity, gradation, and detail of the relationships between environmental variables and the foraging distribution patterns of bottlenose dolphin.

Assessment of habitat quality for juvenile California halibut (Paralichthys californicus) in a seasonally arid estuary

We evaluated habitat quality for juvenile California halibut (Paralichthys californicus) in a Pacific Coast estuary lacking in strong salinity gradients by examining density, recent otolith growth rates, and gut fullness levels of wild-caught and caged juveniles for one year. Juveniles <200 mm standard length were caught consistently in the inner, central, and outer sections of the estuary. The density of juveniles was two times higher in the inner estuary during most of the year, consistent with active habitat selection by part of the population. A generalized linear model indicated temperature, sampling time, and the interaction between salinity and temperature were significantly related to density. However, the model explained only 21% of the variance. Gut fullness levels of wild-caught juveniles were highest during the summer, but recent otolith growth rates were not related to temperature. The proportion of individuals feeding successfully indicated that seasonal differences in food availability are more important than spatial variation in prey abundance in driving feeding success. Feeding success of caged fishes was limited, precluding the use of growth rates as indicators of local habitat quality. However, marginal increment widths were reliable indicators of somatic growth at low growth rates over two-week periods. The relatively high growth rates and abundance of small wild-caught juveniles found throughout the estuary indicates that the entire estuary system has the potential for serving as nursery habitat.

Use of pop-up satellite archival tag technology to study postrelease survival of and habitat use by estuarine and coastal fishes: an application to striped bass (Morone saxatilis)

Pop-up satellite archival tags (PSATs) have been used to study movements, habitat use, and postrelease survival of large pelagic vertebrates, but the size of these tags has historically precluded their use on smaller coastal species. To evaluate a new generation of smaller PSATs for the study of postrelease survival and habitat use of coastal species, we attached Microwave Telemetry, Inc., X-tags to ten striped bass (Morone saxatilis) 94–112 cm total length (TL) caught on J hooks and circle hooks during the winter recreational fishery in Virginia. Tags collected temperature and depth information every five minutes and detached from the fish after 30 days. Nine of the ten tags released on schedule and eight transmitted 30% to 96% (mean 78.6%) of the archived data. Three tags were physically recovered during or after the transmission period, allowing retrieval of all archived data. All eight striped bass whose tags transmitted data survived for 30 days after release, including two fish that were hooked deeply with J hooks. The eight fish spent more than 90% of their time at depths less than 10 m and in temperatures of 6–9°C, demonstrated no significant diel differences in depth or temperature utilization (P>0.05), and exhibited weak periodicities in vertical movements consistent with daily and tidal cycles.