Phylogenetic analysis of bacterial communities in the shrimp and sea cucumber aquaculture environment in northern China by culturing and PCR–DGGE

In this study, we investigated the bacterial communities in the shrimp and sea cucumber culture environment, including shrimp ponds (SP), sea cucumber ponds (SCP), mixed-culture ponds (MCP) and the effluent channel (EC) in Qingdao, China. Bacteria cultivation showed that the counts of heterotrophic, nitrate-reducing and sulfate-reducing bacteria in the sediment of SP were higher than that in the sediment of SCP and MCP, varying between 8.7 × 10⁴ and 1.86 × 10⁶, 2.1 × 10⁴ and 1.1 × 10⁵, and 9.3 × 10¹ and 1.1 × 10⁴ CFU g^?1, respectively. In contrast, the counts of ammonium-oxidizing and nitrifying bacteria in the sediment of SP was lower than that in the sediment of SCP and MCP. Denaturing gradient gel electrophoresis (DGGE) of 16S rDNA gene and dendrogram analyses showed that bacterial diversity in the mixed-culture environment was higher than that in the monocultures. The similarity of bacterial community between EC and SCP or MCP was higher than that between EC and SP. These results indicated that sea cucumber culture played a significant role in influencing the environmental bacterial communities that were composed mainly of Flavobacteriaceae (64.3%), Bacteriodetes (21%) and delta proteobacteria (14.7%), including the genera of Croceimarina, Lutibacter, Psychroserpens and so on. The results explained the benefit of sea cucumber culture in shrimp ponds at the level of microbial ecology.     

光合细菌FP04的筛选及对中华鳖养殖水质和生产效益的影响

从入海排污口污泥中筛选到一株有较强净化养殖水质能力的光合细菌,初步鉴定其为红螺菌,命名为FP04。实验室试验表明,FP04能有效降低养殖污水的CODcr含量。在中华鳖的养殖水体中加入不同浓度的FP04,结果与对照组比较,FP04可显著降低养殖水体中的氨氮和化学需氧量,并可减少甲鱼病害发生,提高甲鱼养殖成活率和增重率,其中以养殖水体中FP04浓度为9×104CFU/mL的效果最好,成活率和增重率分别提高14%和31%。     

Compensatory growth and body composition of juvenile black rockfish <Emphasis Type="Italic">Sebastes schlegeli</Emphasis> following feed deprivation

ABSTRACT:   Compensatory growth, feeding rate, feed efficiency and chemical composition of juvenile black rockfish (mean weight 1.43 g) were investigated for 35 days after a 14-day feed deprivation treatment under four feeding conditions: one group continuously fed (control) and the other three groups fasted for 5 days (F5), 10 days (F10) and 14 days (F14). All fasted fish were re-fed from day 15. Only F5 achieved the same body weight as the control, indicating that complete compensation occurred in F5. The specific growth rate (SGR) of F5 was the highest at day 21 and then decreased thereafter, showing higher values than the control at days 21, 28 and 42. In contrast, although SGRs of F10 and F14 were higher than that of the control during the whole refeeding period except day 21, they did not catch up the control in body mass, indicating that only partial compensation occurred in F10 and F14. The feeding rate (FR) of all groups except F14 changed in a pattern similar to SGR (Spearman's rank correlation, r _s > 0.9), suggesting that SGR varied depending on FR. Similar feeding efficiencies (FEs) were found in the four groups and they did not vary significantly during the whole refeeding period, suggesting that FE was not the factor affecting SGR. At day 14, the ratios of lipid to lean body mass in F10 and F14 were lower than those in the control and F5, and there was no difference between the control and F5. At day 49, however, only F14 showed a lower value than the other three groups, and there was no difference among the three groups. These results indicate that juvenile black rockfish fasted for 5–14 days can exhibit compensatory growth after refeeding, but timing and degree vary depending on the duration of feed deprivation.     

Upscaling as ecological information transfer: a simple framework with application to Arctic ecosystem carbon exchange

Transferring ecological information across scale often involves spatial aggregation, which alters information content and may bias estimates if the scaling process is nonlinear. Here, a potential solution, the preservation of the information content of fine-scale measurements, is highlighted using modeled net ecosystem exchange (NEE) of an Arctic tundra landscape as an example. The variance of aggregated normalized difference vegetation index (NDVI), measured from an airborne platform, decreased linearly with log(scale), resulting in a linear relationship between log(scale) and the scale-wise modeled NEE estimate. Preserving three units of information, the mean, variance and skewness of fine-scale NDVI observations, resulted in upscaled NEE estimates that deviated less than 4% from the fine-scale estimate. Preserving only the mean and variance resulted in nearly 23% NEE bias, and preserving only the mean resulted in larger error and a change in sign from CO₂ sink to source. Compressing NDVI maps by 70–75% using wavelet thresholding with the Haar and Coiflet basis functions resulted in 13% NEE bias across the study domain. Applying unique scale-dependent transfer functions between NDVI and leaf area index (LAI) decreased, but did not remove, bias in modeled flux in a smaller expanse using handheld NDVI observations. Quantifying the parameters of statistical distributions to preserve ecological information reduces bias when upscaling and makes possible spatial data assimilation to further reduce errors in estimates of ecological processes across scale.     

Changes in fox squirrel anti-predator behaviors across the urban–rural gradient

Predator stimuli created by humans in the urban environment may alter animals’ anti-predator behaviors. I hypothesized that habituation would cause anti-predator behaviors to decrease in urban settings in response to humans. Additionally, I hypothesized that populations habituated to humans would show reduced responses to other predator stimuli. I observed three populations of squirrels (urban, suburban and rural) responses to human approaches, red-tailed hawk vocalizations (Buteo jamaicensis) and coyote (Canis latrans) vocalizations. Mahalanobis distances of anti-predator behaviors in response to human approaches were consistent with the urban–rural gradient. Flight initiation distances (X ² = 26.33, df = 2, P < 0.001) and amount of time dedicated to anti-predator behavior (X ² = 10.94, df = 2, P = 0.004) in response to human approaches were also consistent with the urban–rural gradient. Supporting the habituation hypothesis, naive juvenile squirrels increased flight initiation distances (X ² = 35.89, df = 1, P < 0.001) and time dedicated to anti-predator behaviors (X ² = 9.46, df = 1, P = 0.002) relative to adult squirrels in the same urban environment. Time dedicated to anti-predator behaviors differed among all three sites in response to both coyote (X ² = 9.83, df = 2, P = 0.007) and hawk (X ² = 6.50, df = 2, P = 0.035) vocalizations. Responses to both vocalizations on rural sites (coyote = 45%, hawk = 55%) greater than twice that found on the urban sites (coyote = 11%, hawk = 20%). This is possibly the first case of a transfer of habituation demonstrated under field conditions.     

Combining top-down and bottom-up dynamics in land use modeling: exploring the future of abandoned farmlands in Europe with the Dyna-CLUE model

Land use change is the result of interactions between processes operating at different scales. Simulation models at regional to global scales are often incapable of including locally determined processes of land use change. This paper introduces a modeling approach that integrates demand-driven changes in land area with locally determined conversion processes. The model is illustrated with an application for European land use. Interactions between changing demands for agricultural land and vegetation processes leading to the re-growth of (semi-) natural vegetation on abandoned farmland are explicitly addressed. Succession of natural vegetation is simulated based on the spatial variation in biophysical and management related conditions, while the dynamics of the agricultural area are determined by a global multi-sector model. The results allow an exploration of the future dynamics of European land use and landscapes. The model approach is similarly suitable for other regions and processes where large scale processes interact with local dynamics.     

Impact of serial activation of embryonic pax2 and WT1 genes on transdifferentiation of renal tubular epithelial cells

AIM: To investigate the mechanisms of transdifferentiation of renal tubular epithelial cells by the observation of serial activation of embryonic pax2 and WT1 genes in chronic renal failure model of 5/6 nephrectomized injury. METHODS: Embryo of mice, cultured renal tubule cells and chronic renal failure rat model of 5/6 nephrectomized injury were established. The expressions of paired Box gene (pax2) and Willm’s tumor gene (WT1), as well as α-smooth muscle actin (α-SMA), a phenotype of mesenchymal cells, were detected by RT-PCR and immunohistochemistry techniques. RESULTS: (1) Expressions of pax2 and WT1 mRNA began at 11.5 d and 14 d of embryo and increased gradually, and expression in trace quantity at 2 weeks after birth. Immunohistochemistry analysis revealed that WT1 only expressed in the glomerular podocytes and expressions of pax2 and WT1 in adult renal tubular cells were negative. (2) Deno-expression of pax2 and WT1 in some tubular cells appeared at week 2 and peaked at week 4 in 5/6 nephrectomized rats, both showing a same trend of expression. However, pax2 showed another peak at week 10 afterwards. (3) Re-expressions of pax2 and WT1 in TEC at 0.5 and 24 h after treated with IL-1α (10 μg/L) or AngII (10-9 mol/L) were observed respectively, followed by upregulation of α-SMA expression, and mesenchymal cells characters were shown. The effects were inhibited by Ang II receptor 2 antagonist and WT1 antibody, respectively. CONCLUSION: Adult renal tubule cells acquire re-activation of embryonic pax2 and WT1 genes and phenotypes of mesenchymes when challenge with certain injuries. Deno-expression of pax2 and WT1 genes closely relates with high concentration of bioactive facors, such as AngII and IL-1, which are involved in the mechanisms of renal tubule cells transdifferentiation.