Southeast Asian Fisheries Development Center, Aquaculture Department Institutional Repository (SAIR) is the official digital repository of scholarly and research information of the department. This is to enable the effective dissemination of AQD researchers' in-house and external publications for free and online. The repository uses DSpace, an open source software, developed at Massachusetts Institute of Technology (MIT) Libraries. It is an Open Archives Initiative (OAI)-compliant.

Initially, the repository shall contain preprints, full-texts or abstracts of journal articles, books and conference proceedings written by SEAFDEC/AQD scientists and researchers. The aim is to promote these publications especially those published in international peer-reviewed journals and generate higher citation through increased visibility.

It will also provide free access to all in-house publications of SEAFDEC/AQD. Full-text digitized copies of fishfarmer-friendly materials like books, handbooks, policy guidebooks, conference proceedings, extension manuals, institutional reports, annual reports (AQD Highlights), and newsletters (SEAFDEC Asian Aquaculture, Aqua Farm News, AquaDept News and AQD Matters) can be retrieved and downloaded.

In the future, SAIR will expand its collection to include images, presentations, audios, and videos among others.

The objectives of the repository are to: (1) to provide reliable means for SEAFDEC/AQD researchers to store, preserve and share their research outputs and (2) to provide easy access and increase the visibility of SEAFDEC/AQD scientific publications

SAIR also aims to encourage SEAFDEC/AQD researchers for self-archiving and submitting pre-prints from which metadata will be screened and approved by the library staff.

  • Article

    Dietary soy peptide enhances thermotolerance and survival of juvenile japanese flounder, Paralichthys olivaceus 

    JA Ragaza, REP Mamauag, S Yokoyama, M Ishikawa & S Koshio - Journal of the World Aquaculture Society, 2015 - World Aquaculture Society
    Soy peptide (SP), a soy protein enzymatic hydrolysate, contains bioactive substances that could be utilized as an immune-stimulating feed ingredient. The experiment evaluated the efficacy of dietary SP on promoting growth, and enhancing tolerance and survival to heat stress in juvenile Japanese flounder, Paralichthys olivaceus. Four diets were incorporated with different levels of SP (0, 2, 5, and 10%) and a 6-wk feeding trial ensued. Following the feeding trial, the experimental groups were subjected to heat stress to measure survival rate and heat shock protein 70s (HSP70s) in gill, liver, and skin. Fish fed diets with SP inclusion showed considerable decrease in percent weight gain. Significantly higher lethal time values to 50% mortality (LT50) value were recorded for fish fed 10% SP. Moreover, LT50 values of fish fed 2 and 5% SP were significantly higher compared with fish fed control diet. HSP70s produced in all the tissues were significantly highest in fish fed 10% SP. HSP70s values were significantly higher in fish fed 2 and 5% SP compared with fish fed control diet. A significant reduction in HSP70s among all groups during recovery period was also observed. These results suggest that SP can be used to enhance the immune response and survival of P. olivaceus under heat stress.

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  • Article

    A probiotic Bacillus strain containing amorphous poly-beta-hydroxybutyrate (PHB) stimulates the innate immune response of Penaeus monodon postlarvae 

    JLQ Laranja, EC Amar, GL Ludevese-Pascual, Y Niu, MJ Geaga, P De Schryver & P Bossier - Fish and Shellfish Immunology, 2017 - Elsevier
    In this study, the PHB-accumulating Bacillus sp. JL47 strain (capable of accumulating 55% PHB on cell dry weight) was investigated for its effects on the immune response of giant tiger shrimp (Penaeus monodon) postlarvae (PL) before and after the Vibrio campbellii challenge. Briefly, shrimp PL were cultured and fed with Artemia nauplii enriched with Bacillus sp. JL47. Shrimp receiving the Artemia nauplii without JL47 enrichment were used as control. After 15 days of feeding, the shrimp were challenged with pathogenic V. campbellii LMG 21363 at 106 cells mL-1 by immersion. Relative expression of the immune related genes encoding for prophenoloxidase (proPO), transglutaminase (TGase) and heat shock protein 70 (Hsp70) in the shrimp were measured before (0 h) and after (3, 6, 9, 12, 24 h) the Vibrio challenge by quantitative real-time PCR using β-actin as the reference gene. The expressions of TGase and proPO were significantly up-regulated (p < 0.05) within 9 h and 12 h, respectively after challenge in shrimp receiving the Bacillus sp. JL47 as compared to the challenged and non-challenged controls. Hsp70 expression was significantly increased (p < 0.05) at 3 h post-challenge in all challenged shrimp. Interestingly, proPO and TGase genes were significantly up-regulated (p < 0.05) in Bacillus sp. JL47 treated shrimp even before the Vibrio challenge was applied. No up-regulation in the Hsp70 gene, however, was observed under these conditions. The data suggest that the protective effect of the PHB-accumulating Bacillus sp. JL47 in shrimp was due to its capacity to stimulate the innate immune related genes of the shrimp, specifically the proPO and TGase genes. The application of probiotic Bacillus species, capable of accumulating a significant amount of PHB, is suggested as potential immunostimulatory strategy for aquaculture.
  • Article

    Clonal production of Kappaphycus alvarezii (Doty) Doty in vitro 

    MRJ Luhan & JP Mateo - Journal of Applied Phycology, 2017 - Springer Verlag
    Micropropagation has proven to be a reliable method to mass produce certain crops. This method also has been applied in macroalgae to produce clones for seaweed farming. Protocols for callus production and shoot regeneration from protoplasts have been established for some seaweed species like Kappaphycus alvarezii. Cells and larger tissues, whether in solid or suspension medium, have been used to propagate clones which were later tested for suitability for farming. Although clonal production was successful, the long duration of culture in vitro limits the production process making the growing of Kappaphycus in vitro an expensive technique to produce clones. In this study, K. alvarezii was grown in vitro to develop a more efficient protocol for the production of clones. Small sections of Kappaphycus were grown in suspension for 1 month under the same temperature, light, and salinity. The type of media, source of explants, length of explants, and stocking density that resulted in the highest growth rate and survival rate were determined. Growth rate of K. alvarezii is significantly higher in media with inorganic nitrogen added than in Grund medium or Ascophyllum nodosum medium only. The appearance of shoot primordia as early as 5 days was observed in media with higher nitrogen concentration. Growth rates of explants approximately 3 and 5 mm are significantly higher than 10 mm sections. Shoots develop significantly faster in explants from tips than sections from older branches. Growth rate of K. alvarezii grown at 0.5, 0.75, 1, 1.25 s 10 mL−1 of medium is not significantly different. This protocol could significantly reduce the (1) time of culture and (2) cost of plantlets production by not using plant growth regulators and formulated media in vitro. Nursery reared plantlets/propagules for farming would be affordable to the stakeholders for sustainability of seaweed production.
  • Article

    Abdominal segment deformity syndrome (asds) and fused body segment deformity (fbsd) in cultured Penaeus indicus 

    The abdominal segment deformity disease (ASDD) is a new shrimp disease reported only in cultured Penaeus vannamei in Thailand. Shrimp with ASDD have deformed abdominal segment, jagged gut line and bumpy surfaces. Similar signs were observed in cultured P. indicus in the Philippines. However, aside from the signs described for ASDD, some P. indicus showing abdominal segment deformity syndrome (ASDS) had more severe deformities up to the extent that the number of body segments was reduced due to fusion. Shrimp with fused body segment deformity (FBSD) had four instead of five pairs of legs. To account the prevalence of the deformities in P. indicus, shrimp were classified into grossly normal shrimp (NS), shrimp with abdominal segment deformity syndrome (ASDS) and shrimp with fused segments (FBSD). Out of the shrimp sampled, 83.4 ± 5.4% was NS, 10.9 ± 6.2% was ASDS and 5.7 ± 3.0% was FBSD. Morphometric characteristics of the shrimp were measured. There was no significant difference in body weight (BW) among male and female NS, ASDS and FBSD. In both sexes, total length (TL) of FBSD was significantly shorter compared to NS and ASDS. Shrimp samples were also screened to be negative for known infectious viral diseases including white spot syndrome virus (WSSV), infectious hypodermal and haematopoietic necrosis virus (IHHNV), infectious myonecrosis virus (IMNV), P. vannamei nodavirus (PvNV), Macrobrachium rosenbergii nodavirus (MrNV) and Taura syndrome virus (TSV). Occurrence of ASDS and FBSD in post-larvae (PL) produced from captive and wild spawners were also determined. Based on a tank experiment, no significant difference was detected between the percentages of ASDS in PL produced from wild or captive spawners but FBSD was only noted in PL produced from the latter. Deformities generally did not affect the size of P. indicus except for the reduced length of shrimp with FBSD which when coupled with missing pleopods could lead to major economic loss for shrimp farmers if not addressed properly.
  • Article

    Mortality of pond-cultured Litopenaeus vannamei associated with acute hepatopancreatic necrosis disease (AHPND) and white spot syndrome virus (WSSV) infection in the Philippines 

    LD de la Peña, NAR Cabillon, EC Amar, DD Catedral, RC Usero, JP Faisan Jr., JI Arboleda, WD Monotilla, AT Calpe, DD Fernandez & CP Saloma - Fish Pathology, 2017 - Japanese Society of Fish Pathology
    Mortalities of up to 60% were observed in pond-cultured Litopenaeus vannamei in Bohol, Philippines. Histopathological examination revealed typical acute hepatopancreatic necrosis disease (AHPND) pathology. PCR test generated 1,269 bp and 230 bp amplicons confirmative for the toxin-producing AHPND strain of Vibrio parahaemolyticus among shrimp sampled from eight ponds. The same samples were subjected to PCR analyses for the presence of other viruses, namely WSSV, IHHNV, IMNV, and TSV. The samples were negative for the viruses except WSSV, which was detected after one-step PCR in six out of eight ponds. These results suggested that shrimp were infected dually with AHPND V. parahaemolyticus and WSSV.
  • Article

    Temporal changes in innate immunity parameters, epinecidin gene expression, and mortality in orange-spotted grouper, Epinephelus coioides experimentally infected with a fish pathogen, Vibrio harveyi JML1 

    EC Amar, JP Faisan Jr., MJS Apines-Amar & RV Pakingking Jr. - Fish and Shellfish Immunology, 2017 - Elsevier
    Changes in innate immunity parameters and epinecidin mRNA transcript levels were examined to characterize the non-specific immune response of E. coioides to pathogenic V. harveyi JML1 isolated from affected cage-cultured fish. After fish had been injected with bacteria at a dose causing 30% mortality, blood and tissue samples were collected at 0, 6, 12, 24, 48, 72, 96, 120, and 240 h post-infection (hpi) for assessment of indices such as the oxidative burst (OB) and phagocytic index (PI) of head kidney cells, and lysozyme activity (LYS) and total immunoglobulin (Total Ig) levels of the plasma. The epinecidin mRNA transcript levels (EGE) from skin, gills, liver, kidney, and spleen tissues were also determined by gelbased RT-PCR. Lastly, daily mortality (DM), liver total bacterial load (TBC), and presumptive Vibrio count (TVC) were monitored up to 240 hpi. The results revealed that bacteria proliferated rapidly in fish tissue, reaching peak densities at 24 hpi for both TBC and TVC but was on a downward trend thereafter. The pattern in fish mortality closely correlated with TBC and TVC. Total Ig, OB, and PI in E. coioides were suppressed in the early part of infection when V. harveyi load was high but recovered and later increased as bacterial density declined. LYS and EGE were consistently high and their activities were not hampered by bacterial infection. The study demonstrated that V. harveyi JML1 interacts with E. coioides by transiently inhibiting some immune parameters resulting in mortalities. However, consistently high LYS, upregulated EGE, and resurgent PI, OB and Total Ig conferred resistance and subsequent recovery in the fish. The study provides new insights on the interaction between E. coioides and V. harveyi JML1 that can aid in formulating health management strategies for groupers. Further studies on prophylactic interventions to enhance the innate immune response in grouper during infection with V. harveyi JML1 are suggested.

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