SEARCH · USGS Science

Results for “Fishes”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

SourceResearch connectionFrom yearThrough year

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,477 records · Page 82Linked to original sources

USGS2017

Osmoregulation and muscle water control in vitro facing salinity stress of the Amazon fish Oscar Astronotus ocellatus (Cichlidae)

Specimens of Oscar Astronotus ocellatus from a fish farm were abruptly submitted to salt stress of 14 ppt and 20 ppt, for 3 and 8 h to determine their plasma osmolality. Muscle wet body mass change in vitro was analyzed from control freshwater animals. Fish in 14 ppt presented no osmolality distress even after 8 h. In 20 ppt, a slight increase (10%) in plasma osmolality was observed for both times of exposure when compared to control fish. Muscle slices submitted in vitro to hyper-osmotic saline displayed decreased body mass after 75 min, and slices submitted to hypo-osmotic saline displayed increased body mass after 45 min when compared to control (isosmotic saline). These results reinforce A. ocellatus ’s euryhalinity. The fish were able to regulate its internal medium and tolerate 14 ppt, but presented an intense osmotic challenge and low muscle hydration control when facing salinities of 20 ppt.

Marine and Freshwater Behaviour and Physiology↗

USGS2009

Research in thermal biology: Burning questions for coldwater stream fishes

With the increasing appreciation of global warming impacts on ecological systems, in addition to the myriad of land management effects on water quality, the number of literature citations dealing with the effects of water temperature on freshwater fish has escalated in the past decade. Given the many biological scales at which water temperature effects have been studied, and the growing need to integrate knowledge from multiple disciplines of thermal biology to fully protect beneficial uses, we held that a survey of the most promising recent developments and an expression of some of the remaining unanswered questions with significant management implications would best be approached collectively by a diverse research community. We have identified five specific topic areas of renewed research where new techniques and critical thought could benefit coldwater stream fishes (particularly salmonids): molecular, organism, population/species, community and ecosystem, and policy issues in water quality. Our hope is that information gained through examination of recent research fronts linking knowledge at various scales will prove useful in managing water quality at a basin level to protect fish populations and whole ecosystems. Standards of the past were based largely on incipient lethal and optimum growth rate temperatures for fish species, while future standards should consider all integrated thermal impacts to the organism and ecosystem. ?? Taylor and Francis Group, LLC.

Reviews in Fisheries Science↗

USGS2009

Review of fish diversity in the Lake Huron basin

Lake Huron has a rich aquatic habitat diversity that includes shallow embayments, numerous tributaries, shallow mid-lake reef complexes, archipelagos, and profundal regions. These habitats provide support for warm, cool, and cold water fish communities. Diversity of fishes in Lake Huron reflects post-glaciation colonization events, current climate conditions, accidental and intentional introductions of non-indigenous species, and extinctions. Most extinction events have been largely associated with habitat alterations, exploitation of fisheries, and interactions with non-indigenous species. The most recent historical survey of extirpated and imperiled species conducted in the late 1970s identified 79 fish species in Lake Huron proper and about 50 additional species in tributaries. Of those 129 species, 20 are now considered extirpated or imperiled. Extirpated species include Arctic grayling, paddlefish, weed shiner, deepwater cisco, blackfin cisco, shortnose cisco, and kiyi. Six species have declined appreciably due to loss of clear-water stream habitat: the river redhorse, river darter, black redhorse, pugnose shiner, lake chubsucker, redside dace, eastern sand darter, and channel darter. While numerous agencies, universities, and other organizations routinely monitor nearshore and offshore fish distribution and abundance, there is a need for more rigorous examination of the distribution and abundance of less-common species to better understand their ecology. This information is critical to the development of management plans aimed at ecosystem remediation and restoration.

Conference Paper↗

USGS2014

Temporal changes in taxonomic and functional diversity of fish assemblages downstream from mountaintop mining

Mountaintop mining (MTM) affects chemical, physical, and hydrological properties of receiving streams, but the long-term consequences for fish-assemblage structure and function are poorly understood. We sampled stream fish assemblages using electrofishing techniques in MTM exposure sites and reference sites within the Guyandotte River basin, USA, during 2010–2011. We calculated indices of taxonomic diversity (species richness, abundance, Shannon diversity) and functional diversity (functional richness, functional evenness, functional divergence) to compare exposure and reference assemblages between seasons (spring and autumn) and across years (1999–2011). We based temporal comparisons on 2 sites that were sampled during 1999–2001 by Stauffer and Ferreri (2002). Exposure assemblages had lower taxonomic and functional diversity than reference assemblages or simulated assemblages that accounted for random variation. Differences in taxonomic composition between reference and exposure assemblages were associated with conductivity and aqueous Se concentrations. Exposure assemblages had fewer species, lower abundances, and less biomass than reference assemblages across years and seasons. Green Sunfish ( Lepomis cyanellus ) and Creek Chub ( Semotilus atromaculatus ) became numerically dominant in exposure assemblages over time because of their persistence and losses of other taxa. In contrast, species richness increased over time in reference assemblages, a result that may indicate recovery from drought. Mean individual biomass increased as fish density decreased and most obligate invertivores were apparently extirpated at MTM exposure sites. Effects of MTM were not related to physical-habitat conditions but were associated with water-quality variables, which may limit quality and availability of benthic macroinvertebrate prey. Simulations revealed effects of MTM that could not be attributed to random variation in fish assemblage structure.

West Virginia↗

USGS2025

Fish-assemblage and water-quality recovery with declining acidic deposition in Adirondack mountain streams, New York, USA

Long-term records of air-pollutant emissions and atmospheric deposition, as well as water quality in streams of the Adirondack Mountains of New York, USA, indicate that chemical recovery from acidic deposition is progressing. Although Brook Trout Salvelinus fontinalis (Mitchill, 1814) have recently repopulated several lakes, the degree to which fish assemblages and individual species populations have recovered in streams of the region is unknown. The United States Geological Survey sampled acid–base chemistry and fish assemblages at 42 Adirondack region streams (2014–2021), most of which were also sampled in 2 prior periods (primarily 1979–1984 and 1999), to determine the extent and degree of chemical and biological recovery and whether responses could be linked to regional declines in acidic deposition. Between 1990 and 2021, total annual emissions of SO 2 and NO x declined nationwide by 94% and 87%, respectively, and paralleled 88% and 70% decreases in SO 4 2− and NO 3 − concentrations, respectively, in wet deposition in the region. During this interval, mean acid neutralizing capacity increased by 19.9 µeq/L, pH increased by 0.33 units, and inorganic Al (Al i ) decreased by 6.0 µmol/L at one continuously monitored stream, whereas mean acid neutralizing capacity increased by 38.5 µeq/L and mean Al i concentration decreased by ∼3.0 µmol/L during springtime at all 42 Adirondack region streams. Between the 1 st and 3 rd periods, mean fish-assemblage richness, density, and biomass at 40 sites increased by 112%, 236%, and 66%, respectively. Although mean Brook Trout density and biomass did not meaningfully change among periods, their distribution expanded from 20 sites in the strongly impacted sampling period (1979–1984) to 33 sites in the recovery period (2014–2021). Trends in pollutant emissions and deposition, water quality, and fish-assemblage metrics indicate aquatic ecosystems in many Adirondack mountain streams improved markedly following implementation of the 1990 Clean Air Act Amendments and recent N and S allowance-trading and emissions regulations.

New York↗

USGS2025

Biological implications for contaminants of emerging concern in the Great Lakes–Upper St Lawrence River drainage: An effect-based ecological hazard assessment in fish

Contaminants of emerging concern (CECs) are released widely and continuously into the Great Lakes Basin–Upper St Lawrence River study area, with many detected in surface water at concentrations known to adversely affect fish. We applied a recent ecological hazard assessment methodology to identify the biological significance of a database of 21,441 surface water CEC concentrations compiled from 7,162 surface water samples collected at 1,021 sampling sites in 387 individual waterbodies throughout the Great Lakes Basin. We assessed hazard to fish in 12 effect categories (e.g., mortality, developmental, reproductive) from aqueous exposure to 16 emerging contaminants. Our hazard assessment used pairs of screening values to generate contaminant- and effect-specific ordinal hazard scores. Using this novel methodology, we generated a database of 93,864 hazard scores. We found the highest level of hazard to fish, indicating probable adverse impacts, was broadly distributed and often associated with municipalities. Mortality, reproductive, and developmental effect categories combined accounted for 17.5% of high hazard observations. Low hazard, indicating possible adverse effects, was prevalent for numerous effect categories and occurred throughout the period 1991–2021. For mortality, reproductive, and developmental effect categories, the incidence of elevated hazard (low or high hazard) among assessed water samples was 20.4%, 39.5%, and 20.3%, respectively. On a local scale, effect-based assessment is an efficient and conceptually simple tool for natural resource managers to obtain effect- and site-specific hazard information concerning CEC effects in fish that can be used in project planning and results interpretation for natural resource monitoring, restoration, and protection.

Great Lakes–Upper St Lawrence River study area↗

USGS2025

Summary of first daily ring formation in otoliths of freshwater fishes in the continental United States

Daily ring counts in young-of-the-year fishes are important for estimating important vital rates, such as growth, mortality, and timing of hatch. To accurately estimate some of these rates, the timing of the first daily ring must be estimated accurately. Variation in the timing of the first daily ring can be attributed to many factors, including biology of the species and experience of laboratory personnel. The amount of variation and the degree of differences, however, have not been quantified, hindering the utility of daily ring information to provide accurate estimates of spawning and hatching times. We conducted a review of studies for freshwater fishes in the continental United States to quantify variation in daily ring validation studies as it relates to timing of the first ring. We found 40 studies representing 12 orders, 15 families, and 35 species. Most studies investigated rings in the sagittae, although the lapilli and asterisci were also used for a few species. Variation in the timing of the first ring formation was evident, but not consistent among otolith types or groups of fishes. The first daily ring in sagittae varied from 31 d before hatch to 150 d after hatch. First daily ring formation in lapilli was consistent within families but formed before hatch in some families of fish and after hatch in other families. The first daily ring in asterisci were near universally formed after hatch, with the exception of one species of sturgeon (family Acipenseridae). Only three of the nine species where replicate studies existed were found to exhibit consistent first ring formation timing. Such findings suggest that differences among laboratories and personnel may play a larger role than differences among species or populations when inconsistent first ring formation timing results occur. For most species, error surrounding differences in timing formation is about 1 week, except for Salmoniformes, where error was up to a 150-d difference. Incorporating species biology along with uncertainty in temporal estimates based on otolith chronology would aid interpretation of results in field situations.

continental United States↗

USGS2020

Liquid chromatographic determination of para-toluenesulfonamide in edible fillet tissues from three species of fish

Chloramine-T ( N -sodium- N -chloro- p -toluene-sulfonamide) is a candidate therapeutic drug for treating bacterial gill disease, a predominant disease of a variety of fish species. Research has been initiated to obtain the U.S. Food and Drug Administration’s (FDA) approval for the use of chloramine-T on a variety of fish species. An attribute of a therapeutic aquaculture drug that must be characterized before the FDA approves its use is depletion of the drug’s marker residue (the drug’s parent compound or metabolite of highest concentration in an edible tissue). para -Toluenesulfonamide (p-TSA) is the primary degradation product and marker residue for chloramine-T in rainbow trout. To conduct residue depletion studies for chloramine-T in fish, a robust analytical method sensitive and specific for p-TSA residues in edible fillet tissue from a variety of fish was required. Homogenized fillet tissues from rainbow trout ( Oncorhynchus mykiss ), walleye ( Stizostedion vitreum ), and channel cattish ( Ictalurus punctatus ) were fortified at nominal p-TSA concentrations of 17, 67, 200, 333, and 1000 ng/g. Samples were analyzed by isocratic reversed-phase liquid chromatography (LC) with absorbance detection at 226 nm. Mean recoveries of p-TSA ranged from 77 to 93.17%; relative standard deviations ranged from 1.5 to 14%; method quantitation limits ranged from 13 to 18 ng/g; and method detection limits ranged from 3.8 to 5.2 ng/g. The LC parameters produced p-TSA peaks without coelution of endogenous compounds and excluded chromatographic interference from at least 20 chemicals and drugs of potential use in aquaculture.

Journal of AOAC International↗

USGS1957

The nutrition of salmonid fishes. II. Studies on production diets

In 69 production diets fed to hatchery salmonids, there was a wide variation in the ingredients of the diets and in their content of protein, fat, carbohydrate and ash. There was a close correlation between the body composition of hatchery-raised fish and the composition of the diets fed. The data indicated, however, that differences in hatchery management, such as level of feeding, were also important contributing factors in producing the observed body composition of hatchery fish. Wild fish had a markedly different body composition characterized by a much lower level of fat and relatively higher protein and mineral content The effect on survival of differences in body composition between wild and hatchery fish is discussed. There is a clearly defined need for additional research on the nutritional requirements of salmonids, the relationship between body composition and ability to survive, and for quality control in hatchery nutrition.

Journal of Nutrition↗

USGS2025

Genetic analysis of Missouri’s Topeka Shiners with implications for the propagation of understudied small-bodied freshwater fishes

Objective Best practices for conservation hatcheries to conserve genetic diversity and minimize adaptation to captivity have been established for decades, but how to apply them is not clear in every circumstance. As a growing number of aquatic species are propagated in captive settings, addressing the fit of these practices to each system will help managers operate optimally while conserving hatchery resources. Small-bodied freshwater fish present a unique set of traits compared with species that are typically considered for propagation (i.e., salmonids), including a patchy distribution within a watercourse. We examine the propagation and reintroduction program that supports the Topeka Shiner Miniellus topeka , an endangered minnow in the Midwestern USA. Methods We genotyped shiners from groups with different histories (two reintroduced, three captive, and two remnant populations) at 11 microsatellite loci and compared genetic diversity, genetic structure, effective population size, and evidence of population bottlenecks. We also looked at the breeding structure by genetically assigning hatchery-reared young ( n = 148) to candidate parents. Results We documented high levels of genetic structure among the two natural populations in our study. We also noted lower diversity and evidence of bottlenecks in hatchery-reared groups. However, hatcheries may support sufficient (>50) effective population sizes with minimal space. Conclusions Hatcheries may avoid bottlenecks in other small-bodied freshwater fish by collecting wild fish from a broad area and frequently incorporating them into the captive population. Within the hatchery, we emphasize the need to reduce generational overlap by stocking all production fish and/or subdividing the captive populations.

Missouri↗

USGS2021

Mixed-stock analysis in the age of genomics: Rapture genotyping enables evaluation of stock-specific exploitation in a freshwater fish population with weak genetic structure

Mixed-stock analyses using genetic markers have informed fisheries management in cases where strong genetic differentiation occurs among local spawning populations, yet many fisheries are supported by multiple spawning stocks that are weakly differentiated. Freshwater fisheries exemplify this problem, with many harvested populations supported by multiple stocks of young evolutionary age and that are isolated across small spatial scales. As a result, attempts to conduct genetic mixed-stock analyses of inland fisheries have often been unsuccessful. Advances in genomic sequencing now offer the ability to discriminate among populations with weak population structure, by providing the necessary resolution to conduct mixed-stock assignment among previously indistinguishable stocks. We demonstrate the use of genomic data to conduct a mixed-stock analysis of Lake Erie's commercial and recreational walleye (Sander vitreus) fisheries and estimate the relative harvest of weakly differentiated stocks (pairwise FST < 0.01). We used RAD-capture (Rapture) to sequence and genotype individuals at 12,081 loci that had been previously determined to be capable of discriminating between western and eastern basin stocks with 95% reassignment accuracy. An outcome not possible in the past with microsatellite markers. Genetic assignment of 1,075 fish harvested from recreational and commercial fisheries in the eastern basin indicated that western basin stocks constituted the majority of individuals harvested during peak walleye fishing season (July – September). Composition of harvest changed seasonally, with eastern basin fish comprising much of the early season harvest (May – June). Clear spatial structure in stock-specific harvest existed; more easterly sites contained more individuals of east basin origin than did westerly sites. Our study provides important stock contribution estimates for Lake Erie fishery management and demonstrates the power of genomic data to facilitate mixed-stock analysis in exploited fish populations with weak population structure or limited existing genetic resources.

Michigan, New York, Ohio, Pennsylvania↗

USGS2014

Patterns of lake occupancy by fish indicate different adaptations to life in a harsh Arctic environment

Summary For six fish species sampled from 86 lakes on the Arctic Coastal Plain, Alaska, we examined whether lake occupancy was related to variables representing lake size, colonisation potential and/or the presence of overwintering habitat. We found the relative importance of each factor for a given species could be related to its ecology and adult size. The three large-bodied migratory species, least cisco ( Coregonus sardinella ), broad whitefish ( Coregonus nasus ) and arctic grayling ( Thymallus arcticus ), were influenced by factors associated with the likelihood of fish recolonising lakes, including whether the lakes had a stream connection. Of the large-bodied species, least cisco had the highest likelihood of occupancy (0.52 ± 0.05) and models provided evidence that least cisco exhibit both migratory and resident forms. Models for small-bodied fish differed among species, indicating different niches. Ninespine stickleback ( Pungitius pungitius ) were the most widespread and ubiquitous of the species captured (occupancy probability = 0.97 ± 0.01); they were captured in lakes that freeze to the bottom, suggesting that they disperse widely and rapidly after the spring freshet, including colonisation of sink habitats. Alaska blackfish ( Dallia pectoralis ) had a lower occupancy (occupancy probability = 0.76 ± 0.05) with a distribution that reflected tolerance to harsh conditions. Slimy sculpin ( Cottus cognatus ) had an occupancy probability of 0.23 ± 0.06, with a distribution indicating its marine origin. Based on these patterns, we propose an overall model of primary controls on the distribution of fish on the Arctic Coastal Plain of Alaska. Harsh conditions, including lake freezing, limit occupancy in winter through extinction events while lake occupancy in spring and summer is driven by directional migration (large-bodied species) and undirected dispersal (small-bodied species).

Alaska↗

USGS2019

Abundance-occupancy patterns in a riverine fish assemblage

The interspecific relationships between abundance and site occupancy have been widely studied in plants and animals, but principally in terrestrial systems. With few exceptions, a positive abundance–occupancy relationship has been reported. Few publications have included freshwater fish, possibly suggesting a general lack of abundance–occupancy patterns for this taxonomic group. We examined the relationship between abundance and the extent of site occupancy by 145 species of freshwater fish, including nine non-indigenous species, sampled over 85 sites spread across the Duck River Basin, Tennessee, U.S.A. A distinct ( r 2 = 0.79) positive abundance–occupancy curve was observed, with curves differing relative to feeding and size guilds, but not relative to environmental tolerance, conservation status (i.e. listed/non-listed), or origin (i.e. indigenous/non-indigenous). The patterns observed are consistent with those reported in many studies of terrestrial taxa. The existence of positive abundance–occupancy relationships in stream fish has at least two major implications for fish conservation. First, species that decrease in occupancy due to anthropogenic disturbances are likely to decrease in abundance, facing inflated prospects for local extinction. Second, occupancy alone may be used to index community status and the need for, or success of, conservation activities.

Tennessee↗

USGS2022

Multiple dimensions of functional diversity affect stream fish β-diversity

When investigating metacommunity dynamics, functional differences among species are often assumed to be as important as environmental differences between sites in determining β-diversity. However, few studies have examined the influence of functional diversity on β-diversity. We examine the relative importance of regional functional diversity partitioned by niche dimensions and environmental variation in structuring taxonomic β-diversity of stream fishes using a large dataset of stream fish assemblages (hereafter, simply β-diversity). We predicted that both functional diversity and environmental variation play a role in determining β-diversity. We tested this prediction by modelling the patterns of stream fish β-diversity as a function of environmental variation, functional diversity and γ-richness across 10,220 sites for 329 fish species using a series of conceptual path models. Environmental variation consistently affected β-diversity across all models, whereas functional diversity and γ-richness influenced β-diversity only in some models. We show that including relevant trait differences among species in path models can improve their ability to explain β-diversity, suggesting that functional traits influence β-diversity. The ability of path models to explain β-diversity varied depending on the trait grouping included in the model, demonstrating that specific path models representing different niche dimensions can improve the ability of a model to explain β-diversity. In addition, parsing traits into different niche dimensions revealed alternative patterns of functional diversity–β-diversity relationships that otherwise would have been missed. The selection of relevant traits and linked niche dimensions is critical for detecting relationships between functional diversity and β-diversity. Using traits associated with different niche dimensions allows for the identification of niche dimensions most strongly associated with species sorting and the detection of patterns missed by focusing on a single niche dimension. Determining the niche dimensions that influence β-diversity could provide insights into the processes driving biodiversity and metacommunity dynamics, improving our ability to conserve or restore aquatic communities.

Eastern United States↗

USGS2025

Effects of riparian forest thinning on resident salmonid fishes in coastal northern California catchments

Resource managers are interested in whether thinning second-growth forests may be a viable restoration strategy for stream and riparian habitats, but may be concerned about the potential impacts that increases in stream temperature associated with riparian thinning treatments may have on cold-water salmonid fishes. We evaluated the effects of riparian forest thinning on resident populations of coastal cutthroat trout ( Oncorhynchus clarkii clarkii ) in coastal northern California catchments using a manipulative field experiment with a replicated before-after-control-impact design (pre-treatment data collected in 2016, thinning treatments occurred in 2017, and post-treatment data collected in 2018). Experimental thinning treatments reduced riparian shade by 20%–30% along five 150–200 m stream reaches. To provide a process-based evaluation of the implications of riparian thinning for coastal cutthroat trout, we combined seasonal observations of trout density, biomass, and growth with bioenergetics modelling. Cutthroat trout density increased by 8%–31% and biomass increased by 27%–111% in thinned reaches 1 year post-treatment, but responses varied widely across sites and seasons so did not always differ statistically. Growth rates of cutthroat trout varied more among seasons than among reach types (upstream reference, thinned, and downstream), peaking in spring and overwinter relative to summer. Bioenergetics modelling indicated that cutthroat trout responded to thinning-induced increases in stream temperature and shifts in prey energy density via higher consumption rates (i.e., fish fed more frequently) in thinned reaches. Additionally, reach-scale consumption estimates indicated that the energy intake of cutthroat trout increased at the population level in thinned reaches. However, thinned reaches exhibited relatively small changes in consumption, suggesting that riparian thinning was unlikely to enhance growth opportunities for cutthroat trout, supporting our empirical growth observations. Collectively, our field experiment suggests that salmonid fishes may be resilient to thinning second-growth riparian forests when treatments do not substantially increase water temperatures. Moreover, our results highlight that pairing empirical data with bioenergetics modelling can provide valuable insights into the mechanisms driving fish responses to riparian forest restoration.

California↗

USGS2009

Does mobility explain variation in colonisation and population recovery among stream fishes?

1. Colonisation and population recovery are crucial to species persistence in environmentally variable ecosystems, but are poorly understood processes. After documenting movement rates for several species of stream fish, we predicted that this variable would influence colonisation rates more strongly than local abundance, per cent occupancy, body size and taxonomic family. We also predicted that populations of species with higher movement rates would recover more rapidly than species with lower movement rates and that assemblage structure would change accordingly. 2. To test these predictions, we removed fishes from a headwater and a mainstem creek in southwest Virginia and monitored colonisation over a 2-year period. Using an information–theoretic approach, we evaluated the relative plausibility of 15 alternative models containing different combinations of our predictor variables. Our best-supported model contained movement rate and abundance and was 41 times more likely to account for observed patterns in colonisation rates than the next-best model. Movement rate and abundance were both positively related to colonisation rates and explained 88% of the variation in colonisation rates among species. 3. Population recovery, measured as the per cent of initial abundance restored, was also positively associated with movement rate. One species recovered within 3 months, most recovered within 2 years, but two species still had not recovered after 2 years. Despite high variation in recovery, the removal had only a slight impact on assemblage structure because species that were abundant in pre-removal samples were also abundant in post-removal samples. 4. The significance of interspecific variation in colonisation and recovery rates has been underappreciated because of the widely documented recovery of stream fish assemblages following fish kills and small-scale experimental defaunations. Our results indicate that recovery of the overall assemblage does not imply recovery of each component species. Populations of species that are rare and less mobile will recover more slowly and will be more vulnerable to extinction in systems where chemical spills, hydrological alteration, extreme droughts and other impacts are frequent.

Virginia↗

USGS2007

Atlantic reef fish biogeography and evolution

Aim: To understand why and when areas of endemism (provinces) of the tropical Atlantic Ocean were formed, how they relate to each other, and what processes have contributed to faunal enrichment. Location: Atlantic Ocean. Methods: The distributions of 2605 species of reef fishes were compiled for 25 areas of the Atlantic and southern Africa. Maximum-parsimony and distance analyses were employed to investigate biogeographical relationships among those areas. A collection of 26 phylogenies of various Atlantic reef fish taxa was used to assess patterns of origin and diversification relative to evolutionary scenarios based on spatio-temporal sequences of species splitting produced by geological and palaeoceanographic events. We present data on faunal (species and genera) richness, endemism patterns, diversity buildup (i.e. speciation processes), and evaluate the operation of the main biogeographical barriers and/or filters. Results: Phylogenetic (proportion of sister species) and distributional (number of shared species) patterns are generally concordant with recognized biogeographical provinces in the Atlantic. The highly uneven distribution of species in certain genera appears to be related to their origin, with highest species richness in areas with the greatest phylogenetic depth. Diversity buildup in Atlantic reef fishes involved (1) diversification within each province, (2) isolation as a result of biogeographical barriers, and (3) stochastic accretion by means of dispersal between provinces. The timing of divergence events is not concordant among taxonomic groups. The three soft (non-terrestrial) inter-regional barriers (mid-Atlantic, Amazon, and Benguela) clearly act as 'filters' by restricting dispersal but at the same time allowing occasional crossings that apparently lead to the establishment of new populations and species. Fluctuations in the effectiveness of the filters, combined with ecological differences among provinces, apparently provide a mechanism for much of the recent diversification of reef fishes in the Atlantic. Main conclusions: Our data set indicates that both historical events (e.g. Tethys closure) and relatively recent dispersal (with or without further speciation) have had a strong influence on Atlantic tropical marine biodiversity and have contributed to the biogeographical patterns we observe today; however, examples of the latter process outnumber those of the former. ?? 2007 The Authors.

Journal of Biogeography↗

USGS2008

Fish assemblages of the Casiquiare River, a corridor and zoogeographical filter for dispersal between the Orinoco and Amazon basins

Aim: The aim of this study was to determine whether the Casiquiare River functions as a free dispersal corridor or as a partial barrier (i.e. filter) for the interchange of fish species of the Orinoco and Negro/Amazon basins using species assemblage patterns according to geographical location and environmental features. Location: The Casiquiare, Upper Orinoco and Upper Negro rivers in southern Venezuela, South America. Methods: Our study was based on an analysis of species presence/absence data and environmental information (11 habitat characteristics) collected by the authors and colleagues between the years 1984 and 1999. The data set consisted of 269 sampled sites and 452 fish species (> 50,000 specimens). A wide range of habitat types was included in the samples, and the collection sites were located at various points along the entire length of the Casiquiare main channel, at multiple sites on its tributary streams, as well as at various nearby sites outside the Casiquiare drainage, within the Upper Orinoco and Upper Rio Negro river systems. Most specimens and field data used in this analysis are archived in the Museo de Ciencias Naturales in Guanare, Venezuela. We performed canonical correspondence analysis (CCA) based on species presence/absence using two versions of the data set: one that eliminated sites having < 5 species and species occurring at < 5 sites; and another that eliminated sites having < 10 species and species occurring at < 10 sites. Cluster analysis was performed on sites based on species assemblage similarity, and a separate analysis was performed on species based on CCA loadings. Results: The CCA results for the two versions of the data set were qualitatively the same. The dominant environmental axis contrasted assemblages and sites associated with blackwater vs. clearwater conditions. Longitudinal position on the Casiquiare River was correlated (r2 = 0.33) with CCA axis-1 scores, reflecting clearwater conditions nearer to its origin (bifurcation of the Orinoco) and blackwater conditions nearer to its mouth (junction with the Rio Negro). The second CCA axis was most strongly associated with habitat size and structural complexity. Species associations derived from the unweighted pair-group average clustering method and pair-wise squared Euclidean distances calculated from species loadings on CCA axes 1 and 2 showed seven ecological groupings. Cluster analysis of species assemblages according to watershed revealed a stronger influence of local environmental conditions than of geographical proximity. Main conclusions: Fish assemblage composition is more consistently associated with local environmental conditions than with geographical position within the river drainages. Nonetheless, the results support the hypothesis that the mainstem Casiquiare represents a hydrochemical gradient between clearwaters at its origin and blackwaters at its mouth, and as such appears to function as a semi-permeable barrier (environmental filter) to dispersal and faunal exchanges between the partially vicariant fish faunas of the Upper Orinoco and Upper Negro rivers. ?? 2008 The Authors.

Journal of Biogeography↗