Molecular identification of interspecific hybrids between Haliotis discus hannai Ino and Haliotis gigantea Gmelin using amplified fragment‐length polymorphism and microsatellite markers

Interspecific hybrids between Haliotis discus hannai Ino and Haliotis gigantea Gmelin were produced in this study. The hybridity of the interspecific hybrids was confirmed by using the methods of amplified fragment‐length polymorphism (AFLP) and microsatellite [simple sequence repeats (SSR)] markers. Five AFLP primer combinations were used to develop the AFLP profiles of H. discus hannai, H. gigantea and their reciprocal hybrids. AFLP analysis revealed that genetic variations of H. discus hannai and H. gigantea were relatively diverse and each species holds species‐specific bands. The AFLP profiles of reciprocal hybrids showed that all of the hybrids inherited bands specific to H. discus hannai and H. gigantea. Of a total of 20 microsatellite loci, which were selected from H. discus hannai microsatellite markers evaluated, eight loci were polymorphic in H. gigantea samples, with an average of 3.375 alleles per locus. Preliminary screening showed that, two of these eight microsatellite loci (Awb002 and Awb022) could be used as species‐specific markers to distinguish the hybrids and their parental species. Simple sequence repeats analysis showed that the reciprocal hybrids inherited one allele from each parent for both of the two SSR loci investigated. These data strongly suggest that the induced interspecific hybrid is a true hybrid between H. discus hannai and H. gigantea.     

Improving aquaculture in post‐tsunami Aceh,Indonesia: experiences and lessons in better management and farmer organizations

Coastal aquaculture in Aceh was severely affected by the Asian Tsunami in December 2004. Capacity building among stakeholders was one of the key activities implemented by various agencies during the post‐tsunami aquaculture rehabilitation and subsequent development phase. The main objective was improving production efficiencies and farmer incomes. This article describes the process of implementation of the approach and crop outcomes until the end of 2009. In 2009, 1135 farmers and their 1296 ponds were ‘organized’ in 27 clusters across 84 villages of three districts to implement better management practices (BMP). Interventions reduced the prevalence of shrimp disease outbreaks significantly in participating ponds (22.45%) compared with non‐participating ponds (62.64%). Among the normal harvested ponds, though there was no significant improvement in shrimp yield but costs of shrimp production were significantly reduced by 12.1% and benefit cost ratio was significantly increased by 0.523 points in normal harvested participating ponds compared with normal harvested non‐participating ponds. Multivariable logistic regression analysis with 27 independent variables including a set of BMP showed that many factors were significantly associated with the normal harvests, improved yield and profits. The study shows that simple management improvements can reduce risks and improve economic returns.     

Indirect selection for growth and life-history traits in Indian carp aquaculture: 1. Effects of broodstock management

Artificial selection for genetic improvement is not carried on in Indian fish hatcheries. However, the process of selection of potential breeders and artificial propagation involves indirect selection, the nature of which will be determined by the type of breeders selected for breeding.The present study is focused on females belonging to two carp species, Labeo rohita and Cirrhinus mrigala, from two fish farms in Karnataka State, south India. Quantitative estimates of pre-reproductive growth rate, age at first spawning and size at first spawning were obtained by a confirmatory factor analysis of measurements made on fish scales. Phenotypic correlations and the resulting correlated selection intensities during a single episode of selection have been estimated. The intensity of indirect selection was negative for pre-reproductive growth rate and positive for age at first spawning. This indicates an undesirable tendency to breed slower growing and later maturing individuals in both farms.     

Genetic evaluation of interindividual relatedness for broodstock management of the rare species barfin flounder Verasper moseri using microsatellite DNA markers

ABSTRACT:   The barfin flounder has been recently declared to be rare, as the number of wild individuals in Japan has greatly reduced since 1975. The Japanese National Center for Stock Enhancement started the stocking program for this species on 1987. In the present study, microsatellite DNA loci were applied in order to determine the pedigree of the hatchery-produced juveniles for stock enhancement. Additionally, using six polymorphic microsatellite markers, the accuracy to assign dyads to categories of kinship was estimated using the relatedness estimator ( R _XY), similarity indexes (individual genetic identity [GI] and proportion of shared alleles [ P _S]), identification of kin groups using unweighted pair group method with arithmetic mean (UPGMA) clustering based on interindividual genetic distances (1- R _XY, 1- P _S, and 1-GI), a likelihood ratio approach, and partition methods to separate individuals into cohorts. The results were compared with the pedigree relationship previously obtained from parentage analysis. Estimation of the kinship relationship between individuals could be better inferred by means of UPGMA dendrogram clustering based on 1-GI or 1- P _S as interindividual genetic distances, or using computer software to perform partitioning of set of individuals.     

Genetic diversity and species identification of Argulus parasites collected from major aquaculture regions of India using RAPD‐PCR

Argulus is one of the most important fish parasites that cause heavy economic loss to aquaculture industry. The present investigation was undertaken to study the genetic diversity of the Argulus sp. collected from 13 locations representing major aquaculture zones in India by RAPD analysis and to develop species‐specific markers. Thirteen random decamer primers were used to amplify DNA fragments from three individual parasites of each location. Of the 172 bands scored by the primers, 168 were polymorphic. The per cent polymorphic loci and gene diversity values varied within a range of 8.14–43.02 and 0.0342–0.1727 respectively. Nei's genetic similarity between populations across all the primers ranged from 0.363 to 0.969. The dendrogram based on Nei's genetic distance showed two clusters; Bangalore and Mandi populations forming one cluster, and the rest in another cluster. The clusters also revealed strong correlation with the species identified as A. japonicus and A. siamensis respectively by morphological method. The study thus indicated A. siamensis as the major prevalent species in carp culture farms in India. Species‐specific primers were designed from unique sequences cloned from RAPD fragments that could able to identify A. siamensis and A. japonicus separately.     

合浦珠母贝3个家系的AFLP标记分离与遗传多样性研究

对AFLP标记在合浦珠母贝(Pinctada fucata)印度家系(印度贝♀×印度贝♂,PII)、杂交家系(三亚贝♀×印度贝♂,PSI)和三亚家系(三亚贝♀×三亚贝♂,PSS)的遗传分离及3个家系的遗传多样性进行了分析。3对引物共产生57个位点,分离位点比例为57.4%~87.7%,符合孟德尔规律的分离位点为70.0%~71.0%;1:1分离位点占总分离位点的24.0%~45.2%,其中杂交家系的比例最高。3个家系的多态位点比例为93.0%~100.0%,总基因多样性为0.460。家系内的基因多样性为PII0.434,PSI0.331,PSS0.366,平均为0.377±0.030。家系间的遗传分化显著(GST=0.180)。遗传距离分析表明,PSI与PSS之间的遗传距离最大(0.157),PII与PSS之间的遗传距离最小(0.121)。UPGMA系统树表明,PII和PSS的亲缘关系较近,而PSI与这2个家系较远。上述结果表明,第一代家系的遗传多样性仍很高,但家系之间的遗传分化较大。该研究结果对育种过程中遗传资源管理具有一定指导作用。     

Genetic assessment of milkfish (Chanos chanos Forsskal) stocks based on novel short tandem repeats for marker‐aided broodstock management

Milkfish hatchery broodstock are either from on‐grown wild‐caught or hatchery‐produced fry/juveniles. To determine if a marker‐assisted management scheme can be formulated for improved milkfish hatchery production, milkfish stocks were genetically characterized using nine novel short tandem repeats or microsatellites. Eight wild‐bred Philippine stocks (CLA, CUR, CAM, SIH, SBH‐I1, HH, PAL and ZH‐P₀), four hatchery‐bred stocks (SBH‐I2, SBH‐D, BoH and ZH‐F₁), two farm stocks of known mixed lineages (SPH and BDH) and one Indonesian hatchery‐bred stock (WJH) were assessed. WJH was included since milkfish fingerlings from Indonesia reared in Philippine farms could be developed into future broodstock. Mean allelic richness (Ar) was highest in wild‐bred stocks (9.5) and lowest in hatchery‐bred spawners (9.1). Mean expected heterozygosities (He) were relatively similar in all stocks with wild‐bred stocks slightly higher (0.67) than the others. An analysis of molecular variance indicated significant yet low genetic differentiation among stocks (F_ST = 0.013; p = .000) where variation (98.6%) was explained by intra‐stock differences. In some of the domesticated stocks, reductions in mean allelic richness were observed in first generation hatchery broodstock (e.g. ZH‐F₁; Ar = 8.3), compared with their founder stock (e.g. ZH‐P₀; Ar = 9.4). The Indonesian stock was similar to local wild‐bred stocks based on genetic variability indices; thus, it might be likely that the local stocks’ fitness traits could be comparable with the imported milkfish stock which has been perceived to be better. The quality of locally available farmed milkfish and prospects of formulating a broodstock management scheme for the production of good quality milkfish seedstock are herewith discussed.     

Earthquake‐induced habitat migration in a riparian spawning fish has implications for conservation management

相似文献   

Selectivity matters: Rules of thumb for management of plate‐sized,sex‐changing fish in the live reef food fish trade

Effective management of fisheries depends on the selectivity of different fishing methods, control of fishing effort and the life history and mating system of the target species. For sex‐changing species, it is unclear how the truncation of age‐structure or selection of specific size or age classes (by fishing for specific markets) affects population dynamics. We specifically address the consequences of plate‐sized selectivity, whereby submature, “plate‐sized” fish are preferred in the live reef food fish trade. We use an age‐structured model to investigate the decline and recovery of populations fished with three different selectivity scenarios (asymptotic, dome‐shaped and plate‐sized) applied to two sexual systems (female‐first hermaphroditism and gonochorism). We parameterized our model with life‐history data from Brown‐marbled grouper (Epinephelus fuscoguttatus) and Napoleon fish (Cheilinus undulatus). “Plate‐sized” selectivity had the greatest negative effect on population trajectories, assuming accumulated fishing effort across ages was equal, while the relative effect of fishing on biomass was greatest with low natural mortality. Fishing such sex‐changing species before maturation decreased egg production (and the spawning potential ratio) in two ways: average individual size decreased and, assuming plasticity, females became males at a smaller size. Somatic growth rate affected biomass if selectivity was based on size at age because in slow growers, a smaller proportion of total biomass was vulnerable to fishing. We recommend fisheries avoid taking individuals near their maturation age, regardless of mating system, unless catch is tightly controlled. We also discuss the implications of fishing post‐settlement individuals on population dynamics and offer practical management recommendations.     

Introduction of genetic engineering in aquaculture: Ecological and ethical implications for science and governance

Within aquaculture, genetic engineering (GE) is emerging as a powerful method for breeding of fish and shellfish, and for developing alternative sources of feed and vaccines to combat diseases. On the other hand, the use of GE in aquaculture raises ecological, ethical and economic concerns. For instance, genetically modified (GM) feed could be spread to the aquatic environment and consumed by other marine organisms, and horizontal gene transfer may conceivably occur from DNA in feed or vaccines to a recipient genome or by faeces to the environment. Numerous reports have described beneficial effects such as viral disease resistance following DNA vaccination. However, side effects, such as activation of other genes than those which are central in immune defence mechanisms, may occur and warrant further investigations. In order to achieve sustainable introduction of GE, it is crucial that appropriate scientific investigations and ethical considerations are done prior to large-scale introduction of GE products such as DNA/GE vaccines and GM feed in commercial fish farming. This may result in a solid basis for the avoidance of potentially undesirable health and environmental effects. If GE can help make aquaculture a sustainable industry, this opens the possibility of positive market and consumer responses. This can best be achieved by involving the stakeholders from the conceptual stage to the commercial stage by facilitating a transparent process whose purpose is to inform research, to identify decision stakes, and to influence design, adoption and implementation of pro-active policy.     

Heritability estimates for growth‐related traits in the Pacific oyster (Crassostrea gigas) using a molecular pedigree

Pacific oyster is one of the leading species in world aquaculture, but heritability estimation applying mixed‐family approach has not been actively pursued. In this study, heritability for growth‐related traits in the Pacific oyster was first estimated by creating a single cohort of 45 families in a full‐factorial mating design consisting of nine sires and five dams. A total of 270 offspring were analysed and parentage assignment inferred by six microsatellite markers achieved 100% success. All parents contributed to the spawn and a total of 42 full‐sib families were represented. Using an animal model, heritability estimates at 12 months of age were 0.49 ± 0.25 for shell height, 0.36 ± 0.19 for shell length, 0.45 ± 0.23 for shell width and 0.35 ± 0.17 for wet weight. Genetic correlation between shell height and wet weight was quite high (0.79 ± 0.25), suggesting that direct selection of shell height, which is an easily measurable trait, also improves wet weight. The results obtained in this study indicate that growth‐related traits could be improved by exploiting additive genetic effects through selective breeding.     

Directionality of pre‐ and post‐breeding migrations of a marbled newt population (Triturus marmoratus): implications for buffer zone management

• 1. The marbled newt, Triturus marmoratus, is a vulnerable urodele species (listed on Annex IV of the European Habitats Directive). However, biological information about their migration and the terrestrial habitats they use is relatively scarce. In order to investigate the influence of the surrounding habitats of a local pond on the directions of pre‐ and post‐breeding migrations, adult newts were monitored over two successive years (from February 2000 to June 2001) at a permanent pond in south‐western France using a drift fence and pitfall traps.
• 2. In both sexes the entry and exit directions were non‐randomly distributed. Furthermore, males and females generally followed similar directions facing an oak forest and avoiding barren areas. However, the directions followed by postbreeding migrants leaving the pond differed from those they followed when coming to the pond.
• 3. The distribution of captures around the pond was related to environmental factors, and more precisely to vegetation within the immediate surroundings of the pond.
• 4. The environmental conditions occurring at the end of the spring postbreeding migration differed greatly from those occurring during the winter prebreeding migration. Thus, vegetation does not exert similar attraction during the two migration periods.
• 5. This raises the importance of microhabitat diversity in the vicinity of the breeding pond, which provides a wide range of suitable shelters in different migration periods. Conservation planning must take into account the ecological requirements of this endangered species in managing buffer zones around the breeding sites.

Copyright © 2005 John Wiley & Sons, Ltd.     

1,3‐1‐6 ß‐glucans enhance tissue regeneration in zebrafish (Danio rerio): Potential advantages for aquaculture applications

High aquacultural rearing density and handling of fish may frequently result in skin or gills wounds, thereby facilitating the onset of secondary infections. The capacity of the zebrafish to regenerate tissues, as well as fins and other organs, makes it an ideal animal model for studying the mechanisms of tissue regeneration. Since macrophages are involved in tissue regeneration, a diet including ß‐glucans might positively affect the process through activation of macrophages and other immune pathways. Consequently, the aim of this study was to investigate the effects of the oral administration of 1,3‐1,6 β‐glucans on the regeneration process of the caudal fin after its amputation in zebrafish. One hundred and twenty zebrafish were randomly distributed into four groups with three replicates each: an untreated non‐amputated group (CNA) and an untreated amputated group (CA) fed a control diet; two treated and amputated groups (MI and MII) fed for 14 days the same diet with the addition of two differently extracted 1,3‐1,6 ß‐glucans (MacroGard^® and Experimental MacroGard^®, Biorigin^©). ß‐glucans were added to allowed the administration of 12.5 mg/kg of fish body weight (0.35 g/kg of feed). Results showed that 1,3‐1,6 ß‐glucans decreased fish mortality rate and enhanced both daily and cumulative regenerated fin area, independent of the specific ß‐glucan extraction method used. Based on the mechanisms similarities of the innate immune system and tissue regeneration among different teleost species, these results may likely be extended to species of interest for the aquaculture sector.     

Amino acid digestibility of animal protein ingredients for bullfrogs in different phases of post‐metamorphic development

The development of diets that economically and ecologically meet the requirements of bullfrogs (Lithobates catesbeianus) is important for frog farming. Therefore, the objective of this study was to determine the apparent digestibility coefficients for essential amino acids of eight animal feed ingredients (poultry byproduct meal, meat and bone meal, salmon byproduct meal, tilapia byproduct meal, spray‐dried blood meal, powered red blood cells, feather meal and sardine meal) used in the diets of bullfrogs. Additionally, the limiting digestible amino acids were determined for each ingredient. Bullfrogs in different phases of post‐metamorphic development were used: 810 animals in the early phase (mean weight: 40 ± 10 g), 405 animals in the growing phase (95 ± 15 g) and 243 animals in the finishing phase (175 ± 25 g). Poultry byproduct meal, salmon byproduct meal and blood meal exhibited the largest number of high apparent digestibility coefficients for essential amino acids (>70%) in the early, growing and finishing phases, respectively. The animal protein ingredients were well digested by the bullfrogs and could be used in practical diets for this species, respecting the limits of inclusion and digestibility values for each developmental phase.     

Testing of a pond‐side molecular diagnostic tool for the detection of white spot syndrome virus in shrimp aquaculture

White spot disease in penaeid shrimp is caused by the white spot syndrome virus (WSSV). It is the most economically important disease of farmed warm‐water shrimp, causing extensive economic losses estimated from $8 to $15 billion since its emergence in the 1990s. Early diagnosis of disease is critical in the management of outbreaks and to avoid crop losses. Diagnosis of white spot disease is generally carried out in centralized laboratory settings using molecular biology approaches. However, this mode of testing can be expensive and time consuming, requiring laboratory equipment, highly trained laboratory personnel, dedicated laboratory space, and long‐distance transportation of samples from field to lab. In‐field diagnostics are gaining credence as tools for rapid and early animal disease detection, allowing diagnosticians and farmers to potentially manage disease outbreaks from the pond side. In the present study, we describe the development and application of a new in‐field point‐of‐need diagnostic test and platform for the diagnosis of WSSV in remote settings (shrimp farms). We report its performance in laboratory and field settings and compare it with current gold‐standard diagnostic approaches. We discuss the potential benefits (and barriers to uptake) of applying such testing in the global shrimp farming sector.     

An evaluation of fish health‐management practices and occupational health hazards associated with Pangasius catfish (Pangasianodon hypophthalmus) aquaculture in the Mekong Delta,Vietnam

This study aimed to evaluate the current status on the use of probiotics, disinfectants and antimicrobials in hatcheries, nurseries and grow‐out farms producing Pangasius catfish (Pangasianodon hypophthalmus) in the Mekong Delta, Vietnam. Semi‐structured interviews were conducted with 83 aquaculture enterprises (15 hatcheries, 32 nurseries and 36 grow‐out farms). Farmers reported use of a total of 24 different antimicrobials, e.g. for treatment of bacillary necrosis and motile aeromonad septicaemia, and a variety of disinfectants, probiotics and nutritional supplements. In contrast to small‐scale farmers, all large‐scale grow‐out farmers studied were certified and therefore had higher levels of formal education and specialized aquaculture training to diagnose and treat diseases. All farmers prepared their own medicated feed with a high risk of treatment failure, negative environmental impact from released antimicrobials and resistance development. Small‐scale farmers were at particular occupational health risks when handling antimicrobials and other chemicals, e.g. mixing medicated feed with bare hands. There is an urgent need to improve knowledge and use innovative approaches, e.g. private‐public partnerships, to assure a prudent use of chemicals, to improve capacity and access to disease diagnosis, particularly for small‐scale grow‐out farmers and nurseries. Efforts to control use of antimicrobials in aquaculture should be coordinated with the livestock and human health sectors taking an One‐Health approach.     

Estimates of heritability and genetic correlations for growth‐related traits in the tiger prawn Penaeus monodon

Heritabilities and genetic and phenotypic correlations were estimated for body weight (BW), body length (BL), carapace length (CL), carapace width (CW) and carapace height (CH) of the Penaeus monodon from measurements on progeny at 6 months of age resulting from a nested mating design. Estimation was made on data from 41 full‐sib and 10 half‐sib families. The estimated heritabilities for these traits were 0.13–0.24, and the significantly phenotypic and genetic correlations were 0.81–0.94 and 0.88–1.00, respectively. The present results indicate that genetic improvement through selective breeding conducted on P. monodon might be feasible and would be an efficient method to obtain a positive response to selection.     

Molecular identification and distribution of mangrove oysters ( Crassostrea) in an estuarine ecosystem in Southeast Brazil: implications for aquaculture and fisheries management

This study investigated the existing species of Crassostrea in the natural environment, farming systems and artificial spat collectors at a protected estuarine area in Brazil, through PCR‐RFLP of mitochondrial 16S rRNA. Among 450 samples collected in the natural environment, 303 were C. brasiliana and 147 C. rhizophorae. Oysters present in the rocky subtidal zone were C. brasiliana. However, both species occurred on mangrove roots in the intertidal zone. Farm‐raised samples included only C. brasiliana. It was observed that attached specimens in commercial collectors had a banding pattern distinct from C. brasiliana and C. rhizophorae, indicating the presence of a third species in the estuary. The 16S rRNA sequence analysis showed that these specimens are clustered with the oysters from Pacific and Indian Oceans, and genetically close to the oysters of Beihai, China (0.3% genetic distance). Oysters obtained from the seed capture showed 17.8% distance of in relation to C. brasiliana, 17.6% for C. rhizophorae and 10.3% for C. gigas, demonstrating high genetic divergence from these species. The occurrence of an exotic species in the Cananéia estuary may have strong ecological and economic implications which require new guidelines for farming, conservation and sustainable fisheries management for the native oyster species.     

An assessment of genetic diversity in wild and captive populations of endangered Japanese bitterling <Emphasis Type="Italic">Tanakia tanago</Emphasis> (Cyprinidae) using amplified fragment length polymorphism (AFLP) markers

ABSTRACT:   The Japanese bitterling Tanakia tanago (Cyprinidae) is on the verge of extinction in the wild, placing great importance on captive breeding programs for current conservation of the species. However, the loss of genetic diversity during captive breeding is an ongoing matter of concern. Since some captive populations have been almost monomorphic in mitochondrial DNA (mtDNA), this hampers assessments of their genetic diversity during captive breeding. To more accurately assess their genetic diversity, one wild and three captive populations were examined using amplified fragment length polymorphism (AFLP) markers. Estimates of average heterozygosity and nucleotide diversity ranged 0.0479–0.1920 and 0.0023–0.0088, respectively, enabling comparison of genetic diversity among the wild and captive populations, and among year-classes of captive populations. Significant differences in numbers of amplified fragments and proportions of polymorphic fragments were observed among year-classes of all populations. The indices of genetic diversity calculated from AFLP seemed to be, however, less sensitive to weak bottlenecks. No continuous decrease in genetic diversity in nuclear DNA was detected in presently captive populations. This supports the possibility of re-introduction of the captive populations into the original habitats, although survival and reproductive ability in the wild must be taken into consideration.     

Quantitative trait locus mapping of growth‐related traits in inter‐specific F1 hybrid grouper (Epinephelus fuscoguttatus × E. lanceolatus) in a tropical climate

Growth‐related traits are the main target of genetic breeding programmes in grouper aquaculture. We constructed genetic linkage maps for tiger grouper (Epinephelus fuscoguttatus) and giant grouper (E. lanceolatus) using 399 simple sequence repeat markers and performed a quantitative trait locus (QTL) analysis to identify the genomic regions responsible for growth‐related traits in F₁ hybrid grouper (E. fuscoguttatus × E. lanceolatus). The tiger grouper (female) linkage map contained 330 markers assigned to 24 linkage groups (LGs) and spanned 1,202.0 cM. The giant grouper (male) linkage map contained 231 markers distributed in 24 LGs and spanned 953.7 cM. Six QTLs affecting growth‐related traits with 5% genome‐wide significance were detected on different LGs. Four QTLs were identified for total length and body weight on Efu_LG8, 10, 13 and 19 on the tiger grouper map, which explained 6.6%–12.0% of the phenotypic variance. An epistatic QTL with a reciprocal association was observed between Efu_LG8 and 10. Two QTLs were identified for body weight on Ela_LG3 and 10 on the giant grouper map, which explained 6.9% of the phenotypic variance. Two‐way analysis of variance indicated that the QTL on Efu_LG13 interacts with the QTLs on Ela_LG3 and 10 with large effects on body weight. Furthermore, these six QTLs showed different features among the winter, summer and rainy seasons, suggesting that environmental factors and fish age affected these QTLs. These findings will be useful to understand the genetic structure of growth and conduct genetic breeding in grouper species.