Epizoological Tools for Acute Hepatopancreatic Necrosis Disease (AHPND) in Thai Shrimp Farming

Acute hepatopancreatic necrosis disease (AHPND) is an emerging bacterial infection in shrimp that has been widespread across the major world shrimp producing countries since 2009. AHPND epizootics have resulted in a huge loss of global shrimp production, similar to that caused by white spot disease in the 1990’s. The epizootiological understanding of the spread of AHPND is still in its early stages, however, and most of the currently published research findings are based on experimental studies that may struggle to capture the potential for disease transmission at the country scale. The main aim of this research, therefore, is to develop epizootiological tools to study AHPND transmission between shrimp farming sites. Some tools used in this research have already been applied to shrimp epizoology, but others are used here for the first time to evaluate the spread of shrimp diseases. According to an epizootiological survey of AHPND in Thailand (Chapter 3), the first case of AHPND in the country was in eastern shrimp farms in January 2012. The disease was then transmitted to the south in December 2012. The results obtained from interviews, undertaken with 143 sample farms were stratified by three farm-scales (large, medium and small) and two locations (east and south). Both the southern location and large-scale farming were associated with a delay in AHPND onset compared with the eastern location and small- and medium-scale farming. The 24 risk factors (mostly related to farming management practices) for AHPND were investigated in a cross-sectional study (Chapter 3). This allowed the development of an AHPND decision tree for defining cases (diseased farms) and controls (non-diseased farms) because at the time of the study AHPND was a disease of unknown etiology. Results of univariate and unconditional logistic regression models indicated that two farming management practices related to the onset of AHPND. First, the absence of pond harrowing before shrimp stocking increased the risk of AHPND occurrence with an odds ratio () of 3.9 (95 % CI 1.3–12.6; P‑value = 0.01), whereas earthen ponds decreased the risk of AHPND with an of 0.25 (95 % CI 0.06–0.8; P‑value = 0.02). These findings imply that good farming management practices, such as pond-bottom harrowing, which are a common practice of shrimp farming in earthen ponds, may contribute to overcoming AHPND infection at farm level. For the purposes of disease surveillance and control, the structure of the live shrimp movement network within Thailand (LSMN) was modelled, which demonstrated the high potential for site-to-site disease spread (Chapter 4). Real network data was recorded over a 13-month period from March 2013 to March 2014 by the Thailand Department of Fisheries. After data validation, c. 74 400 repeated connections between 13 801 shrimp farming sites were retained. 77 % of the total connections were inter-province movements; the remaining connections were intra-province movements (23 %). The results demonstrated that the LSMN had properties that both aided and hindered disease spread (Chapter 4). For hindering transmission, the correlation between and degrees was weakly positive, i.e. it suggests that sites with a high risk of catching disease posed a low risk for transmitting the disease (assuming solely network spread), and the LSMN showed disassortative mixing, i.e. a low preference for connections joining sites with high degree linked to connections with high degree. However, there were low values for mean shortest path length and clustering. The latter characteristics tend to be associated with the potential for disease epidemics. Moreover, the LSMN displayed the power-law in both and degree distributions with the exponents 2.87 and 2.17, respectively. The presence of power-law distributions indicates that most sites in the LSMN have a small number of connections, while a few sites have large numbers of connections. These findings not only contribute to a better understanding of disease spread between sites, therefore, but also reveal the importance of targeted disease surveillance and control, due to the detection of scale-free properties in the LSMN. Chapter 5, therefore, examined the effectiveness of targeted disease surveillance and control in respect to reducing the potential size of epizootics in the LSMN. The study untilised network approaches to identify high-risk connections, whose removal from the network could reduce epizootics. Five disease-control algorithms were developed for the comparison: four of these algorithms were based on centrality measures to represent targeted approaches, with a non-targeted approach as a control. With the targeted approaches, technically admissible centrality measures were considered: the betweenness (the number of shortest paths that go through connections in a network), connection weight (the frequency of repeated connections between a site pair), eigenvector (considering the degree centralities of all neighbouring sites connected to a specified site), and subnet-crossing (prioritising connections that links two different subnetworks). The results showed that the estimated epizootic sizes were smaller when an optimal targeted approach was applied, compared with the random targeting of high-risk connections. This optimal targeted approach can be used to prioritise targets in the context of establishing disease surveillance and control programmes. With complex modes of disease transmission (i.e. long-distance transmission like via live shrimp movement, and local transmission), an compartmental, individual-based epizootic model was constructed for AHPND (Chapter 6). The modelling uncovered the seasonality of AHPND epizootics in Thailand, which were found likely to occur between April and August (during the hot and rainy seasons of Thailand). Based on two movement types, intra-province movements were a small proportion of connections, and they alone could cause a small AHPND epizootic. The main pathway for AHPND spread is therefore long-distance transmission and regulators need to increase the efficacy of testing for diseases in farmed shrimp before movements and improve the conduct of routine monitoring for diseases. The implementation of these biosecurity practices was modelled by changing the values of the long-distance transmission rate. The model demonstrated that high levels of biosecurity on live shrimp movements (1) led to a decrease in the potential size of epizootics in Thai shrimp farming. Moreover, the potential size of epizootics was also decreased when AHPND spread was modelled with a decreased value for the local transmission rate. Hence, not only did the model predict AHPND epizootic dynamics stochastically, but it also assessed biosecurity enhancement, allowing the design of effective prevention programmes. In brief, this thesis develops tools for the systematic epizootiological study of AHPND transmission in Thai shrimp farming and demonstrates that: (1) at farm level, current Thai shrimp farming should enhance biosecurity systems even in larger businesses, (2) at country level, targeted disease control strategies are required to establish disease surveillance and control measures. Although the epizootiological tools used here mainly evaluate the spread of AHPND in shrimp farming sites, they could be adapted to other infectious diseases or other farming sectors, such as the current spread of tilapia lake virus in Nile tilapia farms

Fish genetics research in member countries and institutions of the International Network on Genetics in Aquaculture: Proceedings of the Fifth Steering Committee Meeting of INGA

A conference proceedings of the Fifth Steering Committee Meeting of the International Network on Genetics in Aquaculture (INGA), this publication incorporates information drawn from aquaculture genetics research undertaken or in progress in member countries and associate member institutions of INGA. The papers in this publication examine progress in aquaculture genetics research in developing countries and identify areas for possible collaboration between institutions in developing and developed countries towards developing better breeds of fish that can contribute to increased production and food security while ensuring the conservation of aquatic biodiversity.Fishery resources, Genetics, INGA, Information networks, ICLARM, SEAFDEC, FAO, Bangladesh, China, Cote d'Ivoire, Egypt, Fiji, India, Indonesia, Malawi, Malaysia, Philippines, Thailand, Viet Nam, Israel, UK, Netherlands,

Development and use of standardized white spot syndrome virus (WSSV) inoculation procedures for studies on pathogenesis and control

Development and use of standardized white spot syndrome virus (WSSV) inoculation procedures for studies on pathogenesis and contro

Morphometric, genetic and reproductive characteristics of mud crabs (genus Scylla de Haan, 1833) from Southeast Asia

The edible mud crab, genus Scylla, is important to fisheries and aquaculture throughout the Indo Pacific region, but its taxonomic status has been confused for decades and a new classification has only recently been proposed. This project was undertaken to investigate the species status of mud crabs in Southeast Asia, with a view to deciding whether two sympatric morphs of Scylla found in Ban Don Bay, Surat Thani Province, Thailand, are two separate species. A further aim was to elucidate any possible pre-zygotic reproductive isolating mechanisms (RIMs) and ecological features that maintain the apparent sympatry between these two morphs. Mud crabs were collected from a primary site (Surat Thani, Thailand) as well as from six other locations in Thailand, Vietnam, Malaysia and Bangladesh. Crab samples from the latter sites were used selectively to provide a comparison to the primary study site. Descriptive taxonomy, multivariate morphometrics and allozyme electrophoresis were used to a) determine the number of species present within the crab samples collected; b) to ascertain which species they represent; c) to discover any geographical variation between locations sampled; d) to produce a possible phylogeny that summaries the relationship between Scylla species; and e) to look for pre-zygotic RIMs to explain the sympatry of the two morphs in Surat Thani. Findings from the present study reinforce the recent revision of the taxonomy of the genus Scylla into four species, S. serrata, S. olivacea, S. tranquebarica and S. paramamosain and provides new information on two of the four species which are dominant within Southeast Asia, including Ban Don Bay, Surat Thani Province, S. paramamosain and S. olivacea. Population studies showed both genetic and morphological differentiation between conspecific populations of S. paramamosain and S. olivacea, indicating stock structure for each species, although there is some disparity between morphological and genetic distances for S. paramamosain. This is discussed in relation to the effects of larval dispersal mechanisms and the subsequent recruitment of juvenile crabs. Phylogenetic interpretation of both genetic and morphological characters revealed that both S. serrata and S. olivacea are the most diverged of the four Scylla species; however, the direction of evolution is open to interpretation and the evidence for either S. olivacea or S. serrata as the more primitive species are discussed. Reproductive studies on the two mud crab species found in Surat Thani revealed no physical barrier to hybridization. Both species have a protracted breeding season which continues throughout the year. However, the size at first sexual maturity was significantly smaller for S. olivacea when compared to S. paramamosain. This and other potential mechanisms that may maintain these two species sympatrically are discussed. The clarification of four Scylla species, and the establishment of diagnostic genetic and morphological characters that can be used to identify them, means that research can now focus on both the ecology and life history of these closely related species. Such information is needed urgently with respect to fisheries management as well as to understanding the environmental requirements of each species in order to develop their potential for aquaculture

Sustaining export-oriented value chains of farmed seafood in China

This thesis is intended to improve the understanding of China’s evolving export-oriented farmed seafood systems, and in particularly, shrimp and tilapia farming value chains in Southern China. An integrated, systems thinking and interdisciplinary approach in which both top–down and bottom–up approaches were combined. The research moved from system reviews, to field surveys and workshops, and then to improving sustainability by Action Research (AR), in order to form a holistic understanding of sustainability at both national and local scales. In the new millennium, the aquaculture sector has matured, and many factors now slow the growth rate of Chinese aquaculture production, such as increasing culture of high-value species and an emerging trend of extensification. There are been some strategy shifts in the aquaculture industry such as changing from a high production to high profit orientation and from causing environmental damage to ecological remediation. A key conclusion is that high growth rates, regularly used in policy dialogues, are misleading indicators and do not reflect, realistic or sustainable, growth profiles. Although overall Chinese aquaculture production is likely to further increase to meet an increasing and changing market demand, growth rates will decrease further. China already is and will continue to be a fisheries products net importer, however, if fishmeal excluded China will remain as a seafood net exporter. The status and development of four internationally-traded farmed seafood, tilapia, penaeid shrimp, macrobrachium prawns and striped catfish in China were reviewed. China is the largest producer of tilapia, penaeid shrimp and macrobrachium prawns, and striped catfish is not produced in significant quantities due to climate limitations. Meanwhile, China is the largest exporter of tilapia, the second largest exporter in the volume and third in value of shrimp in the world, while macrobrachium prawns mainly support domestic markets. Tilapia and penaeid shrimp were selected for further research. An analysis of tilapia and shrimp farm scale indicators and their relationship to farming system and market orientation, farm intensification and performance was made. Farm area, both land and water area, labour, including paid and unpaid were effective indicators to distinguish farm scale. Small-scale farms had higher land productivity in production terms but no difference in value output term, and they had much lower labour productivity than medium and large-scale farms. Farming systems were also correlated with land and labour productivities. Market orientation was closely linked to farm scale as most farms with an export orientation required registration with CIQ (China Entry-Exit Inspection and Quarantine) and were mainly large-scale. An assessment of local stakeholder sustainability perspectives along value chains revealed that more than 80% shrimp and tilapia farmers didn’t want their children to continue basing their living on aquaculture; because they considered it hard work, high risk and poorly remunerated. Farming was comparative stable with few changes in the five years prior to the survey. Major sustainability factors identified by stakeholders included input costs, profit, water availability & quality and the weather, most of which were outside their control. The measurement of these sustainability factors was firstly proposed by stakeholders and then developed to a set of sustainability indicators (SIs). Life cycle assessment (LCA) was used as evaluate the environmental performance of tilapia, pig and integrated tilapia-pig farming systems in China. Pig farming had higher environment impacts based on most impact categories than tilapia, and integrated farming systems. Sensitivity analysis showed that improvements of 5% and 10% higher feed efficiency, reduction of fishmeal in feed to 1% level and use of EU electricity could significant reduce overall environmental impacts. An action research (AR) approach was used to assess the practice of farm record keeping with farmers which were found to be generally low and a major constraint to improving product traceability increasingly demanded by consumers. Large scale and CIQ farms were more likely to keep records and for them to be detailed and analysed to inform improved management. Farmers’ motivation, ability and capability and background had significant correlation with record keeping practice. Two major dilemmas were identified by the analysis. Easy-to-use farm record-keeping system more suitable for less formally educated farmers was a clear requirement but useful storage and analysis of farm data capacity requires sophisticated management tools such as a computer system. Another dilemma is the need for coercion by regulatory authorities or encouragement through provision of education and training in increasing on-farm record-keeping to a level required for international trade and, increasingly, domestic markets. “Precision aquaculture”, value chain integrated solution, and further social-economic reforms were discussed. Finally, sustainable intensification, diversification, and extensification were proposed as strategies for China to meet the challenges of globalization and the growing demands of export and domestic value chains. In order to enhance sustainability of the sector and provide opportunities for small-scale farmers, the current status and changes of the Chinese social, economic context, food safety and environments issues were discussed. Farmers’ organizations, future consolidation, and land reforms were identified as key to the required changes of farmed seafood value chains

Aquaculture Asia, vol. 8, no. 3, pp.1-58, July - September 2003

CONTENTS: Ornamental Fish Farming – Successful Small Scale Aqua business in India, by Abalika Ghosh, B. K. Mahapatra and N.C. Datta. Tilapia: A species for Indian Aquaculture? by Graham Mair. Peri-urban food production in Southeast Asia, by Peter Edwards. Shrimp Farming Practices and its Socio- Economic Consequences in East Godavari District, Andhra Pradesh, India - A Case Study, by M.Kumaran, P.Ravichandran, B.P.Gupta and A.Nagavel. Breeding technique of Malaysian golden arowana, Scleropages formosus in concrete tanks, by Mohamad Zaini Suleiman. Captive Breeding of Peacock Eel, Macrognathus aculeatus, by S.K.Das and N. Kalita. Substrate based aquaculture systems: Farmer innovation withstands scientific scrutiny and proves robust, by M.C. Nandeesha. [Farmers as Scientists series] Extension in shrimp health management: experiences from an MPEDA/NACA program in Andhra Pradesh, India, by PA Padiyar, MJ Phillips, M Primphon, CV Mohan, BV Bhat, VS Rao, G Ravi Babu, ABCh Mohan, GN Murthy and P Chanratchakool. The status and treatment of serious diseases of freshwater prawns and crabs in China, by Yang Xianle and Huang Yanping. Guidelines for improvement of water quality and volume in shrimp farm (แนวทางในการปรับปรุงคุณภาพ และปริมาณน้ำในฟาร์มกุ้ง), by Pornlerd Chanratchakool. Improvement of larval rearing technique for Humpback grouper, Cromileptes altivelis, by Ketut Sugama, Suko Ismi, Shogo. Kawahara and Mike Rimme

The role of poly-β-hydroxybutyrate as protection against Vibrio infections in blue mussel larvae

The blue mussel (Mytilus edulis) is an important species in Europe, not only as a model for environmental studies but also as aquaculture species. This PhD research is the first study to evaluate the use of poly-β-hydroxybutyrate (PHB) as an innovative production strategy to improve the performance of bivalve larvae. The following three approaches were used: First, the application of PHB in mussel larvae cultures in crystalline form (i.e. extracted from the bacterial cells, PHB-C) versus amorphous form (i.e. still contained in the bacterial cells, PHB-A) was compared. PHB was supplied at concentrations of 0.1 mg L-1, 1.0 mg L-1, and 10.0 mg L-1 to the culture water of the larvae, starting 2 days after fertilization; secondly, the possible antimicrobial effect of PHB-A and its monomer β-hydroxybutyrate was investigated since only the latter is biologically active. Their putative protective role against two pathogenic bacteria Vibrio splendidus and Vibrio coralliilyticus was studied both in vitro and in vivo. For the in vitro tests, the impact of β-hydroxybutyrate against different virulence factors was determined at pH7 and pH8; (3) finally, the impact of PHB-A (1mg L-1) on gene expression of the antimicrobial peptides mytimycin, mytilinB, defensin and the hydrolytic enzyme lysozyme was looked into during in vivo challenge tests with V. coralliilyticus (105 CFU mL-1). Phenoloxidase activity in the challenged mussel larvae was also evaluated. In conclusion, the work proved that the biological compound PHB-A supplied as freeze-dried Ralstonia eutropha can bring added value to blue mussel larvae culture and possibly to bivalve larval culture in general by its ability to interfere with some virulence factors of the pathogens and with the immune gene expression of AMPs and by stimulating phenoloxidase activity in larvae. Use of PHB-A as an energy source by the larvae is unlikely but needs further confirmation