Classification of gilthead sea bream (Sparus aurata) from 1H NMR lipid profiling combined with principal component and linear discriminant analysis

The combination of (1)H NMR fingerprinting of lipids from gilthead sea bream (Sparus aurata) with nonsupervised and supervised multivariate analysis was applied to differentiate wild and farmed fish and to classify farmed specimen according to their areas of production belonging to the Mediterranean basin. Principal component analysis (PCA) applied on processed (1)H NMR profiles made a clear distinction between wild and farmed samples. Linear discriminant analysis (LDA) allowed classification of samples according to the geographic origin, as well as for the wild and farmed status using both PCA scores and NMR data as variables. Variable selection for LDA was achieved with forward selection (stepwise) with a predefined 5% error level. The methods allowed the classification of 100% of the samples according to their wild and farmed status and 85-97% to geographic origin. Probabilistic neural network (PNN) analyses provided complementary means for the successful discrimination among classes investigated.     

Molecular detection of sugarcane striate virus and sugarcane white streak virus and their prevalence in the Miami World Collection of sugarcane and related grasses

Viruses in the genus Mastrevirus (family Geminiviridae), including those infecting sugarcane, have natural geographical ranges almost exclusively restricted to Africa and the Indian Ocean islands off the African coast. Only sugarcane white streak virus (SWSV) in Barbados and sugarcane striate virus (SStrV) in Florida and Guadeloupe are known to infect a few sugarcane varieties in the Western Hemisphere. In this study, PCR assays were developed to detect these two viruses in sugarcane. Five hundred and seventy-one DNA samples from Saccharum species and interspecific hybrids from the Miami World Collection of sugarcane and related grasses were tested for the presence of SStrV and SWSV by PCR. No variety was found infected by SWSV but SStrV was detected in 19 varieties. PCR data were confirmed by sequencing amplified fragments (248 bp). These fragments shared 93%–100% nucleotide identity with SStrV sequences from the GenBank database. SStrV isolates were distributed in six phylogenetic groups, including the four strains of the virus. Most varieties infected by SStrV originated from Asia, thus confirming a previous hypothesis stating that this virus originated from this continent. Absence of SStrV in commercial sugarcane in Florida also suggested that this virus has not been spread in this location, while infected plants have been present for several decades.     

转Xa21基因杂交水稻选育和评价

通过基因枪转基因方法和双质粒共转化体系将Xa21基因转入优良恢复系明恢63,得到转基因系M12和M22,并进一步做田间试验、新品种选育和食用安全性评价。结果显示:M12和M22对中国的所有白叶枯病小种都表现出高度抗性,但与原受体品种明恢63相比,农艺性状上有许多变异,主要表现在:结实率、千粒重等农艺性状变差,与珍汕97A的配合力显著降低;但与温敏不育系(X07S、056S)配组的F1有较好的田间表现。通过多代回交和分子标记辅助选择,成功地将Xa21基因从M12株系转到保持系80-4B和不育系80-4A中,得到抗白叶枯病的皖21B和皖21A。并利用皖21A不育系选育出优良杂交组合抗优97(皖21A×R-18),该组合在两年区域试验和一年生产试验中产量表现突出,米质优良。对不同世代和不同遗传背景的转基因品系进行白叶枯病鉴定和Southern分析表明:Xa21基因都能稳定遗传和正常表达,连续16代的种植并没使其白叶枯病的抗性减弱或丧失,而且不论Xa21基因是纯合的还是杂合的都有相同的抗性表现。对大鼠和小鼠的饲喂试验表明:转基因大米实质上等同于非转基因大米,是安全无害的。     

Whitened kernel surface: A fast and reliable method for assessing Fusarium severity on cereal grains by digital picture analysis

Fusarium head blight (FHB) is a cereal disease of major importance responsible for yield losses and mycotoxin contaminations in grains. Here, we introduce a new measurement approach to quantify FHB severity on grains based on the evaluation of the whitened kernel surface (WKS) using digital image analysis. The applicability of WKS was assessed on two bread wheat and one triticale grain sample sets (265 samples). Pearson correlation coefficients between Fusarium‐damaged kernels (FDK) and WKS range from r = 0.77 to r = 0.81 and from r = 0.61 to r = 0.86 for the correlation between deoxynivalenol (DON) content and WKS. This new scoring method facilitates fast and reliable assessment of the resistance to kernel infection and shows significant correlation with mycotoxin content. WKS can be automated and does not suffer from the “human factor” inherent to visual scorings. As a low‐cost and fast approach, this method appears particularly attractive for breeding and genetic analysis of FHB resistance where typically large numbers of experimental lines need to be evaluated, and for which WKS is suggested as an alternative to visual FDK scorings.     

Changes in fatty acid and sterol composition during oogenesis in the pearl oyster Pinctada margaritifera

The fatty acid and sterol composition of the oyster Pinctada margaritifera during oogenesis and in eggs was analysed. No major differences were observed during oogenesis, but the egg composition was significantly different from that of gonads. The amount of saturated fatty acids was the highest in eggs and the C16:0 predominant (P<5%); by contrast, the amount of 22:6(n‐3) was significantly lower (P<5%) than in gonads. No major differences were observed for the polar lipid (PL) composition during oogenesis. The main free sterols in gonads and eggs were cholesterol and brassicasterol. Among free sterols, the proportion of cholesterol diminished continuously from the beginning to the end of gonad maturation, and this decrease persisted in eggs after spawning. Cholesterol represented 40% to 55% of the sterol ester encountered in gonad and eggs. This study allowed us to investigate the fatty acid and sterol composition during oogenesis of the pearl oyster P. margaritifera, leading to a clearer understanding of the nutritional requirements of pearl oyster during the reproduction process.     

Measurement of 5-day biochemical oxygen demand without sample dilution or bacterial and nutrient enhancement

A direct method for measuring the 5-day biochemical oxygen demand (BOD₅) of aquaculture samples that does not require sample dilution or bacterial and nutrient enrichment was evaluated. The regression coefficient (R²) between the direct method and the standard method for the analyses of 32 samples from catfish ponds was 0.996. The slope of the regression line did not differ from 1.0 or the Y-intercept from 0.0 at P = 0.05. Thus, there was almost perfect agreement between the two methods. The control limits (three standard deviations of the mean) for a standard solution containing 15 mg/L each of glutamic acid and glucose were 17.4 and 20.4 mg/L. The precision of the two methods, based on eight replicate analyses of four pond water samples did not differ at P = 0.05.     

Bottom soil quality in Tilapia ponds of different age in Thailand

Bottom soil samples were collected from 35 ponds in the vicinity of Samutprakarn, Thailand. Ponds ranged in age from 3 to 39 years and had been used continuously for production of tilapia. Liming materials had been applied in large amounts, and bottom soils of all ponds had pH above 7, low exchange acidity, and free carbonate. Pond soils often contained between 1% and 2% total sulphur, suggesting that they were potential acid–sulphate soils. However, acidity from sulphide oxidation was not expressed because carbonate in the soil neutralized it. Concentrations of total carbon seldom exceeded 4% and the average for organic carbon was 1.90%. The correlations between pond age and both total carbon and organic carbon concentration were weak (r=0.34 and 0.36 respectively). Concentrations of nitrogen in bottom soils did not differ with pond age and ranged from 0.1% to 0.3% with an average of 0.19%. The average ratio of concentrations of carbon and nitrogen was 11. Acid‐extractable phosphorus concentrations averaged 217 mg kg^?1, but the phosphorus adsorption capacity averaged 768 mg kg^?1 suggesting that soils still have considerable reserve capacity to adsorb phosphorus. Ponds can be used annually for semi‐intensive production of tilapia, and presumably other species, for many years without serious deterioration of bottom soil quality.     

Non‐spherical pearl layers in the Polynesian ‘black‐lipped’ Pinctada margaritifera: The non‐nacreous deposits compared to microstructure of the shell growing edge

Cultivated pearls frequently exhibit morphological irregularities making obvious that mineral deposition was irregularly distributed onto nucleus surface. Taking advantage of experimental cultivations with short durations (from 10 days to few months), these irregular deposits predating occurrence of the nacre were investigated in Polynesian pearls by biochemical characterizations and a series of physical methods. Diversity in the resulting data suggests that various in‐depth alterations of the biomineralization mechanism may have occurred during the grafting process, leading to diversity in the biochemical pathways to nacreous deposition. This allows a precise discussion of current views about pearl formation. The “reversed shell theory” is formally disproved through point to point comparison with development of the shell growing edge. Similarity of pearl formation with “regeneration” or “shell repair” is also discussed, emphasizing the differences between these concepts.     

Alkalinity and Hardness: Critical but Elusive Concepts in Aquaculture

Total alkalinity and total hardness are familiar variables in aquatic animal production. Aquaculturists—both scientists and practitioners alike—have some understanding of the two variables and of methods for adjusting their concentrations. The chemistry and the biological effects of alkalinity and hardness, however, are more complex than generally realized or depicted in the aquaculture literature. Moreover, the discussions of alkalinity and hardness—alkalinity in particular—found in water chemistry texts are presented in a rigorous manner and without explanation of how the two variables relate to aquaculture. This review provides a thorough but less rigorous discussion of alkalinity and hardness specifically oriented toward aquaculture. Alkalinity and hardness are defined, their sources identified, and analytical methods explained. This is followed by a discussion of the roles of the two variables in aquaculture, including their relationships with carbon dioxide, pH, atmospheric pollution, ammonia, and other inorganic nitrogen compounds, phytoplankton communities, trace metals, animal physiology, and clay turbidity. Liming and other practices to manage alkalinity and hardness are explained. Changes in alkalinity and hardness concentrations that occur over time in aquaculture systems are discussed. Emphasis is placed on interactions among alkalinity, hardness, water quality, and aquacultural production.     

Difference in factors explaining growth rate variability in European eel subpopulations: the possible role of habitat carrying capacity

As a key parameter in the management of fish populations, individual growth rate (GR) variations were examined in the European eel (Anguilla anguilla; > 150 mm) using extensive mark–recapture surveys in the lotic habitats of two small rivers of western France: the Frémur, supposed to be saturated, and at the same latitude, the Oir with densities fivefold lower than those of the Frémur. In both systems, generalised linear models were used to test whether spatiotemporal factors such as dominant habitat type or local density affect GR variability. In the presumed unsaturated system, the Oir, GR variability is mainly explained by a set of habitat suitability drivers (density, dominant habitat type). In the Frémur, GRs appear independent of differences in habitat density or productivity. Below saturation, an increase in density will decrease the GR through intraspecific competition. At saturation, intraspecific competition reaches such high levels that regardless of eel density and productivity, the resources available by individual are similar throughout the system. In these circumstances, the effect of density on growth was presumed undetectable. Despite these contrasted results, mean GRs observed in both catchments were closed (~20 mm·year^?1). This is an unexpected result as GR is expected to be higher in unsaturated systems. This similarity could be explained by the difference between the two systems in terms of: (i) sex ratio (the Frémur is dominated by male, whereas the female is dominant in the Oir), (ii) habitat type distribution or (iii) possible interspecific competition (important salmonid populations in the Oir).