Institutional Repository of South China Sea Institute of Oceanology, CAS
Not a member yet
6199 research outputs found
Sort by
The complete mitochondrial genome sequence of Siganus sutor (Perciformes: Sigandae)
No full textThe complete mitochondrial genome of a marine fish Siganus sutor was completely sequenced by the high throughput sequencing method. This complete mitochondrial genome was 16,497 bp in length, consisted of 13 protein-coding genes, 22 tRNA genes, two rRNA genes and one large non-coding region. The gene arrangement of S. sutor is identical to those in typical fishes. Phylogenetic tree based on 13 protein-coding genes shows that Siganidae has a closer phylogenetic relationship to Luvaridae than to Ephippidae or Scatophagidae
The complete mitochondrial genome sequence of Gerres filamentosus (Perciformes: Gerridae)
No full textThe complete mitochondrial genome of Gerres filamentosus was sequenced by high throughput sequencing method. Length of this genome is 16,795 bp, containing 13 protein-coding genes, 22 tRNA genes, two rRNA genes and one large non-coding region. ND6 and eight tRNA genes are encoded by L-strand, and others are encoded by H-strand, which is similar to those in most vertebrates. Phylogenetic tree based on 13 protein-coding genes shows that the Glade of G. filamentosus is closely clustered with that of Gerres oyena, and families Caproidae and Ephippidae have the closest relationship to Gerridae, comparing with Sillaginidae
The first tropical sea cucumber caspase-8 from Holothuria leucospilota: Molecular characterization, involvement of apoptosis and inducible expression by immune challenge
No full textIn this study, the first tropical sea cucumber caspase-8 named HLcaspase-8 was identified from Holothuria leucospilota. The full-length cDNA of HLcaspase-8 is 2293 bp in size, containing a 245 bp 5'-untranslated region (UTR), a 521 bp 3'-UTR and a 1527 bp open reading frame (ORF) encoding a protein of 508 amino acids with a deduced molecular weight of 57.47 kDa. Besides the common signatures of caspase family including conserved cysteine active site pentapeptide motif QACQG, P20 domain and P10 domain, HLcaspase-8 also contains a characteristic DED domain. The over-expression of HLcaspase-8 in HEK293T cells showed that HLcaspase-8 protein could induce apoptosis and the apoptosis could be promoted by TNF-alpha, indicating that the apoptosis induced by HLcaspase-8 might also be triggered via a receptor-mediated pathway. Moreover, the expression of HLcaspase-8 in in vitro experiments performed in coelomocytes was significantly up-regulated by lipopolysaccharides (LPS) or polyriboinosinic-polyribocytidylic Acid [poly (I:C)] challenge, suggesting that the sea cucumber caspase-8 might play some important roles in the innate immune defense against bacterial and viral infections
Three new highly oxygenated sterols and one new dihydroisocoumarin from the marine sponge-derived fungus Cladosporium sp SCSIO41007
No full textThree new highly oxygenated sterols (1-3) and a new dihydroisocoumarin (7) together with six known compounds were isolated from the extracts of the culture of a sponge-derived fungus Cladosporium sp. SCSIO41007. The structures of all new compounds (1-3, 7) were determined by the extensive spectroscopic analysis including NMR, MS, IR, and W. Their absolute configurations were determined by X-ray single-crystal and CD data analysis. Compound 2 exhibited weak inhibitory activity against H3N2 with the IC50 value of 16.2 mu M
Newly discovered seagrass beds and their potential for blue carbon in the coastal seas of Hainan Island, South China Sea
No full textEight new seagrass beds were discovered along the coastline of Hainan Island in South China Sea with an area of 203.64 ha. The leaf N content of all seagrasses was above the median value, indicative of N limitation, with their C:N ratio recorded significantly lower than the limiting criteria. This suggested that N is not limiting but in replete status. Further, the lower C content observed in the seagrass leaves was accompanied by higher nutrient concentration. The mean seagrass biomass C was 0.23 +/- 0.16 Mg C ha(-1), while the average sediment organic carbon (SOC) stock was 7.02 +/- 3.57 Mg C ha(-1). The entire SOC stock of the newly discovered seagrass beds was 1306.45 Mg C, and the overall SOC stock of seagrass bed at Hainan Island was 40858.5 Mg C. These seagrass beds are under constant threats from sea reclamation, nutrient input, aquaculture activities for oyster and snail farming, and fishing activities
The relationship between significant wave height and Indian Ocean Dipole in the equatorial North Indian Ocean
No full textBased on reanalysis data, we find that the Indian Ocean Dipole (IOD) plays an important role in the variability of wave climate in the equatorial Northern Indian Ocean (NIO). Significant wave height (SWH) in the equatorial NIO, especially over the waters southeast to Sri Lanka, exhibits strong interannual variations. SWH anomalies in the waters southeast to Sri Lanka correlate well with dipole mode index (DMI) during both summer and autumn. Negative SWH anomalies occur over the oceanic area southeast to Sri Lanka during positive IOD events and vary with different types of IOD. During positive prolonged (unseasonable) IOD, the SWH anomalies are the strongest in autumn (summer); while during positive normal IOD, the SWH anomalies are weak in both summer and autumn. Strong easterly wind anomalies over the southeast oceanic area of Sri Lanka during positive IOD events weaken the original equatorial westerly wind stress, which leads to the decrease in wind-sea waves. The longer wave period during positive IOD events further confirms less wind-sea waves. The SWH anomaly pattern during negative IOD events is nearly opposite to that during positive IOD events
An Objective Method for Determining Ocean Mixed Layer Depth with Applications to WOCE Data
No full textA new method is developed to identify the mixed layer depth (MLD) from individual temperature or density profiles. A relative variance profile is obtained that is the ratio between the standard deviation and the maximum variation of the temperature (density) from the sea surface, and the depth of the minimum relative variance is defined as the MLD. The new method is robust in finding the MLD under the influence of random noise (noise level <= 5%). A comparison with other available methods, which include the threshold (difference, difference interpolation, gradient, and hybrid methods) and objective (curvature and maximum angle methods) methods, is carried out using the World Ocean Circulation Experiment (WOCE) data. It is found that for a variety of depth sampling resolutions ranging from 0.04 to 25 dbar, the new method and the difference-interpolation method predict MLD values that are closer to the visually inspected ones than those by other methods. Moreover, the quality index (QI) of the MLD that is determined by the new method is the highest when compared with those of the available methods. Also, the application of the new method on the WOCE global dataset yields 94% of MLD values with QI > 0.5, substantially higher than those (<= 86%) of other methods. Ultimately, it is found that the new method determines very similar MLD values when applied to temperature or density profiles globally because it identifies the base of the mixed layer rather than the uppermost depth of the thermocline. This unique advantage makes the new method applicable in many cases, especially when the density profile is unavailable
Dynamical diagnostics of the SST annual cycle in the eastern equatorial Pacific: part I a linear coupled framework
No full textThe eastern equatorial Pacific has a pronounced westward propagating SST annual cycle resulting from ocean-atmosphere interactions with equatorial semiannual solar forcing and off-equatorial annual solar forcing conveyed to the equator. In this two-part paper, a simple linear coupled framework is proposed to quantify the internal dynamics and external forcing for a better understanding of the linear part of the dynamics annual cycle. It is shown that an essential internal dynamical factor is the SST damping rate which measures the coupled stability in a similar way as the Bjerknes instability index for the El Nio-Southern Oscillation. It comprises three major negative terms (dynamic damping due to the Ekman pumping feedback, mean circulation advection, and thermodynamic feedback) and two positive terms (thermocline feedback and zonal advection). Another dynamical factor is the westward-propagation speed that is mainly determined by the thermodynamic feedback, the Ekman pumping feedback, and the mean circulation. The external forcing is measured by the annual and semiannual forcing factors. These linear internal and external factors, which can be estimated from data, determine the amplitude of the annual cycle
Fishery Appraisal of Portunus spp. (Family Portunidae) using Different Surplus Production Models from Pakistani Waters, Northern Arabian Sea
No full textAnnual catch and effort data were used to estimate the maximum sustainable yield (MSY) of Portunus spp. to evaluate the population state of crab fishery from Pakistani waters. The catch and effort data of crab fishery from 1999-2009 were obtained from and handbook of Fisheries Statistics of Pakistan. Two computer software programs CEDA and ASPIC were used which were based on surplus production models. From CEDA Fox, Schaeder and Pella-Tomlinson were used with initial proportion (IP) 0.9 were used because the starting catch was 90% of the maximum catch the MSY estimated value from Fox with three error assumptions (normal, lognormal and gamma) were 3378 (R-2=0.590), 3360 (R-2=0.582), 3369 (R-2=0.586), respectively, whereas the obtained values from Schaefer and Pella-Tomlinson with three error assumptions were 2878 (R-2=0.587), 3035 (R-2=0.578) and gamma were minimization failure (MF) in both models. The MSY estimated value from ASPIC from Fox and logistic model were 3652 (R-2=0.8) and from logistic model were 2962 (R-2=0.799), respectively. The present estimated values from surplus production models is lower than annual catch it shows that the stock of crab fishery from Pakistani waters is in overexploitation state, we may suggest to reduce the fishing efforts to sustain the crab stock from Pakistani waters for future generation
Introduction to Special Section on Oceanic Responses and Feedbacks to Tropical Cyclones
No full textTropical cyclones (TCs) are among the most destructive natural hazards on Earth. The ocean can have dramatic responses to TCs and further imposes significant feedbacks to the atmosphere. A comprehensive understanding of the ocean-TC interaction is a challenging hindrance for improving the simulation and prediction of TCs and therefore avoidance of human and economic losses. A special section of JGR-Oceans was thus organized, in order to have a broad summary of latest progress in ocean-TC interactions. This introduction presents a brief overview of the contributions found in this collection. We hope it can also shed light on recent advance and future challenges in the studies on the oceanic responses and feedbacks to TCs