Restoring native fish assemblages to a regulated California stream using the natural flow regime concept

We examined the response of fishes to establishment of a new flow regime in lower Putah Creek, a regulated stream in California, U.S.A. The new flow regime was designed to mimic the seasonal timing of natural increases and decreases in stream flow. We monitored fish assemblages annually at six sample sites distributed over approximately 30 km of stream for eight years before and nine years after the new flow regime was implemented. Our purpose was to determine whether more natural stream flow patterns would reestablish native fishes and reduce the abundances of alien (nonnative) fishes. At the onset of our study, native fishes were constrained to habitat immediately (<1 km) below the diversion dam, and alien species were numerically dominant at all downstream sample sites. Following implementation of the new flow regime, native fishes regained dominance across more than 20 km of lower Putah Creek. We propose that the expansion of native fishes was facilitated by creation of favorable spawning and rearing conditions (e.g., elevated springtime flows), cooler water temperatures, maintenance of lotic (flowing) conditions over the length of the creek, and displacement of alien species by naturally occurring high-discharge events. Importantly, restoration of native fishes was achieved by manipulating stream flows at biologically important times of the year and only required a small increase in the total volume of water delivered downstream (i.e., water that was not diverted for other uses) during most water years. Our results validate that natural flow regimes can be used to effectively manipulate and manage fish assemblages in regulated rivers.     

Community response patterns: evaluating benthic invertebrate composition in metal-polluted streams.

Human activities are modifying the condition and character of ecosystems at a rapid rate. Because of these rapid changes, questions concerning how ecosystems and their assemblages respond to anthropogenic stressors have been of general interest. Accurate prediction of assemblage composition in ecosystems with anthropogenic degradation requires that we assess both how assemblages respond to stressors and the generality of the responses. We ask whether assemblage composition among stream sites becomes more similar after exposure to a common stressor. Using data from biological monitoring programs in the southern Rocky Mountain ecoregion of Colorado and in West Virginia, we compare benthic invertebrate similarity and assemblage composition among sites having different levels (background, low, medium, and high) of heavy-metal pollution. Invertebrate assemblages were most similar within the background metal category, and similarity was progressively lower in low, medium, and high metal categories. An analysis of the frequency of occurrence of genera within metal categories reveals taxonomic shifts that conform to expectations based on metal tolerance of benthic invertebrates. However, different metal-tolerant genera were found at different metal-impacted sites, suggesting that local abiotic and biotic processes may influence the identity of the metal-tolerant genera that become established in polluted sites. Low community similarity in the medium and high-metal categories suggests that accurate prediction of assemblage composition at impacted sites may be challenging.     

Relationship between depth, sediment, latitude, and the structure of benthic infaunal assemblages on the mainland shelf of southern California

A regional benthic survey was conducted in 1994, and the data were used to assess the relationship among three habitat factors (depth, sediment grain size, and latitude) and the distribution of benthic infaunal assemblages on the southern California coastal shelf. Benthic samples were collected with a 0.1 m² Van Veen grab from 251 sites on the continental shelf (10–200 m deep) from Point Conception, California, to the United States–Mexico international border. The relationship between habitat and assemblages was investigated by conducting a Q-mode cluster analysis to define groups of stations with similar species composition and then examining whether differences were present in physical habitat attributes among those groups of stations. Analysis of data from 175 uncontaminated sites yielded four habitat-related benthic infaunal assemblages along the southern California coastal shelf: a shallow-water assemblage from 10–32 m, a mid-depth assemblage between 32 and 115 m, and two deep-water (115–200 m) assemblages, one in fine and one in coarse sediments. These empirically defined points in the depth and sediment grain size gradients can be used to define reference habitats for the development of biocriteria. Benthic abundance and diversity were greatest in the mid-depth assemblage, conforming to predictions for benthic assemblages in regions of upwelling. Within the 500 km of coastline examined, latitude was not an important factor in defining assemblages. Received: 3 December 1999 / Accepted: 9 October 2000     

Flows, droughts, and aliens: factors affecting the fish assemblage in a Sierra Nevada, California, stream

The fishes of Martis Creek, in the Sierra Nevada of California (USA), were sampled at four sites annually over 30 years, 1979-2008. This long-term data set was used to examine (1) the persistence and stability of the Martis Creek fish assemblage in the face of environmental stochasticity; (2) whether native and alien fishes responded differently to a natural hydrologic regime (e.g., timing and magnitude of high and low flows); and (3) the importance of various hydrologic and physical habitat variables in explaining the abundances of native and alien fish species through time. Our results showed that fish assemblages were persistent at all sample sites, but individual species exhibited marked interannual variability in density, biomass, and relative abundance. The density and biomass of native fishes generally declined over the period of study, whereas most alien species showed no significant long-term trends. Only alien rainbow trout increased in both density and biomass at all sites over time. Redundancy analysis identified three hydrologic variables (annual 7-day minimum discharge, maximum winter discharge, and number of distinct winter floods) and two habitat variables (percentage of pool habitat and percentage of gravel substrate) that each explained a significant portion of the annual variation in fish assemblage structure. For alien taxa, their proportional contribution to the total fish assemblage was inversely related to mean annual streamflow, one-day maximum discharge in both winter and spring, and the frequency of springtime floods. Results of this study highlight the need for continuous annual monitoring of streams with highly variable flow regimes to evaluate shifts in fish community structure. Apparent successes or failures in stream management may appear differently depending on the time series of available data.     

The effects of catchment land use on water quality and macroinvertebrate assemblages in Otara Creek,New Zealand

The effect of catchment land use on water quality and macroinvertebrate communities was examined by using data gathered during a 2004 reconnaissance of nine sites in the Otara Creek, New Zealand. Data collected included macroinvertebrate, water chemistry and sediments characteristics. Macroinvertebrate data were used in metric and index calculations. A total of 61 macroinvertebrate taxa, with 3032 total individuals, were identified from the macroinvertebrates samples collected from nine sites in Otara Creek. The greatest number of macroinvertebrate taxa was recorded within bush sites (mean>25), while the urban sites had the least number of taxa (mean=10). Pasture sites were intermediate with the mean>17. Taxa number differed significantly across land use. Mean macroinvertebrates abundance varied across the sites and land uses. The highest macroinvertebrates mean abundance was recorded in urban and pasture sites, while bush sites had significantly lower mean abundance. Physico-chemical parameters decreased from bush toward urban streams. Biotic indices were sensitive to changes in macroinvertebrates community structure across land uses with mean scores decreasing from bush to urban and pasture streams. Ordination of biological data showed a clear separation of bush from urban and pastures streams. Analysis of similarities revealed significant differences in macroinvertebrates between both stream groups and land-use groups. The observed macroinvertebrate assemblage pattern was best correlated with a single variable, conductivity, temperature, turbidity, nitrate and dissolved oxygen. The combination of these environmental variables best explained the changes in the macroinvertebrate assemblages between sites. This study demonstrates that catchment land use may significantly affect the water quality and macroinvertebrate communities in an ecosystem.     

Soil metabolic pulses: water, substrate, and biological regulation

Pulses of metabolic activity are a common ecological response to intermittently available resources, and in soils these pulses often occur in response to wetting. To better understand variation in soil pulses, we conducted a distributed field experiment at seven sites along a 2200-m elevation transect in southern California, USA. Treatments included both water and water + substrate additions and two measurements of soil respiration within one hour. These experiments were repeated 11 times throughout 2009-2010. Additions of substrate led to consistently higher pulse fluxes, exceeding 10 micromol CO2 x m(-2( x s(-1), than additions of water alone. These results support a sequential limitation by two resources where an initial limiting resource acts as a switch and, after activation, processes are regulated by a second resource. In contrast to general expectations of increasing pulses with higher soil organic matter (SOM), pulses exhibited strong scale dependencies. Pulses during the summer period and SOM were correlated positively within sites and negatively between sites. This cross-scale divergence implies that, at low elevations, the proportion of SOM available for pulse metabolism was a much larger fraction than at higher elevations. With expected climate changes leading to more frequent drying-wetting cycles, regulation of metabolic pulses will increasingly influence long-term biogeochemical dynamics.     

Changes in and slow recovery of a meiobenthic nematode assemblage following a hypoxic period in the Gullmar Fjord basin,Sweden

Meiobenthos samples were collected from Gullmar Fjord, on the Swedish west coast, for just over 2 yr (December 1978–February 1981, inclusive), spanning a short period of severe hypoxia. Previously published analysis indicated no meiofaunal response at the major taxon level. Nematode samples were further analysed to the genus level. Data were analysed with both univariate and multivariate statistics. Although there was no immediate response to the hypoxic period, changes in assemblage structure at both genus and family level during the subsequent year may have been caused by it: diversity was reduced, multivariate assemblage structure was altered, and within-site variability was considerably increased. These changes may have resulted directly from the influence of hypoxia on reproductive success and juvenile survival and/or indirectly as a consequence of the complete disappearance of the macrobenthos (due to the hypoxia) which would alter macrobenthos-meiobenthos interactions. A year after the hypoxia there was no evidence that the nematode assemblage structure was returning to its pre-hypoxia state. This suggests that in physically undisturbed, deep sites, such as the Gullmar Fjord basin, recovery of nematode assemblages after environmental disturbance may be a lengthy process.     

Influence of a dominant consumer species reverses at increased diversity

Theory and experiments indicate that changes in consumer diversity affect benthic community structure and ecosystem functioning. Although the effects of consumer diversity have been tested in the laboratory and the field, little is known about effects of consumer diversity in the subtidal zone, one of the largest marine habitats. We investigated the grazing effects of sea urchins on algal abundance and benthic community structure in a natural subtidal habitat of the Galápagos Islands. Three species of urchins (Eucidaris, Lytechinus, and Tripneustes) were manipulated in inclusion cages following a replacement design with three levels of species richness (one, two, and three species) with all possible two-species urchin combinations. Identity was the main factor accounting for changes in the percentage of substrate grazed and benthic community structure. Two out of the three two-species assemblages grazed more than expected, suggesting a richness effect, but analyses revealed that this increased grazing was due to a sampling effect of the largest and commercially valued urchin species, Tripneustes. Benthic community structure in treatments with Eucidaris, Lytechinus, and Tripneustes alone was significantly different at the end of the experiment, suggesting that resource use differentiation occurred. Communities in Tripneustes enclosures were characterized by abundant crustose coralline algae and grazed substrate, while those without it contained abundant green foliose algae (Ulva sp.). An unexpected emergent property of the system was that the most species-rich urchin assemblage underyielded, grazing less than any other assemblage with Tripneustes, effectively reversing its dominant influence observed in the two-species treatments. While further experiments are needed to discern the mechanisms of underyielding, it may be related to changing interspecific interactions as richness increases from two to three species or to density-dependent Tripneustes grazing. This study highlights the general importance of evaluating consumer richness effects across the entire range of species richness considered, as the performance of the most species-rich consumer assemblage could not be predicted by manipulations of intermediate levels of consumer species richness.     

Experimental field study of the effects of crude oil,drill cuttings and natural biodeposits on microphyto- and macrozoobenthic communities in a Mediterranean area

Effects of an experimental pollution by neogenous and fossil organic matter on microphyto- and macrozoobenthic communities were studied in situ over a 1 yr period (July 1989 to May 1990) in a shallow microtidal bay (Gulf of Fos, south coast of France). Three experimental enclosures of 1 m² non-defaunated sediments were covered with 1 cm of polluted defaunated sediments. The sediment in one enclosure contained natural biodeposits with a high organic matter content (BD), that in a second enclosure contained Arabian light crude oil (BAL), and the sediment in the third enclosure contained diesel oil-based cuttings (CUT). Pollution by contaminants did not prevent microphytobenthos from colouizing sediments. Population changes over time were quite similar in all enclosures, except in CUT, where a four times higher chlorophyll a content appeared to be related to a decreased number of grazers and consequently lower grazing rates of animals. Toxicity to the fauna was immediate in the case of BAL and occurred within 3 mo at CUT. Opportunistic species settled in all contaminated sediments; this occurred quite rapidly in BD and BAL which recovered within 3 mo to levels comparable with control sediments. In CUT, natural populations had not recovered after 1 yr, whereas a quasi-monospecific population of Capitella capitata was still present. During the first 3 mo, the oxygen demand of the sediment was higher in oil-contaminated sediments than in controls. On the whole, the changes in fluxes and organism assemblages in our weakly tidal area appear to be consistent with other findings in macrotidal seas.     

Are soil mite assemblages structured by the identity of native and invasive alien grasses?

Associations between plants and animals in aboveground communities are often predictable and specific. This has been exploited for the purposes of estimating the diversity of animal species based on the diversity of plant species. The introduction of invasive alien plants into an ecosystem can result in dramatic changes in both the native plant and animal assemblages. Few data exist at the species level to determine whether belowground animal assemblages share the same degree of association to plants. The hypotheses that soil mites (Acari) form assemblages specifically associated with different native grass species in an unmanipulated natural ecosystem and that invasive alien grasses will impact soil mite assemblage composition in this setting were tested. Soil mites sampled beneath five native and two invasive alien species of grasses at the Konza Prairie Biological Station, Kansas, USA, were similarly abundant, species rich, diverse, and taxonomically distinct. No mite species had affinities for a specific grass species. There was no evidence from analysis of similarity, canonical correspondence analysis, or a nonparametric assemblage analysis that the assemblage composition of soil mites was specific to grass species. Results suggest that soil mite assemblages were more related to characteristics of the plant assemblage as a whole or prevailing soil conditions. The most recent invasive alien grass did not support a successionally younger mite fauna, based on the ratio of mesostigmatid to oribatid mites, and neither of the two invasive grasses influenced mite assemblage structure, possibly because they had not yet substantially altered the soil environment. Our results suggest that extrapolations of soil mite diversity based on assumptions of plant specificity would be invalid.     

Spatial structure of an intertidal molluscan assemblage on a sheltered sandy beach

The intertidal molluscan fauna on a sandy-mud beach in Newport Bay, California, USA, is divisible into two vertically distinct species assemblages which correspond to the midlittoral zone and sublittoral fringe observed on rocky coastlines and exposed sandy beaches. The species assemblage comprising the midlittoral zone is unusual, however, in that the numerically dominant species are not confined to this zone but range downward through the sublittoral fringe. The two species assemblages are vertically separated at +0.5 to +1.0 ft (+0.15 to +0.30 m; relative to 0.0 tidal datum at mean lower low water), which is higher than previously observed for the separation between the midlittoral zone and sublittoral fringe on rocky shores and exposed sandy beaches. The species composition of some of the samples at +0.5 and +1.0 ft (+0.15 and +0.30 m) was intermediate between samples higher and lower on the beach, while several samples were devoid of molluscs altogether. Additionally, the surface sedimentary environment changes in terms of an increased percent silt-clay fraction and higher sorting coefficients below +0.5 ft (+0.15 m). Since infaunal zonation is correlated with tidal height at the substrate surface, environmental factors operative at the surface are probably most important in influencing the zonation on this beach.     

Growth rates of summer nanoplankton (<10 μm) populations in lower Narragansett Bay,Rhode Island,USA

Growth rates of summer (June–September) phytoplankton assemblages and constituent species were measured in 30 diffusion culture experiments. Size-fractionated (<10 m) phytoplankton assemblages were incubated in situ or under simulated in-situ conditions in outdoor tanks connected to a running seawater system. Doubling rates of important species and groups (such as microflagellates) were compared to community biomass doubling rates estimated from ¹⁴C uptake and changes in chlorophyll a concentrations. Division rates of dominant diatom species generally equalled or exceeded community biomass doubling rates, while those of flagellates and non-motile ultraplankters were slower. Maximum division rates of sixteen common diatom species exceeded 2.1 divisions d^-1, while nine had maximum division rates in excess of 3 d^-1. Mean division rates of 12 diatom species exceeded 1 d^-1. Maximum division rates of flagellated species, uncharacterized microflagellates and non-motile ultraplankton assemblages were 2.1, 1.5 and 1.4 d^-1, respectively. Microflagellate and non-motile ultraplankton assemblage doubling rates were less than 0.5 d^-1 in over half of all growth experiments.     

Change in avian functional fingerprints of a Neotropical montane forest over 100 years as an indicator of ecosystem integrity

Ecologically relevant traits of organisms in an assemblage determine an ecosystem's functional fingerprint (i.e., the shape, size, and position of multidimensional trait space). Quantifying changes in functional fingerprints can therefore provide information about the effects of diversity loss or gain through time on ecosystem condition and is a promising approach to monitoring ecological integrity. This, however, is seldom possible owing to limitations in historical surveys and a lack of data on organismal traits, particularly in diverse tropical regions. Using data from detailed bird surveys from 4 periods across more than a century, and morphological and ecological traits of 233 species, we quantified changes in the avian functional fingerprint of a tropical montane forest in the Andes of Colombia. We found that 78% of the variation in functional space, regardless of period, was described by 3 major axes summarizing body size, dispersal ability (indexed by wing shape), and habitat breadth. Changes in species composition significantly altered the functional fingerprint of the assemblage and functional richness and dispersion decreased 35–60%. Owing to species extirpations and to novel additions to the assemblage, functional space decreased over time, but at least 11% of its volume in the 2010s extended to areas of functional space that were unoccupied in the 1910s. The assemblage now includes fewer large-sized species, more species with greater dispersal ability, and fewer habitat specialists. Extirpated species had high functional uniqueness and distinctiveness, resulting in large reductions in functional richness and dispersion after their loss, which implies important consequences for ecosystem integrity. Conservation efforts aimed at maintaining ecosystem function must move beyond seeking to sustain species numbers to designing complementary strategies for the maintenance of ecological function by identifying and conserving species with traits conferring high vulnerability such as large body size, poor dispersal ability, and greater habitat specialization. Article impact statement: Changes in functional fingerprints provide a means to quantify the integrity of ecological assemblages affected by diversity loss or gain.     

Despotic, high-impact species and the subcontinental scale control of avian assemblage structure

Some species have disproportionate influence on assemblage structure, given their numbers or biomass. Most examples of such "strong interactors" come from small-scale experiments or from observations of the effects of invasive species. There is evidence that entire avian assemblages in open woodlands can be influenced strongly by individual species over very large areas in eastern Australia, with small-bodied species (< 50 g) being adversely affected. We used data from repeated surveys in 371 sites in seven districts across a region from Victoria to Queensland (> 2000 km). A series of linked Bayesian models was used to identify large-bodied (> or = 50 g) bird species that were associated with changes in occurrence and abundance of small-bodied species. One native species, the Noisy Miner (Manorina melanocephala; family Meliphagidae), was objectively identified as the sole large-bodied species having similar detrimental effects in all districts, depressing occurrence of 57 of 71 small-bodied species. Adverse effects on abundances of small-bodied species were profound when the Noisy Miner occurred with mean site abundances > or = 1.6 birds/2 ha. The Noisy Miner may be the first species to have been shown to influence whole-of-avifauna assemblage structure through despotic aggressiveness over subcontinental scales. These substantial shifts in occurrence rates and abundances of small-bodied species flow on to alter species abundance distributions of entire assemblages over much of eastern Australia.     

Comparison of Modern and Historical Fish Catches (AD 750–1400) to Inform Goals for Marine Protected Areas and Sustainable Fisheries

Abstract: We tested the unsustainable fishing hypothesis that species in assemblages of fish differ in relative abundance as a function of their size, growth rates, vagility, trophic level, and diet by comparing species composition in historical bone middens, modern fisheries, and areas closed to fishing. Historical data came from one of the earliest and most enduring Swahili coastal settlements (approximately AD 750–1400). Modern data came from fisheries near the archeological site and intensively harvested fishing grounds in southern Kenya. The areas we sampled that were closed to fishing (closures) were small (<28 km²) and permanent. The midden data indicated changes in the fish assemblage that are consistent with a weak expansion of fishing intensity and the unsustainable fishing hypothesis. Fishes represented in the early midden assemblages from AD 750 to 950 had longer life spans, older age at maturity, and longer generation times than fish assemblages after AD 950, when the abundance of species with longer maximum body lengths increased. Changes in fish life histories during the historical period were, however, one‐third smaller than differences between the historical and modern assemblages. Fishes in the modern assemblage had smaller mean body sizes, higher growth and mortality rates, a higher proportion of microinvertivores, omnivores, and herbivores, and higher rates of food consumption, whereas the historical assemblage had a greater proportion of piscivores and macroinvertivores. Differences in fish life histories between modern closures and modern fishing grounds were also small, but the life histories of fishes in modern closures were more similar to those in the midden before AD 950 because they had longer life spans, older age at maturity, and a higher proportion of piscivores and macroinvertivores than the modern fisheries. Modern closures and historical fish assemblages were considerably different, although both contained species with longer life spans.     

Anthropogenic disturbance of deep-sea megabenthic assemblages: a study with remotely operated vehicles in the Faroe-Shetland Channel,NE Atlantic

The effects of local-scale anthropogenic disturbance from active drilling platforms on epibenthic megafaunal abundance, diversity and assemblage pattern were examined in two west of Shetland hydrocarbon fields at 420 and 508 m water depth. These areas were selected to include a range of disturbance regimes and contrasting faunal assemblages associated with different temperature regimes. Remotely operated vehicle (ROV) video provided high-resolution megafaunal abundance and diversity data, which were related to the extent of visible disturbance from drilling spoil. These data, in conjunction with a study deeper in the Faroe-Shetland Channel, have allowed comparison of the effects of disturbance on megabenthos across a range of sites. Disturbance to megafaunal assemblages was found to be high within 50 m of the source of drill spoil and in areas where spoil was clearly visible on the seabed, with depressed abundances (Foinaven 1,900 individuals ha⁻¹; Schiehallion 2,178 individuals ha⁻¹) and diversity (H′ = 1.75 Foinaven; 1.12 Schiehallion) as a result of smothering effects. These effects extended to around 100 m from the source of disturbance, although this was variable, particularly with current regime and nature of drilling activity. Further from the source of disturbance, megafaunal assemblages became more typical of the background area with increased diversity (H′ = 2.02 Foinaven; 1.77 Schiehallion) and abundance (Foinaven 16,484 individuals ha⁻¹; Schiehallion 5,477 individuals ha⁻¹). Visible effects on megafaunal assemblages as a result of seabed drilling were limited in extent although assemblage responses were complex, being controlled by differing effects to individual species often based on their motility.     

Evolutionary relationships of deep-sea mussels inferred by mitochondrial DNA sequences

In order to elucidate the evolutionary process of deep-sea Bathymodiolus mussels, we investigated the phylogenetic relationships of 16 species worldwide by analyzing nucleotide sequences of the mitochondrial COI and ND4 genes. Deep-sea mussels were clustered into three groups by basal trichotomous divergence. The first was composed of four species found in Japanese waters and one species from the Gulf of Mexico, which contain methanotrophic endosymbiotic bacteria. The second included nine species distributed in the West and East Pacific, Indian, and Atlantic Oceans. Members of the second group were trichotomously divided into the Indo-West Pacific, Atlantic, and East Pacific subclusters. The Indo-West Pacific subcluster was composed of three very closely related species with mutual genetic distances at the intraspecific level (av. 0.019 in COI and 0.009 in ND4 relative to av. 0.156 in COI and 0.265 in ND4 among Bathymodiolus species other than Cluster A species), suggesting some gene flow among these species. The third consisted of two West Pacific species. Species in the second and third groups contain mainly thioautotrophic endosymbionts, including some species harboring both methanotrophs and thioautotrophs.     

Settlement seasonality and temporal changes in hard substrate macrozoobenthic communities of Lesina Lagoon (Apulia, Southern Adriatic Sea)

The macrofauna settling on experimental substrates was studied at two sites of the Lesina Lagoon to test its possible role in monitoring ecological variations in a brackish-water ecosystem. The community settlement was seasonally investigated on 3-month-old wooden poles; the development was monitored from 2001 to 2005. Comparisons with benthic assemblages settled on 10-yr-old poles were also performed. The main hydrological parameters were periodically measured during the study. A total of 38 species were collected. The assemblage reached the highest development in the central lagoon, showing relevant carbonate structures which supported a rich vagile fauna. Close to the sea-water inlet species richness and abundance values were lower, with the disappearance of some brackish-water species. A remarkable salinity drop during 2004 produced some faunistic changes in the assemblages, which however maintained different structures between the study sites, thus confirming macrozoobenthos as an efficient bioindicator of different environmental conditions for transition biotopes and a useful investigation tool in monitoring programmes.