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Comparative evaluation of analytical pipelines for illumina short- and nanopore long-read 16S rRNA gene amplicon sequencing with mock microbial communities
Full text linkUtility of a recently developed long-read pipeline, Emu, was assessed using an expectation-maximization algorithm for accurate read classification. We compared it to conventional short- and long-read pipelines, using well-characterized mock bacterial samples. Our findings highlight the necessity of appropriate data-processing for taxonomic descriptions, expanding our understanding of the precise microbiome.journal articl
Risk assessment of wild fish as environmental sources of red sea bream iridovirus (RSIV) outbreaks in aquaculture
Full text linkABSTRACT: Red sea bream iridovirus (RSIV) causes substantial economic damage to aquaculture. In the present study, RSIV in wild fish in an aquaculture environment was surveyed to evaluate the risk of wild fish being an infection source for RSIV outbreaks in cultured fish. In total, 1102 wild fish, consisting of 44 species, were captured from two aquaculture areas in western Japan using fishing, gill nets, and fishing baskets between 2019 and 2022. Eleven fish from seven species were confirmed to harbor the RSIV genome using a probe-based real-time PCR assay. The mean viral load of the RSIV-positive wild fish was 101.1 ± 0.4 copies/mg DNA, which was significantly lower than that of seemingly healthy red sea bream (Pagrus major) in a net pen during an RSIV outbreak (103.3 ± 1.5 copies/mg DNA) that occurred in 2021. Sequencing analysis of a partial region of the major capsid protein gene demonstrated that the RSIV genome detected in the wild fish was identical to that of the diseased fish in a fish farm located in the same area where the wild fish was captured. Based on the diagnostic records of RSIV in the sampled area, the RSIV-infected wild fish appeared during RSIV outbreak or after the ceasing of the disease in cultured fish, suggesting that RSIV detected in wild fish was derived from the RSIV outbreak in cultured fish. Therefore, wild fish populations around aquaculture environments may not be a significant risk factor for RSIV outbreaks in cultured fish.論文受理後、タイトル変更journal articl
Morphological and cytochemical characteristics of neutrophil granules from West African lungfish Protopterus annectens
Full text link: Neutrophil granules (NG) of West African lungfish Protopterus annectens were classified into two types of stratified [two-layer; inner layer (L0) and outer layer (L1)] granules (type A, NG-A; type B, NG-B). The L1 of NG-A and both layers of NG-B were chromophobic, and L0 of NG-A showed polychromatophilic [eosinophilic or basophilic (orthomethylenophilic or metaazurophilic)]. The L0 of NG-A showed metachromatic (reddish purple) with toluidine blue. On the other hand, L0 of NG-B were positive for acid phosphatase, α-naphthyl acetate esterase, α-naphthyl butyrate esterase and naphthol AS-D chloroacetate esterase. Both types of granules were negative in periodic acid Schiff reaction, alcian blue, Sudan black B, Sudan III, and oil red O. Alkaline phosphatase, β-glucuronidase, and peroxidase were not detected in either granule.編集：水産大学校departmental bulletin pape
222Rnを指標とした大阪湾沿岸域における地下水湧出の評価
No full text222Rnを指標とした沿岸観測の結果，六甲山地近くの兵庫県東部や大阪南部において，地下水（再循環水の可能性を含む）の湧出が示唆され，地下水流動モデルの結果とも整合性があった．栄養塩を多く含む海底地下水の湧出は，特に，底層や河川から離れた地域において，海洋生態系にも影響をおよぼすと考えられる．journal articl
