Selective breeding of quantitative traits in the common carp (Cyprinus carpio): a review

The common carp is one of the main aquaculture species in the world. Despite this, most of the production is carried out using unselected strains. Selective breeding for fast growth has not proven to be effective in this species, but other traits (disease resistance, shape) could be successfully selected for. Most heritability estimates in the literature are unreliable due to environmental biases, but complementary results from population genetics and comparison of strains seem to indicate that there should be a potential for selective breeding in this species, including selection for growth rate, provided the base populations are variable enough (e.g. synthetic strains). New techniques such as parentage assignment with microsatellites and use of doubled haploid progenies may help describe much more accurately, without environmental bias, the genetic determination of traits of interest in the carp. This could be a new opportunity to design efficient breeding programs in this important species.     

Organic matter derived from kelp supports a large proportion of biomass in temperate rocky reef fish communities: Implications for ecosystem‐based management

相似文献   

How consistent is the advice from stock assessments? Empirical estimates of inter-assessment bias and uncertainty for marine fish and invertebrate stocks

Fishery management frequently involves precautionary buffering for scientific uncertainty. For example, a precautionary buffer that scales with scientific uncertainty is used to calculate the acceptable biological catch downward from the overfishing limit in the US federal fishery management system. However, there is little empirical guidance to suggest how large buffers for scientific uncertainty should be. One important component of uncertainty is variation among different assessments of the same stock in estimates of management-relevant quantities. We analysed commercially exploited marine fish and invertebrate stocks around the world and developed Bayesian hierarchical models to quantify inter-assessment variation in terminal year biomass and fishing mortality estimates, reference points, relative biomass and fishing mortality estimates, and overfishing limits. There was little evidence of inter-assessment bias; stock assessment estimates in the terminal year of the assessment were not consistently higher or lower than estimates of the same quantities in future years. However, there was a tendency for extreme values from the terminal year to be pulled closer to the mean in future years. Inter-assessment variation in all estimates differed across regions, and a longer inter-assessment interval generally resulted in greater variation. Inter-assessment uncertainty was greatest for estimates of the overfishing limit, with coefficients of variation ranging from 17% in Europe (non-EU) to 107% for Pacific Ocean pelagic stocks. Because inter-assessment variation is only one component of scientific uncertainty, we suggest that these uncertainty estimates may provide a basis for determining the minimum size of precautionary buffers.     

Global fishery dynamics are poorly predicted by classical models

Fisheries dynamics can be thought of as the reciprocal relationship between an exploited population and the fishers and/or managers determining the exploitation patterns. Sustainable production of protein of these coupled human‐natural systems requires an understanding of their dynamics. Here, we characterized the fishery dynamics for 173 fisheries from around the globe by applying general additive models to estimated fishing mortality and spawning biomass from the RAM Legacy Database. GAMs specified to mimic production models and more flexible GAMs were applied. We show observed dynamics do not always match assumptions made in management using “classical” fisheries models, and the suitability of these assumptions varies significantly according to large marine ecosystem, habitat, variability in recruitment, maximum weight of a species and minimum observed stock biomass. These results identify circumstances in which simple models may be useful for management. However, adding flexibility to classical models often did not substantially improve performance, which suggests in many cases considering only biomass and removals will not be sufficient to model fishery dynamics. Knowledge of the suitability of common assumptions in management should be used in selecting modelling frameworks, setting management targets, testing management strategies and developing tools to manage data‐limited fisheries. Effectively balancing expectations of future protein production from capture fisheries and risk of undesirable outcomes (e.g., “fisheries collapse”) depends on understanding how well we can expect to predict future dynamics of a fishery using current management paradigms.     

Detection of protection benefits for predatory fishes depends on census methodology

1. Marine protected areas (MPAs) are used as fisheries management and conservation tools. Well-enforced no-take zones allow the rebuilding of natural populations of exploited species; however, there is still controversy on the role of buffer zones.
2. The effectiveness of MPAs could be underestimated, as fish population assessments depend largely on traditional methodologies that have difficulties in detecting predatory fish because of their low abundances, their patchy distribution, and their reaction to the presence of divers.
3. The performance of different census methods was compared in assessing the protection benefits for large predatory fishes under different protection levels (i.e. no-take and buffer zones) in five Mediterranean MPAs. Specifically, conventional strip transects (CSTs, 50 × 5 m²) and tracked roaming transects combined with distance sampling (TRT + DS, variable lengths) were compared, including a series of TRT-derived estimators with variable transect lengths and fixed widths of 20, 10, and 6 m (TRT20, TRT10, and TRT6, respectively). Additionally, the effectiveness of the MPAs studied and protection levels for conserving large predatory species was evaluated.
4. Transects covering larger areas (i.e. TRT + DS and TRT20) allowed the detection of a greater number of species and yielded more accurate estimates of density and biomass than transects of narrower fixed widths, particularly the CSTs, which were associated with the lowest richness detection capability, accuracy, and precision. On average, both no-take zones and buffer zones appeared effective for the conservation of predatory fishes, indicating that multiple protection areas were ecologically effective. Differences between MPAs were also observed, however, probably arising from both local environmental and management factors.
5. We suggest the implementation of methodologies with larger transects for the study of large predatory fish, combined with CSTs for the rest of the fish community, in order to avoid biases in predatory population assessments, which are key indicators of MPA effectiveness.

     

Multi-decadal scale variability in the eastern Baltic cod fishery 1550–1860—Evidence and causes

Identification of periods of high and low cod production, and the reasons for these periods, can increase understanding of variability in populations and ecosystems. In this study we investigate the multi-decadal and multi-century scale variations in the cod population in the eastern Baltic Sea (ICES Subdivisions 25–32). Analytically derived estimates of biomass are available since 1966. These estimates show that biomass increased in the late 1970s–early 1980s, but decreased nearly 10-fold until the early 1990s and is still well below the long-term average. Prior to 1966 the biomass of cod is unknown, as is the relative role of fishing, climate variability/regimes, eutrophication and reduction of marine mammal predator populations. We have begun to investigate whether historical fisheries information (landings, effort, distribution) from before the 1880s is available in Baltic archives and museums, and to what extent this information can be used to interpret variations in this population. We have located fisheries data for different parts of the Baltic for different time periods since the 1550s and have interpreted the findings using current process knowledge of oceanographic mechanisms affecting cod reproduction and ecology in the Baltic Sea. The recovered data show that the Baltic ecosystem was able to support modest-large cod populations even though it was oligotrophic and contained large populations of cod predators (e.g., marine mammals). Current ecosystem management policy in the Baltic as developed and implemented by organisations such as the International Council for the Exploration of the Sea (ICES), the Baltic Marine Environment Protection Commission (HELCOM), the nine coastal countries and the European Union includes recovery of the cod population, a reduction in nutrient loading and measures to promote recovery of seal and harbour porpoise populations. If these policies are successful, the role of predatory fish in the future Baltic could again be substantial and comparable to that which we show existed 450 years ago. However, such a scenario will also require a major reduction in cod fishing mortality and suitable hydrographic conditions which promote successful cod reproduction. Historical ecology investigations in the Baltic can contribute to scientifically based fishery and ecosystem management and recovery plans.     

Intercalibrating SCOR, NORPAC and bongo nets and the consequences for interpreting decadal-scale variation in zooplankton biomass in the Gulf of Alaska

The Canadian weathership time series of zooplankton wet weight biomass, collected at Ocean Station Papa in the Gulf of Alaska from 1956 to 1981, is one of the most comprehensive of its kind in marine science. In 1966, the sampling gear changed from a white North Pacific (NORPAC) net to a black Scientific Committee on Oceanic Research (SCOR) net and it was recently discovered that insufficient intercalibration samples were collected to understand how their sampling properties differed. A Canada‐GLOBEC project to redo the intercalibration of these net types and to understand how they relate to current sampling gear (bongo net) started in 1997. Seventy replicates of the three net types were collected in deep water in the Gulf of Alaska. The major finding is that all nets have similar sampling characteristics, whereas earlier reports indicated that NORPAC biomass values should be multiplied by a factor of 1.538 to be equivalent to the SCOR net. It now appears that this factor arose because flowmeters were not used in the original 1956–81 sampling (volume filtered was estimated from tow length × mouth area). A positive bias was introduced into the SCOR values because relatively more water passed through the SCOR net (undetected without a flow meter) than through the NORPAC net. This means that the unmetered NORPAC samples from 1956 to 1966 should not be adjusted and the unmetered SCOR values should be reduced by a factor that is related to wire angle. The general effect on the entire series is to lower the average biomass estimates, but more so for the early portion of the series than the later years.     

Fish assemblage production estimates in Appalachian streams across a latitudinal and temperature gradient

Production of biomass is central to the ecology and sustainability of fish assemblages. The goal of this study was to empirically estimate and compare fish assemblage production, production‐to‐biomass (P/B) ratios and species composition for 25 second‐ to third‐order streams spanning the Appalachian Mountains (from Vermont to North Carolina) that vary in their temperature regimes. Fish assemblage production estimates ranged from 0.15 to 6.79 g m^?2 year^?1, and P/B ratios ranged from 0.20 to 1.07. There were no significant differences in mean assemblage production across northern cold‐water, southern cold‐water and southern cool‐water streams (p = .35). Two warm‐water streams, not included in these comparisons, had the highest mean production and biomass values. Mean assemblage P/B was significantly higher in northern cold‐water streams relative to southern cold‐water and cool‐water streams (p = .01). Species evenness in production declined with stream temperature and differed significantly across the lower latitude cold‐water, cool‐water and warm‐water streams and the higher latitude (i.e. more northern) cold‐water streams. Our fish assemblage production estimates and P/B ratios were both lower and higher compared to previously published estimates for similar stream habitats. This study provides empirical fish assemblage production estimates to inform future research on southern Appalachian streams and on the potential impacts of varying temperature regimes on cold‐water, cool‐water and warm‐water fish production in the coming decades as climate change continues to threaten fish assemblages.     

Spatio‐temporal analyses of marine predator diets from data‐rich and data‐limited systems

Accounting for variation in prey mortality and predator metabolic potential arising from spatial variation in consumption is an important task in ecology and resource management. However, there is no statistical method for processing stomach content data that accounts for fine‐scale spatio‐temporal structure while expanding individual stomach samples to population‐level estimates of predation. Therefore, we developed an approach that fits a spatio‐temporal model to both prey‐biomass‐per‐predator‐biomass data (i.e. the ratio of prey biomass in stomachs to predator weight) and predator biomass survey data, to predict “predator‐expanded‐stomach‐contents” (PESCs). PESC estimates can be used to visualize either the annual landscape of PESCs (spatio‐temporal variation), or can be aggregated across space to calculate annual variation in diet proportions (variation among prey items and among years). We demonstrated our approach in two contrasting scenarios: a data‐rich situation involving eastern Bering Sea (EBS) large‐size walleye pollock (Gadus chalcogrammus, Gadidae) for 1992–2015; and a data‐limited situation involving West Florida Shelf red grouper (Epinephelus morio, Epinephelidae) for 2011–2015. Large walleye pollock PESC was predicted to be higher in very warm years on the Middle Shelf of the EBS, where food is abundant. Red grouper PESC was variable in north‐western Florida waters, presumably due to spatio‐temporal variation in harmful algal bloom severity. Our approach can be employed to parameterize or validate diverse ecosystem models, and can serve to address many fundamental ecological questions, such as providing an improved understanding of how climate‐driven changes in spatial overlap between predator and prey distributions might influence predation pressure.     

The daily egg production method: recent advances, current applications and future challenges

More than 120 surveys over 25 years suggest that appropriate use of the daily egg production method (DEPM) provides unbiased but rather imprecise estimates of spawning biomass (coefficient of variation generally above 30%). Knowledge of species reproductive biology and early life history and a survey design adapted to local population dynamics are required to optimize DEPM performance in terms of bias, precision and cost. Clupeoid applications dominate worldwide (mainly for anchovies and sardines) and estimates are often used to tune indirect assessment models or to calibrate other fisheries‐independent methods. The method seems better adapted to the life history of anchovies than of sardines, leading to more precise estimates of anchovy spawning biomass and facilitating extensions of the method to estimate total biomass and numbers at age. The continuous underway fish egg sampler is often used as a secondary sampler in the ichthyoplankton survey of the DEPM to reduce the cost and improve the precision of egg production. Multinomial models were recently developed to analyse egg incubation data and used in a Bayesian procedure for egg ageing and delimitation of daily cohorts. These were incorporated in model‐based estimators to get spatially explicit estimates of egg production, daily fecundity parameters and spawning biomass that can improve the precision of DEPM. Uncertainty in daily fecundity estimation of clupeoids is mainly because of spawning fraction estimation by the post‐ovulatory follicle (POF) method. Exploration of recent histological and molecular techniques for POF characterization and laboratory experiments to test the effect of temperature on POF degradation can help to improve spawning fraction estimation. Available estimates of egg production and mortality, daily fecundity, spawning area and biomass from different populations, species and ecosystems are being used to improve the understanding of clupeoid spawning dynamics, their relation with ecosystem productivity and to build comprehensive population models. Finally, a counter‐intuitive finding of this review is that, although the DEPM is almost exclusively applied to clupeoids, recent evidence indicates that it may be easier and cheaper to use in other teleost families, including demersal species.     

Fish populations in tropical floodplain pools: a re-evalution of Holden's data on the River Sokoto

Abstract– In this study we asked whether the fish populations of residual pools in a seasonally fluctuating African river varied between years. We used a series of data on the fish of the permanent floodplain pools of the River Sokoto, Nigeria compiled by M. J. Holden (1963) to address this objective. Holden provided estimates for the size and biomass of fish populations in 12 permanent dry season pools over a period of 2 to 3 years. On average, only 22% of the species present in a pool were absent from that pool in the following sampling period. Despite low interannual variability in the species composition of the pools, rank correlation analysis indlcated significant variation in the relative numbers and biomass of the 10 most numerically abundant species in most pools. Altering the spatial scale of analysis to include all possible combinations of 2 and 6 pools did not affect the results. Indices of similarity also indicated relatively high annual variability in the relative abundance of species in the pool communities. We suggest that habitat selection may contribute to the continued occurrence of fish species in pools from year to year, and such factors as changes in the overall abundance of fish species in the system and haphazard trapping during flood decline may contribute to annual variation in their relative abundance.     

Effects of within-patch habitat structure and variation on fish assemblage characteristics in the Bernecei stream, Hungary

Abstract –  Over a 3-year period we examined variability in physical habitat structure and species richness, abundance and assemblage composition of fishes in 13 habitat patches in the Bernecei stream, Hungary. Principal component analysis of habitat structure data from patches elucidated a riffle-run-pool habitat gradient across patches. Temporal habitat variability increased significantly from riffle to pool patches. Fish assemblage characteristics displayed relatively continuous change over the habitat gradient and were relatively stable within patches. Assemblage structure properties (e.g., species richness) displayed different responses to the habitat gradient and to within-patch habitat variability. In general, pool patches had more diverse assemblages and greater within-patch assemblage variability than riffle patches. However, within-patch dynamics were largely determined by the population dynamics of a habitat generalist (i.e., minnow). Broad scale environmental variability (i.e., a catastrophic 100-year flood) also appeared to affect within-patch fish assemblage characteristics. Our results demonstrate that fish assemblage structure is influenced by physical variability (i.e., both floods and spatio-temporal habitat variability) within the Bernecei stream.     

Effects of biological,economic and management factors on tuna and billfish stock status

Commercial tunas and billfishes (swordfish, marlins and sailfish) provide considerable catches and income in both developed and developing countries. These stocks vary in status from lightly exploited to rebuilding to severely depleted. Previous studies suggested that this variability could result from differences in life‐history characteristics and economic incentives, but differences in exploitation histories and management measures also have a strong effect on current stock status. Although the status (biomass and fishing mortality rate) of major tuna and billfish stocks is well documented, the effect of these diverse factors on current stock status and the effect of management measures in rebuilding stocks have not been analysed at the global level. Here, we show that, particularly for tunas, stocks were more depleted if they had high commercial value, were long‐lived species, had small pre‐fishing biomass and were subject to intense fishing pressure for a long time. In addition, implementing and enforcing total allowable catches (TACs) had the strongest positive influence on rebuilding overfished tuna and billfish stocks. Other control rules such as minimum size regulations or seasonal closures were also important in reducing fishing pressure, but stocks under TAC implementations showed the fastest increase of biomass. Lessons learned from this study can be applied in managing large industrial fisheries around the world. In particular, tuna regional fisheries management organizations should consider the relative effectiveness of management measures observed in this study for rebuilding depleted large pelagic stocks.     

Variation in productivity of a key snapper,Chrysophrys auratus,fishery related to recruitment and fleet dynamics

Abstract Temporal variation in production of the Chrysophrys auratus (Forster) fishery of Northern Spencer Gulf, South Australia, between 1984 and 2009 was investigated using commercial fishery statistics and estimates of age and size structures from market sampling. Fishery production was divisible into two periods, i.e. from 1984 to early 2000s and the middle to late 2000s. During the former, cycles in production were relatable to variable fishable biomass. Age structures that displayed considerable differences in age class strength reflected interannual variation in juvenile recruitment, which resulted in high variability in the strength of year classes entering the fishery. Periodic strong year classes were the major influence on fishable biomass as they passed through the population over numerous years. For the latter period, fishery statistics were conflicting as catches and effort were relatively low, whilst the estimates of catch per unit effort (CPUE) were consistently high. These statistics reflect a considerable change to the structure of the fishery that involved a reduction in number of fishers and fishing effort. The fishery statistics may indicate hyperstability, with CPUE estimates remaining high despite declining biomass because of the aggregative behaviour of the fish and the efficiency of remaining fishers.     

Implementing the precautionary approach into fisheries management: Biomass reference points and uncertainty buffers

The precautionary approach to fisheries management advocates for risk-averse management strategies that include biological reference points and account for scientific uncertainty (i.e. process, model and observation uncertainty). In this regard, two approaches have been recommended: (a) biomass reference points to safeguard against low stock biomass, and (b) uncertainty buffers that reduce the catch limit as a function of the scientific uncertainty. This study compares the effectiveness of these two precautionary approaches in recovering over-exploited fish stocks. We evaluate the performance of more than 80 harvest control rules (HCRs) within a stochastic management strategy evaluation (MSE) framework for three stocks with contrasting life-history parameters and under various levels of scientific uncertainty. The results show that both approaches reduce the risk of overfishing at the expense of expected yield. This risk-yield trade-off strongly depends on the HCRs, life-history parameters of the species, as well as the level of the scientific uncertainty. Nevertheless, some combinations of biomass threshold and limit reference points as well as uncertainty buffers lead to a more favourable risk-yield trade-off than other rules. This study elucidates the multiple factors affecting the effectiveness of management strategies and highlights key features of HCRs for precautionary fisheries management.     

渔获量不确定性对印度洋大眼金枪鱼资源评估的影响

大眼金枪鱼(Thunnus obesus)是最具经济价值的热带金枪鱼类,其资源状况一直是区域性金枪鱼渔业管理组织关注的重点。由于多种渔业作业、捕捞船队构成复杂,印度洋大眼金枪鱼的历史渔获量统计存在一定的偏差(Bias),但国际上近些年开展资源评估时都忽略了这一偏差。本研究根据1979~2015年的年渔获量、年龄结构渔获量及相对丰度指数数据,运用年龄结构资源评估模型(ASAP)对印度洋大眼金枪鱼资源进行评估,重点考查渔获量的不确定性(观测误差和统计偏差)对资源评估结果的影响。结果显示,印度洋大眼金枪鱼当前资源总体没有过度捕捞,但2015年初显示轻微的过度捕捞,通过对比基础模型与8个灵敏度分析模型的评估结果发现,渔获量观测误差(CV)的预设对资源开发状态的判断有一定的影响。当渔获量统计偏差调整量为15%时(即历史渔获量被低估了),评估结果与基础模型基本一致;统计偏差调整量为20%时,评估结果有过度捕捞的趋势。本研究结果表明,资源评估模型中渔获量观测误差的设定和历史渔获量统计偏差均会对评估结果产生影响,后者更为明显,因此,二者均不能忽略。     

How long should we ignore imperfect detection of species in the marine environment when modelling their distribution?

The application of the ‘ecosystem approach’ to marine conservation management demands knowledge of the distribution patterns of the target species or communities. This information is commonly obtained from species distribution models (SDMs). This article explores an important but rarely acknowledged assumption in these models: almost all species may be present, but simply not detected by the particular survey method. However, nearly all of these SDM approaches neglect this important characteristic. This leads to the violation of a fundamental assumption of these models, which presuppose the detection of a species is equal to one (i.e. at each survey locality, a species is perfectly detected). In this article, the concept of imperfect detection is discussed, how it potentially influences the prediction of species' distributions is examined, and some statistical methods that could be used to incorporate the detection probability of species in estimates of their distribution are suggested. The approaches discussed here could improve the collection and interpretation of marine biological survey data and provide a coherent way to incorporate detection probability estimates in the modelling of species distributions. This will ultimately lead to an unbiased and more rigorous understanding of the distribution of species in the marine environment.     

江苏镇江长江豚类保护区浮游动物群落结构特征及江豚生存状况评估

江苏镇江长江豚类保护区是唯一没有被开辟为主航道的长江干流豚类保护区,是长江下游少有的长江江豚的优良栖息地。为了解这一地区的浮游动物群落特征,2010-2011年对镇江保护区进行了4个季度的考察和调研。结果表明,在浮游动物种类数和丰度上,原生动物和轮虫占据主导地位,但浮游动物生物量主要由枝角类和桡足类决定。保护区2（现有...     

Taxonomic and geographical representation of freshwater environmental DNA research in aquatic conservation

相似文献   

Impaired littoral energy pathways cause a shift to pelagic resources by fish in recovering lake food webs

Fish communities may increase in biomass and productivity due to energy subsidies from the littoral invertebrate community. In lakes recovering from acidification and metal contamination, such as those in Sudbury, Ontario, Canada, impaired benthic invertebrate communities (i.e., low diversity with higher abundance of small‐bodied taxa) allowed a critical test of the role of these littoral pathways on fish diet. We compared fish abundance, diversity, diet and biomass in eight recovering and eight reference lakes and related availability of the main littoral and pelagic invertebrate groups to fish diet regime using stable isotope analysis. A Bayesian mixing model (MixSIR) was used to estimate diet likelihood, and convex hull analysis was used to estimate trophic niche space of fish communities. Fish biomass did not differ between impaired and reference lakes despite substantial differences in potential diet. Fish depended strongly on littoral benthos in the reference lakes but consumed more pelagic food in the impaired lakes. The trophic niche of the focal, most common fish species (i.e., yellow perch, smallmouth bass, pumpkinseed and brown bullhead) was larger in the impaired lakes. We attributed these differences to low diversity at the highest trophic levels of fish communities in the impaired lakes as well as to depauperate benthic invertebrate communities. In contrast to the food webs of most temperate lakes, fish in impaired lakes preyed less on littoral invertebrates yet still managed to maintain a reference lake level of biomass standing crop by relying more on pelagic resources – macro zooplankton such as Chaoborus.